A mixture of solid hydrocarbons obtained from petroleum. It has a wide range of uses including as a stiffening agent in ointments, as a lubricant, and as a topical anti-inflammatory. It is also commonly used as an embedding material in histology.
The infiltrating of tissue specimens with paraffin, as a supporting substance, to prepare for sectioning with a microtome.
The technique of using FIXATIVES in the preparation of cytologic, histologic, or pathologic specimens for the purpose of maintaining the existing form and structure of all the constituent elements.
A highly reactive aldehyde gas formed by oxidation or incomplete combustion of hydrocarbons. In solution, it has a wide range of uses: in the manufacture of resins and textiles, as a disinfectant, and as a laboratory fixative or preservative. Formaldehyde solution (formalin) is considered a hazardous compound, and its vapor toxic. (From Reynolds, Martindale The Extra Pharmacopoeia, 30th ed, p717)
Agents employed in the preparation of histologic or pathologic specimens for the purpose of maintaining the existing form and structure of all of the constituent elements. Great numbers of different agents are used; some are also decalcifying and hardening agents. They must quickly kill and coagulate living tissue.
Immunologic techniques based on the use of: (1) enzyme-antibody conjugates; (2) enzyme-antigen conjugates; (3) antienzyme antibody followed by its homologous enzyme; or (4) enzyme-antienzyme complexes. These are used histologically for visualizing or labeling tissue specimens.
Histochemical localization of immunoreactive substances using labeled antibodies as reagents.
Thinly cut sections of frozen tissue specimens prepared with a cryostat or freezing microtome.
The technique of using a microtome to cut thin or ultrathin sections of tissues embedded in a supporting substance. The microtome is an instrument that hold a steel, glass or diamond knife in clamps at an angle to the blocks of prepared tissues, which it cuts in sections of equal thickness.
The marking of biological material with a dye or other reagent for the purpose of identifying and quantitating components of tissues, cells or their extracts.
A refined petroleum fraction used as a fuel as well as a solvent.
A plastic substance deposited by insects or obtained from plants. Waxes are esters of various fatty acids with higher, usually monohydric alcohols. The wax of pharmacy is principally yellow wax (beeswax), the material of which honeycomb is made. It consists chiefly of cerotic acid and myricin and is used in making ointments, cerates, etc. (Dorland, 27th ed)
The process by which a tissue or aggregate of cells is kept alive outside of the organism from which it was derived (i.e., kept from decay by means of a chemical agent, cooling, or a fluid substitute that mimics the natural state within the organism).
The infiltrating of histological specimens with plastics, including acrylic resins, epoxy resins and polyethylene glycol, for support of the tissues in preparation for sectioning with a microtome.
Methods of preparing cells or tissues for examination and study of their origin, structure, function, or pathology. The methods include preservation, fixation, sectioning, staining, replica, or other technique to allow for viewing using a microscope.
A mixture of liquid hydrocarbons obtained from petroleum. It is used as laxative, lubricant, ointment base, and emollient.
The technique of placing cells or tissue in a supporting medium so that thin sections can be cut using a microtome. The medium can be paraffin wax (PARAFFIN EMBEDDING) or plastics (PLASTIC EMBEDDING) such as epoxy resins.
Removal of minerals from bones during bone examination.
Molecular products metabolized and secreted by neoplastic tissue and characterized biochemically in cells or body fluids. They are indicators of tumor stage and grade as well as useful for monitoring responses to treatment and predicting recurrence. Many chemical groups are represented including hormones, antigens, amino and nucleic acids, enzymes, polyamines, and specific cell membrane proteins and lipids.
In vitro method for producing large amounts of specific DNA or RNA fragments of defined length and sequence from small amounts of short oligonucleotide flanking sequences (primers). The essential steps include thermal denaturation of the double-stranded target molecules, annealing of the primers to their complementary sequences, and extension of the annealed primers by enzymatic synthesis with DNA polymerase. The reaction is efficient, specific, and extremely sensitive. Uses for the reaction include disease diagnosis, detection of difficult-to-isolate pathogens, mutation analysis, genetic testing, DNA sequencing, and analyzing evolutionary relationships.
Removal and pathologic examination of specimens in the form of small pieces of tissue from the living body.
A dye obtained from the heartwood of logwood (Haematoxylon campechianum Linn., Leguminosae) used as a stain in microscopy and in the manufacture of ink.
A technique that localizes specific nucleic acid sequences within intact chromosomes, eukaryotic cells, or bacterial cells through the use of specific nucleic acid-labeled probes.
The chromosome region which is active in nucleolus formation and which functions in the synthesis of ribosomal RNA.
Antibodies produced by a single clone of cells.
Pneumonia due to aspiration or inhalation of various oily or fatty substances.
Unctuous combustible substances that are liquid or easily liquefiable on warming, and are soluble in ether but insoluble in water. Such substances, depending on their origin, are classified as animal, mineral, or vegetable oils. Depending on their behavior on heating, they are volatile or fixed. (Dorland, 28th ed)
DNA present in neoplastic tissue.
A CELL CYCLE and tumor growth marker which can be readily detected using IMMUNOCYTOCHEMISTRY methods. Ki-67 is a nuclear antigen present only in the nuclei of cycling cells.
Study of intracellular distribution of chemicals, reaction sites, enzymes, etc., by means of staining reactions, radioactive isotope uptake, selective metal distribution in electron microscopy, or other methods.
Proteins whose abnormal expression (gain or loss) are associated with the development, growth, or progression of NEOPLASMS. Some neoplasm proteins are tumor antigens (ANTIGENS, NEOPLASM), i.e. they induce an immune reaction to their tumor. Many neoplasm proteins have been characterized and are used as tumor markers (BIOMARKERS, TUMOR) when they are detectable in cells and body fluids as monitors for the presence or growth of tumors. Abnormal expression of ONCOGENE PROTEINS is involved in neoplastic transformation, whereas the loss of expression of TUMOR SUPPRESSOR PROTEINS is involved with the loss of growth control and progression of the neoplasm.
A round-to-oval mass of lymphoid tissue embedded in the lateral wall of the PHARYNX. There is one on each side of the oropharynx in the fauces between the anterior and posterior pillars of the SOFT PALATE.
A versatile red dye used in cosmetics, pharmaceuticals, textiles, etc., and as tissue stain, vital stain, and counterstain with HEMATOXYLIN. It is also used in special culture media.
Tumors or cancer of the human BREAST.
A subspecialty of pathology concerned with the molecular basis (e.g., mutations) of various diseases.
The use of silver, usually silver nitrate, as a reagent for producing contrast or coloration in tissue specimens.
A malignant epithelial tumor with a glandular organization.
The degree of replication of the chromosome set in the karyotype.
A type of IN SITU HYBRIDIZATION in which target sequences are stained with fluorescent dye so their location and size can be determined using fluorescence microscopy. This staining is sufficiently distinct that the hybridization signal can be seen both in metaphase spreads and in interphase nuclei.
The simultaneous analysis of multiple samples of TISSUES or CELLS from BIOPSY or in vitro culture that have been arranged in an array format on slides or microchips.
A prediction of the probable outcome of a disease based on a individual's condition and the usual course of the disease as seen in similar situations.
Centers for acquiring, characterizing, and storing organs or tissue for future use.
Proteins, glycoprotein, or lipoprotein moieties on surfaces of tumor cells that are usually identified by monoclonal antibodies. Many of these are of either embryonic or viral origin.
Nuclear antigen with a role in DNA synthesis, DNA repair, and cell cycle progression. PCNA is required for the coordinated synthesis of both leading and lagging strands at the replication fork during DNA replication. PCNA expression correlates with the proliferation activity of several malignant and non-malignant cell types.
That portion of the electromagnetic spectrum from the UHF (ultrahigh frequency) radio waves and extending into the INFRARED RAYS frequencies.
A benign neoplasm composed of glandular and fibrous tissues, with a relatively large proportion of glands. (Stedman, 25th ed)
Binary classification measures to assess test results. Sensitivity or recall rate is the proportion of true positives. Specificity is the probability of correctly determining the absence of a condition. (From Last, Dictionary of Epidemiology, 2d ed)
A carcinoma derived from stratified SQUAMOUS EPITHELIAL CELLS. It may also occur in sites where glandular or columnar epithelium is normally present. (From Stedman, 25th ed)
They are oval or bean shaped bodies (1 - 30 mm in diameter) located along the lymphatic system.
3 beta,12 beta,14-Trihydroxy-5 beta-card-20(22)-enolide. A cardenolide which is the aglycon of digoxin. Can be obtained by hydrolysis of digoxin or from Digitalis orientalis L. and Digitalis lanata Ehrh.
A histochemical technique for staining carbohydrates. It is based on PERIODIC ACID oxidation of a substance containing adjacent hydroxyl groups. The resulting aldehydes react with Schiff reagent to form a colored product.
Studies used to test etiologic hypotheses in which inferences about an exposure to putative causal factors are derived from data relating to characteristics of persons under study or to events or experiences in their past. The essential feature is that some of the persons under study have the disease or outcome of interest and their characteristics are compared with those of unaffected persons.
Colloids formed by the combination of two immiscible liquids such as oil and water. Lipid-in-water emulsions are usually liquid, like milk or lotion. Water-in-lipid emulsions tend to be creams. The formation of emulsions may be aided by amphiphatic molecules that surround one component of the system to form MICELLES.
The induction of local hyperthermia by either short radio waves or high-frequency sound waves.
The study of the structure of various TISSUES of organisms on a microscopic level.
DNA probes specific for the identification of human papilloma virus.
Cytoplasmic proteins that bind estrogens and migrate to the nucleus where they regulate DNA transcription. Evaluation of the state of estrogen receptors in breast cancer patients has become clinically important.
A class of fibrous proteins or scleroproteins that represents the principal constituent of EPIDERMIS; HAIR; NAILS; horny tissues, and the organic matrix of tooth ENAMEL. Two major conformational groups have been characterized, alpha-keratin, whose peptide backbone forms a coiled-coil alpha helical structure consisting of TYPE I KERATIN and a TYPE II KERATIN, and beta-keratin, whose backbone forms a zigzag or pleated sheet structure. alpha-Keratins have been classified into at least 20 subtypes. In addition multiple isoforms of subtypes have been found which may be due to GENE DUPLICATION.
A type I keratin that is found associated with the KERATIN-4 in the internal stratified EPITHELIUM. Defects in gene for keratin 13 cause HEREDITARY MUCOSAL LEUKOKERATOSIS.
A group of heterogeneous lymphoid tumors representing malignant transformations of T-lymphocytes.
An invasive (infiltrating) CARCINOMA of the mammary ductal system (MAMMARY GLANDS) in the human BREAST.

Immunohistochemical analysis of arterial wall cellular infiltration in Buerger's disease (endarteritis obliterans). (1/1288)

PURPOSE: The diagnosis of Buerger's disease has depended on clinical symptoms and angiographic findings, whereas pathologic findings are considered to be of secondary importance. Arteries from patients with Buerger's tissue were analyzed histologically, including immunophenotyping of the infiltrating cells, to elucidate the nature of Buerger's disease as a vasculitis. METHODS: Thirty-three specimens from nine patients, in whom Buerger's disease was diagnosed on the basis of our clinical and angiographic criteria between 1980 and 1995 at Nagoya University Hospital, were studied. Immunohistochemical studies were performed on paraffin-embedded tissue with a labeled streptoavidin-biotin method. RESULTS: The general architecture of vessel walls was well preserved regardless of the stage of disease, and cell infiltration was observed mainly in the thrombus and the intima. Among infiltrating cells, CD3(+) T cells greatly outnumbered CD20(+) B cells. CD68(+) macrophages or S-100(+) dendritic cells were detected, especially in the intima during acute and subacute stages. All cases except one showed infiltration by the human leukocyte antigen-D region (HLA-DR) antigen-bearing macrophages and dendritic cells in the intima. Immunoglobulins G, A, and M (IgG, IgA, IgM) and complement factors 3d and 4c (C3d, C4c) were deposited along the internal elastic lamina. CONCLUSION: Buerger's disease is strictly an endarteritis that is introduced by T-cell mediated cellular immunity and by B-cell mediated humoral immunity associated with activation of macrophages or dendritic cells in the intima.  (+info)

Diagnosis of malignant catarrhal fever by PCR using formalin-fixed, paraffin-embedded tissues. (2/1288)

A previously described polymerase chain reaction (PCR) assay (amplification of a 238-bp fragment of ovine herpesvirus 2 [OHV-2] genomic DNA) for diagnosis of sheep-associated malignant catarrhal fever (MCF) was adapted for use on formalin-fixed, paraffin-embedded tissues. Variables affecting its use were examined. Archived tissues from cattle, white-tailed deer (Odocoileus virginianus), and bison (Bison bison) diagnosed with MCF by clinical signs or histologic lesions were obtained from 2 veterinary diagnostic laboratories. Tissues from healthy animals and from animals diagnosed with other common bovine viral diseases were examined as controls. A total of 86 blocks from 37 suspect MCF cases were examined. Forty-one blocks from healthy animals and animals with unrelated viral diseases were examined as controls. The assay was specific for sheep-associated MCF and did not yield false-positive signals from healthy animals or from cases of infectious bovine rhinotracheitis, bovine virus diarrhea, mucosal disease, or parainfluenza-3 virus infection. A wide variety of tissues were suitable substrates, including spleen, lymph node, intestine, brain, lung, and kidney. Extracted DNA provided a more suitable target than did unextracted tissue lysate. The highest levels of viral DNA were present in lymphoid organs and intestine, but the data indicate that in acute clinical cases, most organs contain sufficient viral DNA to serve as a suitable diagnostic specimen. Fixation of 0.5-cm3 blocks of tissue in 10% neutral buffered formalin was deleterious to the target DNA, and PCR signals progressively diminished after fixation for >45 days. Detection of genomic DNA of OHV-2 by PCR was successful for archived tissues that were 15 years old.  (+info)

Immunocytochemical detection of Candida albicans in formalin fixed, paraffin embedded material. (3/1288)

AIM: To assess the ability of the commercially available monoclonal antibody 1B12 (BioGenex, San Ramon, USA) to identify C albicans in formalin fixed, paraffin wax embedded material (FFPE). METHODS: Broth cultures of 20 strains of seven Candida species were resuspended in 4% agarose blocks, fixed in formalin for 24 hours, and embedded in paraffin wax. In addition, 16 blocks of FFPE tissue known to contain periodic acid-Schiff positive fungal hyphae were examined. Antigen retrieval involved microwave treatment of specimens in citrate buffer (0.01 M; pH 6.5) before addition of 1B12 antibody for 24 hours. Bound antibody was subsequently detected using a biotinylated link antibody and a peroxidase conjugated streptavidin. RESULTS: Only C albicans strains were 1B12 positive in the agarose blocks. All FFPE tissue blocks were found to contain 1B12 positive hyphal structures, indicating the presence of C albicans. CONCLUSIONS: The ability to identify candida organisms penetrating the lesional tissue in cases of chronic hyperplastic candidosis will help to clarify the role of individual Candida spp in this important form of oral candidosis.  (+info)

Detection of translocation t(11;14)(q13;q32) in mantle cell lymphoma by fluorescence in situ hybridization. (4/1288)

To assess an unequivocal diagnosis of mantle cell lymphoma (MCL), we have developed a fluorescence in situ hybridization (FISH) assay, enabling the demonstration of t(11;14)(q13;q32) directly on pathological samples. We have first selected CCND1 and IGH probes encompassing the breakpoint regions on both chromosomes. Then, we have defined experimental conditions enabling us to obtain bright clear-cut signals in all of the samples, independently of the initial fixation conditions. We have analyzed single-cell suspensions from 26 formalin-fixed, paraffin-embedded MCL samples with this set of probes. In all cases, we have found a fusion signal (ie, a t(11;14)(q13;q32) translocation) in 14% to 99% of cells (median, 87%). So far, IGH-CCND1 fusions have been detected in all of the 51 MCL patients that we have analyzed by FISH (either on paraffin-embedded tumor samples or on peripheral blood samples). Regarding the low sensitivity of other techniques used to diagnose t(11;14)(q13;q32) (ie, 70% to 75% for cytogenetics and 50% to 60% for polymerase chain reaction), our FISH assay is by far the most sensitive technique. Moreover, because of the quality of the fluorescent signals and the rapidity of the experiment, this technique is widely applicable, even in routine cytogenetics or pathology laboratories. As MCL patients are usually refractory to standard therapy, an unambiguous diagnosis is needed to propose adapted therapeutic strategies, and this highly sensitive assay may be of great value for accurate diagnosis in difficult cases.  (+info)

Evidence for two candidate tumour suppressor loci on chromosome 9q in transitional cell carcinoma (TCC) of the bladder but no homozygous deletions in bladder tumour cell lines. (5/1288)

The most frequent genetic alterations in transitional cell carcinoma (TCC) of the bladder involve loss of heterozygosity (LOH) on chromosome 9p and 9q. The LOH on chromosome 9p most likely targets the CDKN2 locus, which is inactivated in about 50% of TCCs. Candidate genes that are the target for LOH on chromosome 9q have yet to be identified. To narrow the localization of one or more putative tumour suppressor genes on this chromosome that play a role in TCC of the bladder, we examined 59 tumours with a panel of microsatellite markers along the chromosome. LOH was observed in 26 (44%) tumours. We present evidence for two different loci on the long arm of chromosome 9 where potential tumour suppressor genes are expected. These loci are delineated by interstitial deletions in two bladder tumours. Our results confirm the results of others and contribute to a further reduction of the size of these regions, which we called TCC1 and TCC2. These regions were examined for homozygous deletions with EST and STS markers. No homozygous deletions were observed in 17 different bladder tumour cell lines.  (+info)

Labeled carcinoembryonic antigen antibodies excitable by infrared rays: a novel diagnostic method for micro cancers in the digestive tract. (6/1288)

OBJECT: An indocyanine green derivative (ICG-sulfo-OSu) was used as the labeling substance for monoclonal antibody, and a fluorescence imaging system appropriate for ICG-sulfo-OSu excitable by infrared rays (IR) was developed. The goal of this study was to demonstrate antibody labeling at the tissue level using this new imaging system. MATERIALS AND METHODS: ICG-sulfo-OSu labeled mouse anti-human carcinoembryonic antigen (CEA) monoclonal antibody, a newly developed imaging system, and an infrared ray microscope were employed in this experiment. Paraffin sections of human colon cancer previously proven to have cross-reactivity to anti-CEA antibody were examined. RESULTS: Positive staining was seen as a brownish discoloration of oxidized 3,3'-diaminobenzidine tetrahydrochloride (DAB) in sections that reacted with ICG-sulfo-OSu-labeled anti-CEA antibody, and the fluorescence was well-matched with the oxidized DAB-positive sites. CONCLUSION: Specific antibodies labeled with ICG-sulfo-OSu have significant affinity to cancer cells and seem to reflect sufficient amounts of fluorescence by IR to be useful in a system for the endoscopic detection of micro cancers using the immunohistochemical staining method.  (+info)

Optimisation of DNA and RNA extraction from archival formalin-fixed tissue. (7/1288)

Archival, formalin-fixed, paraffin-embedded tissue is an invaluable resource for molecular genetic studies but the extraction of high quality nucleic acid may be problematic. We have optimised DNA extraction by comparing 10 protocols, including a commercially available kit and a novel method that utilises a thermal cycler. The thermal cycler and Chelex-100 extraction method yielded DNA capable of amplification by PCR from every block and 61% of sections versus 54% using microwave and Chelex-100, 15% with classical xylene-based extraction and 60% of sections using the kit. Successful RNA extraction was observed, by beta-actin amplification, in 83.7% sections for samples treated by the thermal cycler and Chelex-100 method. Thermal cycler and Chelex-100 extraction of nucleic acid is reliable, quick and inexpensive.  (+info)

Detection of clonal B cells in microdissected reactive lymphoproliferations: possible diagnostic pitfalls in PCR analysis of immunoglobulin heavy chain gene rearrangement. (8/1288)

AIMS: To evaluate the specificity of standard and fluorescence based (Genescan) polymerase chain reaction (PCR) immunoglobulin heavy chain (IgH) gene rearrangement analysis in complete and microdissected paraffin wax embedded sections from lymphoid proliferations. METHODS: PCR IgH gene rearrangement analysis of whole sections and microdissected fragments (n = 62) from paraffin wax embedded reactive lymph nodes (n = 6) and tonsils (n = 3). Amplificant analysis used both standard methods and automated high resolution fluorescence based quantification and size determination using GENESCAN software. RESULTS: Whole tissue sections were consistently polyclonal in control experiments. IgH gene amplification was successful in 59 of 62 microdissected fragments; only two of 59 showed a polyclonal rearrangement pattern, the remainder being oligoclonal or monoclonal. Reanalysis was possible in 33 samples; six showed reproducible bands on gel analysis and satisfied accepted criteria for monoclonality. Use of high resolution gels with Genescan analysis improved sensitivity and band definition; however, three samples still appeared to be monoclonal. CONCLUSIONS: These results confirm that PCR based IgH gene rearrangement analysis is a sensitive and specific method for demonstrating B cell clonality in whole paraffin wax embedded sections. However, oligoclonal and monoclonal rearrangement patterns are regularly encountered in small tissue fragments from otherwise unremarkable reactive lymphoproliferations, possibly because of preferential priming or detection of local B cell clones. Data from clonal analysis of small, microdissected or lymphocyte poor samples must be evaluated critically. It is recommended that analyses should be run in parallel on at least two tissue specimens. Only reproducible bands present in more than one sample should be considered to be suggestive of neoplasia.  (+info)

Aim: To compare clonal T cell receptor γ (TCRγ) gene rearrangements in frozen and formalin-fixed paraffin wax-embedded (FFPE) tissue, using capillary electrophoresis for use in diagnostics, as T cell lymphomas may be difficult to diagnose by conventional methods.. Methods: The DNA for PCR was extracted from frozen and FFPE tissue, cell lines and blood. PCR primers Vγ1-8, Vγ9, Vγ10 or Vγ11 (5′ end labelled) combined with a mixture of JγP1/JγP/JγP2/Jγ2 (unlabelled) were used. Monoclonal cases were sequenced and clonality, reproducibility, sensitivity and specificity analyses were carried out.. Results: In all cases the molecular test was found to be in agreement with the histological diagnosis. Discrepancies were found between frozen and FFPE tissue in 18 of 56 (32%) tests. The method was highly reproducible. The sensitivity was found to be 0.5% for cell lines and 1% for patient specimens and the specificity 100%. The junctional region between the Vγ and Jγ segments was specific for ...
Aims In recent years the genetic aberrations associated with diffuse large B-cell lymphoma and the new subtype described in the 2008 revision of the WHO classification, B-cell lymphoma, unclassifiable, with features intermediate between diffuse large B-cell lymphoma and Burkitt lymphoma have been increasingly well defined. Recurrent genetic abnormalities include rearrangements involving MYC (8q24), BCL2 (18q21) and BCL6 (3q27); as the prognostic and therapeutic implications associated with these abnormalities are clarified their accurate identification at diagnosis is becoming increasingly critical. We describe our experience of using a panel of fluorescence in situ hybridisation (FISH) probes on formalin-fixed paraffin-embedded tissue sections in the diagnostic work-up of 162 patients with non-Burkitt high grade B-cell non-Hodgkins lymphomas (HG-BNHL). ...
TY - JOUR. T1 - Performance comparison of two commercial human whole-exome capture systems on formalin-fixed paraffin-embedded lung adenocarcinoma samples. AU - Bonfiglio, Silvia. AU - Vanni, Irene. AU - Rossella, Valeria. AU - Truini, Anna. AU - Lazarevic, Dejan. AU - Dal Bello, Maria Giovanna. AU - Alama, Angela. AU - Mora, Marco. AU - Rijavec, Erika. AU - Genova, Carlo. AU - Cittaro, Davide. AU - Grossi, Francesco. AU - Coco, Simona. PY - 2016/8/30. Y1 - 2016/8/30. N2 - Background: Next Generation Sequencing (NGS) has become a valuable tool for molecular landscape characterization of cancer genomes, leading to a better understanding of tumor onset and progression, and opening new avenues in translational oncology. Formalin-fixed paraffin-embedded (FFPE) tissue is the method of choice for storage of clinical samples, however low quality of FFPE genomic DNA (gDNA) can limit its use for downstream applications. Methods: To investigate the FFPE specimen suitability for NGS analysis and to ...
A number of reports have recently emerged with focus on extraction of proteins from formalin-fixed paraffin-embedded (FFPE) tissues for MS analysis; however, reproducibility and robustness as compared to flash frozen controls is generally overlooked. The goal of this study was to identify and validate a practical and highly robust approach for the proteomics analysis of FFPE tissues. FFPE and matched frozen pancreatic tissues obtained from mice (n = 8) were analyzed using 1D-nanoLC-MS(MS)2 following work up with commercially available kits. The chosen approach for FFPE tissues was found to be highly comparable to that of frozen. In addition, the total number of unique peptides identified between the two groups was highly similar, with 958 identified for FFPE and 1070 identified for frozen, with protein identifications that corresponded by approximately 80%. This approach was then applied to archived human FFPE pancreatic cancer specimens (n = 11) as compared to uninvolved tissues (n = 8), where ...
Next generation sequencing (NGS) technologies have revolutionized cancer research allowing the comprehensive study of cancer using high throughput deep sequencing methodologies. These methods detect genomic alterations, nucleotide substitutions, insertions, deletions and copy number alterations. SOLiD (Sequencing by Oligonucleotide Ligation and Detection, Life Technologies) is a promising technology generating billions of 50 bp sequencing reads. This robust technique, successfully applied in gene identification, might be helpful in detecting novel genes associated with cancer initiation and progression using formalin fixed paraffin embedded (FFPE) tissue. This studys aim was to compare the validity of whole exome sequencing of fresh-frozen vs. FFPE tumor tissue by normalization to normal prostatic FFPE tissue, obtained from the same patient. One primary fresh-frozen sample, corresponding FFPE prostate cancer sample and matched adjacent normal prostatic tissue was subjected to exome sequencing. The
Next generation sequencing (NGS) technologies have revolutionized cancer research allowing the comprehensive study of cancer using high throughput deep sequencing methodologies. These methods detect genomic alterations, nucleotide substitutions, insertions, deletions and copy number alterations. SOLiD (Sequencing by Oligonucleotide Ligation and Detection, Life Technologies) is a promising technology generating billions of 50 bp sequencing reads. This robust technique, successfully applied in gene identification, might be helpful in detecting novel genes associated with cancer initiation and progression using formalin fixed paraffin embedded (FFPE) tissue. This studys aim was to compare the validity of whole exome sequencing of fresh-frozen vs. FFPE tumor tissue by normalization to normal prostatic FFPE tissue, obtained from the same patient. One primary fresh-frozen sample, corresponding FFPE prostate cancer sample and matched adjacent normal prostatic tissue was subjected to exome sequencing. The
FISH images of formalin fixed paraffin embedded sections of BAC. Red signals (white arrow heads) are indicative of the p53 gene probe, while green signals (yell
TY - JOUR. T1 - In situ hybridization. T2 - Detecting viral nucleic acid in formalin-fixed, paraffin-embedded tissue samples. AU - Mabruk, M. J E M F. PY - 2004/9. Y1 - 2004/9. N2 - In situ hybridization is a method for detecting specific nucleic acid sequences within individual cells. This technique permits visualization of viral nucleic acid or gene expression in individual cells within their histologic context. In situ hybridization is based on the complementary binding of a labeled nucleic acid probe to complementary sequences in cells or tissue sections, followed by visualization of target sequences within the cells. It has been used widely for the detection of viral nucleic acid sequences within individual cells. This review will define the technical approaches of in situ hybridization and its current application to detect viral nucleic acids within formalin-fixed, paraffin-embedded tissue samples, with special reference to the Epstein-Barr virus.. AB - In situ hybridization is a method ...
This video covers off on the challenging samples in cancer research, specifically formalin-fixed paraffin-embedded tissues. Presented by Beckman Coulter Life Sciences.
Abstract: We present a new concept, termed tissue lithography (TL), and its implementation which enables retrospective studies on formalin-fixed paraffin-embedded tissue sections. Tissue lithography uses a microfluidic probe to remove microscale areas of the paraffin layer on formalin-fixed paraffin-embedded biopsy sam
Archival formalin-fixed paraffin-embedded (FFPE) tissues represent an abundant source of clinical specimens; however their use is limited in applications involving analysis of gene expression due to RNA degradation and modification during fixation and processing. This study improved the quality of RNA extracted from FFPE by introducing a heating step into the selected extraction protocols. Further, it evaluated a novel pre-amplification system (PreAmp) designed to enhance expression analysis from tissue samples using assays with a range of amplicon size (62-164 bp). Results from the Bioanalyzer and TaqMan® data showed improvement of RNA quality extracted using the modified protocols from FFPE. Incubation at 70°C for 20 minutes was determined to be the best condition of those tested to disrupt cross-links while not compromising RNA integrity. TaqMan® detection was influenced by master mix, amplicon size and the incorporation of a pre-amplification step. TaqMan® PreAmp consistently achieved decreased
The promising results of anaplastic lymphoma kinase (ALK) inhibitors have changed the significance of ALK fusions in several types of cancer. These fusions are no longer mere research targets or diagnostic markers, but they are now directly linked to the therapeutic benefit of patients. However, most available tumor tissues in clinical settings are formalin-fixed and paraffin-embedded (FFPE), and this significantly limits detailed genetic studies in many clinical cases. Although recent technical improvements have allowed the analysis of some known mutations in FFPE tissues, identifying unknown fusion genes by using only FFPE tissues remains difficult. We developed a 5-rapid amplification of cDNA ends-based system optimized for FFPE tissues and evaluated this system on a lung cancer tissue with ALK rearrangement and without the 2 known ALK fusions EML4-ALK and KIF5B-ALK. With this system, we successfully identified a novel ALK fusion, KLC1-ALK. The result was confirmed by reverse transcription
COLOGNE, Germany - September 25, 2016: At the 28th Congress of the European Society of Pathology, Bruker today announces that it has expanded its license agreement with 3M for processing of FFPE tissue sections. Mass spectrometric imaging by MALDI-TOF (MALDI Imaging) is a technology with great potential for many applications in medicine. It is the leading mass spectrometric method for the analysis of tissues, such as Formalin Fixed Paraffin Embedded (FFPE) tissues. Bruker´s MALDI Tissuetyper™ solution makes this technology broadly applicable due to the unprecedented 10 kHz laser speed, robustness and ease of use of the underlying rapifleX™ MALDI-TOF mass spectrometer. The MALDI Tissuetyper enables anatomical pathology research based on multiplexed proteomic profiles and the spatial distribution of proteomic biomarkers on FFPE tissue sections. The MALDI Tissuetyper is used for the direct, label-free analysis of a wide range of analytes directly from tissue sections. It provides complementary ...
The storage and collection of fresh frozen tissue is by no means an easy task. Tissue sample collection and storage must conform to strict industry
Optimal reference genes for normalization of qRT-PCR data from archival formalin-fixed, paraffin-embedded breast tumors controlling for tumor cell content and decay of ...
This modified extraction protocol improves RNA and DNA yields from more precisely targeted regions of interest in histopathologic...
Advanced genomic techniques such as Next-Generation-Sequencing (NGS) and gene expression profiling, including NanoString, are vital for the development of personalised medicines, as they enable molecular disease classification. This has become increasingly important in the treatment of cancer, aiding patient selection. However, it requires efficient nucleic acid extraction often from formalin-fixed paraffin-embedded tissue (FFPE). Here we provide a comparison of several commercially available manual and automated methods for DNA and/or RNA extraction from FFPE cancer cell line samples from Qiagen, life Technologies and Promega. Differing extraction geometric mean yields were evaluated across each of the kits tested, assessing dual DNA/RNA extraction vs. specialised single extraction, manual silica column based extraction techniques vs. automated magnetic bead based methods along with a comparison of subsequent nucleic acid purity methods, providing a full evaluation of nucleic acids isolated. Out of the
Proteomic analysis of samples isolated by laser capture microdissection from clinical specimens requires sample preparation and fractionation methods suitable for small amounts of protein. Here we describe a streamlined filter-aided sample preparation (FASP) workflow that allows efficient analysis o …
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
Techniques for the extraction and use of nucleic acids from formalin‑fixed and paraffin-embedded (FFPE) tissues, preserved over long time periods in libraries, have been developed. However, DNA extracted from FFPE tissues is generally damaged, and long‑term storage may affect DNA quality. Therefore, it is important to elucidate the effect of long‑term storage on FFPE tissues and evaluate the techniques used to extract DNA from them. In the present study, the yield, purity, and integrity of DNA in FFPE tissue samples was evaluated. Two DNA extraction techniques were used: A silica‑binding DNA collection method using QIAamp DNA FFPE Tissue kit (QIA) and a total tissue DNA collection method using a WaxFree DNA extraction kit (WAX). A total of 25 FFPE tissues from lung adenocarcinomas were studied, which had been surgically resected and fixed at Okayama University Hospital prior to examination and subsequent storage at room temperature for 0.5, 3, 6, 9 and 12 years. Extracted DNA was ...
Sigma-Aldrich offers abstracts and full-text articles by [Anna Wojakowska, Łukasz Marczak, Karol Jelonek, Krzysztof Polanski, Piotr Widlak, Monika Pietrowska].
Hi colleague I use Dako polyclonal Myoglobin A0324 on formalin-fixed paraffin-embedded tissue. Dilution 1:1000 using Antibody-diluent Dako S2022 30 min. Link and label Dako LSAB K5001 each 25 min, chromogen DAB 10 min. Good luck Liv Liv Gr ntoft Departement of Forensic Medicin Universitets sjukhuset 581 85 Link ping Sweden phone +46 13 36 42 58 ...
Formalin-fixed paraffin-embedded (FFPE) archival clinical specimens are invaluable in discovery of prognostic and therapeutic targets for diseases such as cancer. However, the suitability of FFPE-derived genetic material for array-based comparative genomic hybridization (array-CGH) studies is underexplored. In this study, genetic profiles of matched FFPE and fresh-frozen specimens were examined to investigate DNA integrity differences between these sample types and determine the impact this may have on genetic profiles. Genomic DNA was extracted from three patient-matched FFPE and fresh-frozen clinical tissue samples. T47D breast cancer control cells were also grown in culture and processed to yield a fresh T47D sample, a fresh-frozen T47D sample and a FFPE T47D sample. DNA was extracted from all the samples; array-CGH conducted and genetic profiles of matched samples were then compared. A loss of high molecular weight DNA was observed in the FFPE clinical tissues and FFPE T47D samples. A dramatic
This study addresses two questions: (1) how does prevalence of prognostic biomarkers in old, archival paraffin-embedded tumor biopsy specimens obtained from 50 Asian, 50 black, and 50 white women diagnosed with breast cancer in Oakland, CCA between 1966 and 1990 compare across racial/ethnic groups and to that observed among recent paraffin-embedded specimens, and (2) what is the relationship of these biomarkers to survival, controlling for other biological and socio economic risk factors that affect survival? In Year 1, we have, as planned: (a) abstracted medical chart data on tumor characteristics and treatment for all 150 women, (b) appended these data to an existing database with the women? 5 sociodemographic and reproductive characteristics, (c) determined their vital status as of December 31, 1994, (d) located tumor blocks for 135 of these women, and (e) measured, by immunohistochemistry/image analysis, the following prognostic biomarkers: estrogen, progesterone, androgen, and epidermal growth
Compositions and methods are provided for dewaxing wax-embedded biological specimens prior to histochemical analysis. The compositions and methods provided can effectively remove wax or improved wax-based embedding materials, particularly paraffin-based, from specimens during preparation for histochemical or other diagnostic analyses, while minimizing danger to users, achieving compatibility with automated use, and maintaining compatibility with downstream histochemical analyses, particularly immunostaining. Compositions of the invention comprise a paraffin-solubilizing organic solvent, a polar organic solvent, and a surfactant. Compositions can further comprise water. The method involves contacting a wax-embedded specimen with the dewaxing composition to solubilize the wax impregnating the specimen prior to histochemical analysis. The method can comprise the further step of washing the dewaxed specimen immediately after dewaxing with an aqueous wash composition comprising a detergent to remove residual
NanoStringNorm: an extensible R package for the pre-processing of NanoString mRNA and miRNA data: Motivation: The NanoString nCounter Platform is a new and promising technology for measuring nucleic acid abundances. It has several advantages over PCR-based techniques, including avoidance of amplification, direct sequence interrogation and digital detection for absolute quantification. These features minimize aspects of experimental error and hold promise for dealing with challenging experimental conditions such as archival formalin-fixed paraffin-embedded samples. However, systematic inter-sample technical artifacts caused by variability in sample preservation, bio-molecular extraction and platform fluctuations must be removed to ensure robust data.. Results: To facilitate this process and to address these issues for NanoString datasets, we have written a pre-processing package called NanoStringNorm in the R statistical language. Key features include an extensible environment for method ...
Background: Nowadays, molecular biomarkers have critical roles for cancer diagnosis and prognosis in clinical laboratories. Human papillomaviruses are the main agents for etiology of cervical carcinoma. The present survey was conducted to evaluate the genes methylation in cervical cancer and precancerous lesions involvement with HPV genotypes. Materials and Methods: C13orf18 and C1orf166 (MUL1 or Mulan) DNA methylation as potential biomarkers and risk factors was investigated in 112 liquid based cytology and Formalin-Fixed Paraffin-Embedded tissue specimens in Iranian females with cervical intraepithelial neoplasia and dysplasia. Results: In this survey, HPV18 (61.6%) and HPV16 (42.9%) proved to be the most common HPV genotypes identified by In-House Multiplex Real Time PCR. There were no significant relationship between HPV positivity and the methylated DNA genes mentioned above (p , 0.05). Conclusions: Our MethyLight data demonstrated that these genes could not be considered as specific, ...
Background: Mucins are the major secreted glycoproteins of the gastrointestinal tract including the colorectum. Aberrant expression of MUC4 has been observed in adenocarcinomas of pancreas, gallbladder, lungs, salivary glands, and epithelial ovarian carcinomas. However, the staining patterns of MUC4 and their clinical significance in colorectal adenocarcinomas (CRCs) have not been studied. Methods: One hundred and thirty two CRC patients, who underwent surgical resection and had not received any pre- or -post surgery therapy, were selected for this study. Formalin-fixed paraffin-embedded tissue specimens from these patients were evaluated for phenotypic expression of MUC4 using anti-human MUC4 rabbit polyclonal antibody and the horse-radish peroxidase detection method. The expression levels were correlated with key clinicopathologic features and patient outcomes. Results: MUC4 was localized to the cytoplasm in the normal colonic epithelium as well as in CRCs. Based on the cytoplasmic expression, ...
Adult Minimum: 6 mL whole blood in ONE pink top tube or TWO lavender top (EDTA) tubes. Children Minimum: 3 mL whole blood in lavender top (EDTA) tube. Optional specimen type: Formalin Fixed paraffin embedded tissue; Fresh Frozen tissue. Testing on smaller volumes than those requested will be attempted. However, in some cases, small blood volumes may compromise the ability to perform testing ...
High-throughput transcriptomics has matured into a very well established and widely utilised research tool over the last two decades. Clinical datasets generated on a range of different platforms continue to be deposited in public repositories provide an ever-growing, valuable resource for reanalysis. Cost and tissue availability normally preclude processing samples across multiple technologies, making it challenging to directly evaluate performance and whether data from different platforms can be reliably compared or integrated. This study describes our experiences of nine new and established mRNA profiling techniques including Lexogen QuantSeq, Qiagen QiaSeq, BioSpyder TempO-Seq, Ion AmpliSeq, Nanostring, Affymetrix Clariom S or U133A, Illumina BeadChip and RNA-seq of formalin-fixed paraffin embedded (FFPE) and fresh frozen (FF) sequential patient-matched breast tumour samples. The number of genes represented and reliability varied between the platforms, but overall all methods provided data which
The SeqPlex RNA Amplification Kit for whole genome transcriptome amplification (WTA) is designed to facilitate next-generation sequencing (NGS) of extremely small quantities of degraded/highly fragmented RNA including non-polyA-tailed RNA. The yields from serum, single cells, RNA immunoprecipitation (RIP) or formalin-fixed paraffin-embedded tissue samples (FFPE) are often less than required for successful NGS library preparation. The SeqPlex kit allows the user to pre-amplify these RNA samples while maintaining patterns of differential expression found in the unamplified sample, prior to entering an NGS workflow.. This kit is an extension of the WTA product line and has been developed to integrate with the Illumina® (GAIIx sequencer), SOLiD™ System (from Life Technologies), Ion Torrent (from Life Technologies) and other next generation sequencing workflows.. Features and Benefits. ...
promoter differs between paraffin-fixed and fresh-frozen tissues of glioblastoma (Hamilton et al., 2011). On evaluating 38 patients with GC, LINE-1 was reportedly more hypermethylated in FFPE tissues than in paired fresh-frozen tissues (Song et al., 2016).. Since the patient tissues were dissected for different purposes, they were preserved in various forms and given different pre-treatments. For pathological examination, GC tissues were fixed with formalin and embedded in paraffin. In contrast, for genomic analysis, tissues were immediately frozen in liquid nitrogen without fixation following gastrectomy. Bisulfite conversion can be affected by formalin fixation, as sequence artifacts such as cytosine deamination can be caused by formaldehyde (Do and Dobrovic, 2015). Therefore, we screened the LINE-1 methylation patterns in each tissue type separately to determine whether LINE-1 can be used as a marker under all circumstances. In the current study, we used samples from different patient groups, ...
Hello Jamie, A friend of mine stained xenographs with an anti-VEGF that recognizes both mouse and human VEGF. She purchased this antibody from Oncogene. Sorry it took so long, but my friend returned to Germany and it was difficult to get the information. Best Regards, Matthew Ogdie InnoGenex (925)543-1414 -----Original Message----- From: Jamie Erickson [mailto:[email protected]] Sent: Friday, December 03, 1999 8:10 AM To: [email protected]; [email protected] Subject: Re: CD31? Hi Denise, Im presently working on a mouse model of angiogenisis and I have been asked to try a variety of endothelial markers. I have been using vWF (von Willibrands factor), CD31 and v-cam-1 and I-cam-1. vWF stains endothelial cells very well in formalin fixed paraffin embedded mouse skin tissue. CD31 works on paraffin tissues but what I think the researcher need is a marker for neovascularization, something like a mouse VEGF which I dont know of any? So far I have not been able to shead light on the ...
Close The Infona portal uses cookies, i.e. strings of text saved by a browser on the users device. The portal can access those files and use them to remember the users data, such as their chosen settings (screen view, interface language, etc.), or their login data. By using the Infona portal the user accepts automatic saving and using this information for portal operation purposes. More information on the subject can be found in the Privacy Policy and Terms of Service. By closing this window the user confirms that they have read the information on cookie usage, and they accept the privacy policy and the way cookies are used by the portal. You can change the cookie settings in your browser. ...
HER-2/neu oncogene amplification and overexpression of breast cancer tissue has been correlated with poor prognosis in women with both node-positive and node-negative disease. However, several studies have not confirmed this association. Review of these studies reveals the presence of considerable methodological variability including differences in study size, follow-up time, techniques and reagents. The majority of papers with clinical follow-up information are immunohistochemical studies using archival, paraffin-embedded breast cancers, and a variety of HER-2/neu antibodies have been used in these studies. Very little information, however, is available about the ability of the antibodies to detect overexpression following tissue processing for paraffin-embedding. Therefore, a series of antibodies, reported in the literature or commercially available, were evaluated to assess their sensitivity and specificity as immunohistochemical reagents. Paraffin-embedded samples of 187 breast cancers, ...
Our tissue repository contains thousands of paraffin tissue blocks, a large selection of tissue section slides of human cancer, normal tissue and rhesus normal fresh frozen tissue as well as paraffin blocks and slides. Tissue arrays (also Tissue MicroArrays or TMAs) contain up to 1000 tissue samples per microscope slide, allowing high-throughput analysis of RNA, DNA or protein molecules in diseases, which is particularly useful in biomarker research and drug target validation.
Background: To improve current treatment strategies for patients with aggressive colorectal cancer (CRC), the molecular understanding of subgroups of CRC with poor prognosis is of vast importance. SOX2 positive tumors have been associated with a poor patient outcome, but the functional role of SOX2 in CRC patient prognosis is still unclear. Methods: An in vitro cell culture model expressing SOX2 was used to investigate the functional role of SOX2 in CRC. In vitro findings were verified using RNA from fresh frozen tumor tissue or immunohistochemistry on formalin fixed paraffin embedded (FFPE) tumor tissue from a cohort of 445 CRC patients. Results: Using our in vitro model, we found that SOX2 expressing cells displayed several characteristics of cancer stem cells; such as a decreased proliferative rate, a spheroid growth pattern, and increased expression of stem cell markers CD24 and CD44. Cells expressing SOX2 also showed down-regulated expression of the intestinal epithelial marker CDX2. We ...
SR GROUP - Exporter, Importer, Manufacturer, Distributor, Supplier, Trading Company of DNA FFPE Tissue Kit Print based in Delhi, India
The identification of recurrent driver mutations by whole-exome sequencing (WES) of fresh-frozen human cancers and the subsequent development of novel targeted therapies have recently transformed the treatment of many cancers including melanoma. In routine clinical practice, fresh-frozen tissue is rarely available and mutation testing usually needs to be carried out on archival formalin fixed, paraffin embedded (FFPE) tissue, from which DNA is typically fragmented, cross-linked and of lower quality. In this study we aimed to determine whether WES data generated from genomic DNA (gDNA) extracted from FFPE tissues can be produced reliably and of clinically-actionable standard. In this study of ten melanoma patients, we compared WES data produced from analysis of gDNA isolated from FFPE tumour tissue with that isolated from fresh-frozen tumour tissue from the same specimen. FFPE samples were sequenced using both Illuminas Nextera and NimbleGen SeqCap exome capture kits. To examine mutations between the
Breast cancer still remains a major cause of morbidity and mortality among women in Qatar and worldwide. More recent studies indicate that the diversity and the composition of the entire set of antigen receptors within tumor-infiltrating lymphocytes (TILs) is strongly correlated with tumor prognosis and therapeutic response with breast cancer. Unfortunately, the relationship between somatic mutational load and TCR diversity of TILs across breast cancer still limited. For this purpose, first we characterized the somatic mutations of Formalin-Fixed Paraffin-Embedded breast cancer samples from 79 patients using NGS of a panel of cancer related genes. Second, we classified and identified the TCRß repertoire for these 11 samples using the ImmunoSEQ platform. Preliminary data demonstrated that the 11 patients had high diversity of TCRß-CDR3 within the tumors. However, there was no statistically significant association between the somatic mutational loads in the gene panels we sequenced and the ...
The goal of this study is to study NIS expression in benign and malignant breast and thyroid samples using archival formalin-fixed paraffin-embedded tissue sections.
Mannose-binding lectin (MBL) substitution: recovery of opsonic function in vivo lags behind MBL serum levels. / Brouwer, Nannette; Frakking, Florine N J; van de Wetering, Marianne D; van Houdt, Michel; Hart, Margreet; Budde, Ilona Kleine; Strengers, Paul F W; Laursen, Inga; Houen, Gunnar; Roos, Dirk; Jensenius, Jens C; Caron, Huib N; Dolman, Koert M; Kuijpers, Taco W.. In: Journal of Immunology, Vol. 183, No. 5, 2009, p. 3496-504.. Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review ...
TY - JOUR. T1 - Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples. AU - Bennike, Tue Bjerg. AU - Kastaniegaard, Kenneth. AU - Padurariu, Simona AU - Gaihede, Michael. AU - Birkelund, Svend. AU - Andersen, Vibeke. AU - Stensballe, Allan. PY - 2016. Y1 - 2016. N2 - Large biobanks exist worldwide containing formalin-fixed, paraffin-embedded samples and samples stored in RNAlater. However, the impact of tissue preservation on the result of a quantative proteome analysis remains poorly described.Human colon mucosal biopsies were extracted from the sigmoideum and either immediately frozen, stabilized in RNAlater, or stabilized by formalin-fixation. In one set of biopsies, formalin stabilization was delayed for 30 min. The protein content of the samples was characterized by high throughput quantitative proteomics.We were able to identify a similar high number of proteins in the samples regardless of preservation method, with only minor ...
Translating whole-exome sequencing (WES) for prospective clinical use may have an impact on the care of patients with cancer; however, multiple innovations are necessary for clinical implementation. These include rapid and robust WES of DNA derived from formalin-fixed, paraffin-embedded tumor tissue, analytical output similar to data from frozen samples and clinical interpretation of WES data for prospective use. Here, we describe a prospective clinical WES platform for archival formalin-fixed, paraffin-embedded tumor samples. The platform employs computational methods for effective clinical analysis and interpretation of WES data. When applied retrospectively to 511 exomes, the interpretative framework revealed a long tail of somatic alterations in clinically important genes. Prospective application of this approach identified clinically relevant alterations in 15 out of 16 patients. In one patient, previously undetected findings guided clinical trial enrollment, leading to an objective ...
Compare & find the top performing anti-Rat (Rattus) Insulin antibody for Immunohistochemistry (Formalin-fixed Paraffin-embedded Sections) (IHC (fp)).
Formalin fixed, paraffin embedded (FFPE) whole tissue sections are ideal candidates for localizing DNA, RNA and protein markers. The tissues were fixed by formalin less than 48 hours, and then processed and sectioned. Two tissue sections with 5 µm (micro, micrometer) thickness are mounted on a SuperFrost Plus glass slide. US Biomax, Inc. paraffin tissue section is suitable for detection of genes and proteins expression in specific tissues of different species.. Features ...
The first reported miRNA gene, lin-4, was described in C. elegans in 1993 [22]; the same year that the first surgical samples in this study were isolated. In a perfect world these samples would remain unchanged over time; however, it is well known that processing and storage can lead to significant RNA degradation [5, 6]. The influence of such parameters on miRNA detection and stability remains debatable.. A recent study of six miRNAs in colorectal tissue blocks stored for up to 28 years found no significant effects of sample block age on miRNA detection [12]. Similar observations were reported for miR-181b and 5S ribosomal RNA from blocks as old as ten years [8]. Deep sequencing analyses of miRNAs from multiple different types of tissue, stored for 2 to 9 years, have also found no significant change in miRNA detection with sample age [9]. In contrast, others have reported significant miRNA loss with extended FFPE block storage times. Comparison of miRNA expression from 1 to 11 year old FFPE ...
The cDNA-mediated Annealing, extension, Selection and Ligation (DASL) assay has become a suitable gene expression profiling system for degraded RNA from paraffin-embedded tissue. We examined assay characteristics and the performance of the DASL 502-gene Cancer Panelv1 (1.5K) and 24,526-gene panel (24K) platforms at differentiating nine human epidermal growth factor receptor 2- positive (HER2+) and 11 HER2-negative (HER2-) paraffin-embedded breast tumors. Bland-Altman plots and Spearman correlations evaluated intra/inter-panel agreement of normalized expression values. Unequal-variance t-statistics tested for differences in expression levels between HER2 + and HER2 - tumors. Regulatory network analysis was performed using Metacore (GeneGo Inc., St. Joseph, MI). Technical replicate correlations ranged between 0.815-0.956 and 0.986-0.997 for the 1.5K and 24K panels, respectively. Inter-panel correlations of expression values for the common 498 genes across the two panels ranged between 0.485-0.573. Inter
Zyagen : Monkey Paraffin Tissue Sections - Antibodies Kits, Reagents & Biochemical Tissue Sections RNA Products cDNA Products Genomic DNA Products Tissue Lysates Products Premade Northern Blots Premade Western Blots Recombinant Proteins & Peptides Tissue Microarrays
Paraffin Tissue Section Panel - Human Disease Tissue, Alzheimers Disease, Multi-tissue I, 7 different tissues - BioChain Institute Inc.
TY - JOUR. T1 - Diagnostic utility of thyroid transcription factor-1 expression in adenocarcinomas presenting in serous fluids. AU - Afify, Alaa M. AU - Al-Khafaji, Basim M.. PY - 2002. Y1 - 2002. N2 - OBJECTIVE: To evaluate the diagnostic utility of the immunohistochemical expression of thyroid transcription factorr-1 (TTF-1) in adenocarcinomas from serous fluid specimens. STUDY DESIGN: Archival paraffin-embedded cell blocks of serous fluids from 82 cases, including 34 cases of metastatic lung adenocarcinoma, 12 of metastatic ovarian adenocarcinoma, 12 of metastatic breast adenocarcinoma, 12 of metastatic gastrointestinal adenocarcinoma and 12 of malignant mesothelioma, were immunostained with anti-TTF-1. All the staining was carried out using a Ventana Automated System. Staining was evaluated according to the intensity of the nuclear staining (1+ to 4+) by two observers. RESULTS: Of the metastatic lung adenocarcinomas, 79% (27/34) expressed 3+ to 4+ reactivity against TTF-1. None of the ...
Rizzardi AE, Johnson AT, Vogel RI, Pambuccian SE, Henriksen J, Skubitz AP, Metzger GJ, Schmechel SC.. Abstract: Immunohistochemical (IHC) assays performed on formalin-fixed paraffin-embedded (FFPE) tissue sections traditionally have been semi-quantified by pathologist visual scoring of staining. IHC is useful for validating biomarkers discovered through genomics methods as large clinical repositories of FFPE specimens support the construction of tissue microarrays (TMAs) for high throughput studies. Due to the ubiquitous availability of IHC techniques in clinical laboratories, validated IHC biomarkers may be translated readily into clinical use. However, the method of pathologist semi-quantification is costly, inherently subjective, and produces ordinal rather than continuous variable data. Computer-aided analysis of digitized whole slide images may overcome these limitations. Using TMAs representing 215 ovarian serous carcinoma specimens stained for S100A1, we assessed the degree to which data ...
Predicting malignancy is important for adequate adjuvant therapy in patients with cancer. Due to cancer being a genetic disease, the detection of gene mutations could be helpful in predicting the prognosis and efficacy of drugs. Gastric cancer is the fifth most common cancer and is the third leading cause of cancer associated mortality worldwide. Mutations in genes may correlate with clinical information in patients with gastric cancer after surgery and, therefore, may be useful for predicting the prognosis of this disease. In the present study, to assess the usefulness of a commercial sequencing panel, TruSeq® Amplicon‑Cancer Panel (Illumina), using a next‑generation sequencer (Illumina MiSeq), mutation analysis of fresh as well as formalin‑fixed paraffin‑embedded (FFPE) gastric cancer tissues was performed retrospectively. The study group comprised of 4 patients who underwent gastrectomy for gastric cancer. Cancer and normal stomach tissues were collected immediately following ...
Only patients with available archival tumor tissue must consent to provision of, and Investigator(s) must confirm access to and agree to submit a representative formalin fixed paraffin block of tumor tissue in order that the specific correlative marker assays (Correlative Studies) of this protocol may be conducted. Submission of the tissue does not have to occur prior to randomization. Where local center regulations prohibit submission of blocks of tumor tissue, two 2 mm cores of tumor from the block and 5-20 unstained slides of whole sections of representative tumor tissue are preferred. Where it is not possible to obtain two 2 mm cores of tumor from the block, 5-20 unstained slides of representative tumor tissue are also acceptable. Where no previously resected or biopsied tumor tissue exists or is available, on the approval of the Sponsor/designated CRO, the patient may still be considered eligible for the study ...
TATAA Biocenter is a Certified Service Provider for the 3D-Gene® instrument from Toray Industries.. TATAA Biocenter offers microarray analysis of miRNA on a novel microarray technology, the 3D-Gene™ from Toray Industries. It provides unprecedented sensitivity and reproducibility for microRNA analysis.. 3D-Gene™ DNA chips utilize patented resin slides to minimize background noise and microbead agitation technology to improve hybridization. Its unique 3D micro column structure define each spot to 100 µm in diameter for increased accuracy. It ensures a 100-fold increase in sensitivity and is ideal for challenging samples and low abundance targets. 3D-Gene™ is thus ideal for analyses of formalin fixed paraffin embedded (FFPE) tissue samples. This innovative technology also makes it possible to measure genes expressed at very low levels that might be undetected by other array platforms on the market.. 3D-Gene™ Human miRNA chips are constructed using the latest information available from ...
The gSYNC™ DNA Extraction Kit is a genomic DNA extraction kit optimized for genomic, mitochondrial and virus DNA purification from whole blood (fresh blood and frozen blood), serum, plasma, buffy coat, body fluids, cultured cells, tissue, rodent tails, ear punches, formalin-fixed paraffin-embedded tissue (FFPE), amniotic fl
Joshua Ejdelman is the author of this article in the Journal of Visualized Experiments: Preparation of Formalin-fixed Paraffin-embedded Tissue Cores for both RNA and DNA Extraction
For the study, the researchers tested the MDx platform in 79 archived tumor samples with BRAF mutation status established using the CLIA-approved method. The team used formalin-fixed paraffin-embedded tumor samples (1x to 5x of 10 μm shavings) from advanced cancer patients who had tested positive for V600 mutations using fPCR-based sequencing at CLIA-certified molecular diagnostic laboratory. Agreement between the MDx platform and the certified laboratorys results were then compared, and different methods and treatment outcomes with BRAF/MEK inhibitors were also analyzed.. The CLIA-approved method was in agreement for 75 of the samples. In all, 34 samples were from melanoma patients, 20 from colorectal cancer patients, six from papillary thyroid cancer, and 15 from patients with other cancers.. A total of 49 samples were V600 mutation-positive and 30 were wild-type BRAF mutations. In 70 patients the same tissue block was used for both MDx and CLIA samples, and agreement was found in 67. We ...
The role of tumor-associated macrophages (TAMs) in the cancer immune landscape and their potential as treatment targets or modulators of response to treatment are gaining increasing interest. TAMs display high molecular and functional complexity. Therefore their objective assessment as breast cancer biomarkers is critical. The aims of this study were to objectively determine the in situ expression and significance of TAM biomarkers (CD68, CD163, and MMP-9) in breast cancer and to identify subclasses of patients who could benefit from TAM-targeting therapies. We measured CD68, CD163, and MMP-9 protein expression in formalin-fixed paraffin-embedded tissues of breast carcinomas represented in tissue microarray format using multiplexed quantitative immunofluorescence (QIF) in two independent Yale cohorts: cohort A-n = 398, estrogen receptor-positive (ER+) and ER− cases-and the triple-negative breast cancer (TNBC)-only cohort B (n = 160). Associations between macrophage markers, ER status, and survival
Gene expression mapping using microarray analysis has identified useful gene signatures for predicting outcome. However, little of this has been translated into clinically effective diagnostic tools as microarrays require high quality fresh-frozen tissue samples. We describe a methodology of multiplexed in situ hybridization (ISH) using a novel combination of quantum dot (QD)-labeled oligonucleotide probes and spectral imaging analysis in routinely processed, formalin-fixed paraffin embedded human biopsies. The conditions for QD-ISH were optimized using a poly d(T) oligonucleotide in decalcified bone marrow samples. Single and multiplex QD-ISH was performed in samples with acute leukemia and follicular lymphoma using oligonucleotide probes for myeloperoxidase, bcl-2, survivin, and XIAP. Spectral imaging was used for post hybridization tissue analysis, enabling separation of spatially colocalized signals. The method allows quantitative characterization of multiple gene expression using ...
The application of second generation sequencing techniques on small amounts of FFPE material opens up the possibility to analyze tissue samples which have been collected during routine clinical work as well as in the context of clinical trials. This is in particular important since FFPE samples are …
The archives of formalin-fixed, paraffin-embedded (FFPE) tissue sections represent a valuable and extensive source of material for biomedical research, however, DNA derived from FFPE samples is usuallyl highly degraded and cross-linked due to fixation. This section describes innovative REPLI-g technology that enables the successful amplification of fragmented and FFPE DNA samples.
Diagnosis and prognosis of breast cancer are still mainly based on clinical, histological and immunohistochemical parameters, which are at best semi-quantitative [1, 2]. Recently, molecular characterization of breast cancer has greatly increased the understanding of biological pathways that are altered during neoplastic transformation. Molecular markers have a great impact on elucidating the biological variance within tumors, they allow new and more accurate classifications and they have the potential to improve diagnosis, estimation of prognosis and treatment decisions in individual patients [3-6].. Most gene expression studies are based on fresh frozen material which, in most instances, is not readily available, as surgical samples are usually fixed in formalin. Unfortunately, RNA derived from formalin-fixed, paraffin-embedded (FFPE) material is considerably fragmented and chemically modified, often impairing gene expression measurement using standard procedures. We developed a simple and ...
Paraffin-embedded Tissue Fragment Suspension (PETFS): A Novel Method for Quality Control Preparation in Immunohistochemistry Academic Article ...
Fingerprint Dive into the research topics of The effect of fixation type on DNA extracted from paraffin-embedded tissue for PCR studies in dermatopathology. Together they form a unique fingerprint. ...
Novus offers a wide range of antibodies for immunohistochemistry on paraffin sections. View our catalog of IHC-P products plus protocols and tips.
Novus offers a wide range of antibodies for immunohistochemistry on paraffin sections. View our catalog of IHC-P products plus protocols and tips.
Typing of skeletal muscle fibers in paraffin embedded sections". Histochemistry. 83 (3): 231-5. doi:10.1007/bf00953989. PMID ...
"Sectioning of paraffin-embedded tissue protocol , Abcam". www.abcam.com. Retrieved 2019-05-19. "Embedding , National ... This process is called embedding. The substance used to embed tissue is embedding media, which is chosen depends on the ... Paraffin wax, whose melting point is from 56 to 62℃, is commonly used for embedding. Main article: Histology Since few plant ... A tissue specimen can keep for several years after finishing embedding this tissue into the wax. Paraffin wax, which is soft ...
The test is run on formalin fixed, paraffin-embedded tissue. Oncotype results are reported as a Recurrence Score (RS), where a ... The test is run on formalin fixed, paraffin-embedded tissue. MammaPrint traditionally used rapidly frozen tissue but a room ... October 2005). "Gene expression profiles in paraffin-embedded core biopsy tissue predict response to chemotherapy in women with ...
Poul Prentø (1978). "Rapid dehydration--clearing with 2,2-dimethoxypropane for paraffin embedding". J. Histochem. Cytochem. 26 ...
Frozen and paraffin embedded archival tissue may also be used. Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z, ...
Formalin-fixed and paraffin-embedded inputs can also be used. In the specific protocol steps, there are also some limitations. ...
The cut sections are mounted by embedding in paraffin or frozen medium. The cut edge is then thinly sliced with a microtome or ...
... paraffin-embedded cancer tissue". Proceedings of the National Academy of Sciences. 110 (29): 11982-11987. Bibcode:2013PNAS.. ...
... paraffin-embedded cancer tissue". Proceedings of the National Academy of Sciences. 110 (29): 11982-11987. Bibcode:2013PNAS.. ...
For light microscopy, paraffin wax is the most frequently used embedding material. Paraffin is immiscible with water, the main ... However, extraction and analysis of nucleic acids and proteins from formalin-fixed, paraffin-embedded tissues is possible using ... and formalin-fixed paraffin-embedded human tissue samples". EuPA Open Proteomics. 10: 9-18. doi:10.1016/j.euprot.2015.10.001. ... reported that he had for some years embedded his specimens in paraffin. The 1906 Nobel Prize in Physiology or Medicine was ...
Engbaek, K; Johansen, KS; Jensen, ME (February 1979). "A new technique for Gram staining paraffin-embedded tissue". Journal of ...
Many antigens can be successfully demonstrated in formalin-fixed paraffin-embedded tissue sections. However, some antigens will ... difficulty in cutting over paraffin sections, and the need for frozen storage. Alternatively, vibratome sections do not require ...
Because SNP array karyotyping can be performed on paraffin embedded tumors, it is an attractive option when tumor cells fail to ... Array-based karyotyping performs well on paraffin embedded tumors and is amenable to routine clinical use. In addition, recent ... CLIA-certified laboratories offering testing on tumors include Creighton Medical Laboratories (fresh and paraffin embedded ... "Optimization of the Affymetrix GeneChip Mapping 10K 2.0 Assay for Routine Clinical Use on Formalin Fixed Paraffin Embedded ...
paratuberculosis in paraffin embedded tissues from animals with Johne's disease by in situ hybridization". J. Microbiol. ...
Summersgill, B. M.; Shipley, J. M. (2010). "Fluorescence in Situ Hybridization Analysis of Formalin Fixed Paraffin Embedded ... "Chromogenic in situ hybridization and p16/Ki67 dual staining on formalin-fixed paraffin-embedded cervical specimens: ... Tissue samples are securely attached to a surface, which is usually a glass slide, with paraffin. The tissue samples must then ... be washed and heated several times to remove any paraffin before the hybridization step. After this, the sample has to undergo ...
... an immunohistochemical study in paraffin-embedded tissues". Modern Pathology. 13 (9): 988-993. doi:10.1038/modpathol.3880179. ...
In more conventional paraffin-embedded tissue samples, only the FDCs retain the staining pattern. As a result, CR2, more ...
Lau SK, Chu PG, Weiss LM (November 2004). "CD163: a specific marker of macrophages in paraffin-embedded tissue samples". ...
He developed a technique to embed plant material in paraffin to make fine cross-sections; he was one of the first if not the ...
holding more than 4.5 million biological samples preserved in formalin and embedded in paraffin wax. These historic samples are ...
Array-based karyotyping performs well on paraffin embedded tumours and is amenable to routine clinical use. See also Virtual ... "Optimization of the Affymetrix GeneChip Mapping 10K 2.0 Assay for routine clinical use on formalin-fixed paraffin-embedded ...
For formalin-fixed paraffin-embedded tissues, antigen-retrieval is often necessary, and involves pre-treating the sections with ... Before sectioning, the tissue sample may be embedded in a medium, like paraffin wax or cryomedia. Sections can be sliced on a ... staining and troubleshooting Immunofluorescent Staining of Paraffin-Embedded Tissue (IF-P) IHC Tip 1: Antigen retrieval - ...
... and formalin-fixed paraffin-embedded human colon mucosal biopsies". Data in Brief. 6: 942-947. doi:10.1016/j.dib.2016.01.061. ... and formalin-fixed paraffin-embedded human tissue samples". EuPA Open Proteomics. 10: 9-18. doi:10.1016/j.euprot.2015.10.001. ... "RNA extraction from ten year old formalin-fixed paraffin-embedded breast cancer samples: a comparison of column purification ...
An alternative method for confirming a UHS diagnosis molecularly is by embedding UHS hairs into paraffin. Due to the atypical ...
CHPs can stain frozen tissue sections, formalin-fixed paraffin embedded (FFPE) sections, as well as fresh tissues. CHP is ...
"Evaluation of extraction methods from paraffin wax embedded tissues for PCR amplification of human and viral DNA". Journal of ...
The company has also developed a microRNA extraction protocol from Formalin Fixed Paraffin Embedded, or FFPE, samples. This ...
"Analysis of DNA Methylation of Multiple Genes in Microdissected Cells From Formalin-fixed and Paraffin-embedded Tissues". ...
Examples of organic solids include wood, paraffin wax, naphthalene and a wide variety of polymers and plastics. Wood is a ... Wood is a natural organic material consisting primarily of cellulose fibers embedded in a matrix of organic lignin. In ... producing both amorphous and crystalline phases so that crystalline grains are embedded within a non-crystalline intergranular ... natural organic material consisting primarily of cellulose fibers embedded in a matrix of lignin. Regarding mechanical ...
ISBN 978-0-7637-0192-5. Di Scipio, F.; Raimondo, S.; Tos, P.; Geuna, S. (2008). "A simple protocol for paraffin-embedded myelin ... It embeds a heavy metal directly into cell membranes, creating a high electron scattering rate without the need for coating the ...
Cells, circulating tumor cells (CTCs), or formalin-fixed paraffin-embedded (FFPE) or frozen tissue sections are fixed, then ...
RT-PCR detection of SYT-SSX1/2 fusion transcripts in paraffin-embedded tissue". Med. Sci. Monit. 11 (3): MT1-7. PMID 15735574. ...
... a specific stain for mitochondria in formalin-fixed and paraffin-embedded human tissues". The Journal of Histochemistry and ...
Clearing agents are liquids miscible with alcohols (such as ethanol or isopropanol) and with melted paraffin wax, in which ... specimens are embedded to facilitate cutting of thin sections for microscopy.[19][20][21] In traditional medicine, D-limonene ... "Evaluation of Xylene Substitutes For A Paraffin Tissue Processing". Journal of Histotechnology (2): 143-9. doi:10.1179/ ...
Hydrocarbon bases, e.g., ceresine, microcrystalline wax, hard paraffin, and soft paraffin ... Lemon juice embedded in a sponge has been used as a primitive contraception in some cultures. ...
Wood is a natural organic material consisting primarily of cellulose fibers embedded in a matrix of organic lignin. In ... Examples of organic solids include wood, paraffin wax, naphthalene and a wide variety of polymers and plastics. ... Wood is a natural organic material consisting primarily of cellulose fibers embedded in a matrix of lignin. Regarding ... producing both amorphous and crystalline phases so that crystalline grains are embedded within a non-crystalline intergranular ...
"Digital Sorting of Pure Cell Populations Enables Unambiguous Genetic Analysis of Heterogeneous Formalin-Fixed Paraffin-Embedded ...
The classical tools for studying tissues are the paraffin block in which tissue is embedded and then sectioned, the ...
The quality of the slides produced by frozen section is of lower quality than formalin fixed paraffin embedded tissue ... Tissue embedded within OCT, mounted on a chuck in a cryostat and ready for section production ... The specimen is embedded in a gel like medium called OCT and consisting of poly ethylene glycol and polyvinyl alcohol; this ... and minimal ventilation is required compared to a standard wax embedded specimen laboratory. ...
Potassium pearls under paraffin oil. Size of the largest pearl is 0.5 cm. ... for example embedding particles in plastic to make strong, hard-wearing, low-friction plastic gears. Other potential ... involved become delocalised and the atomic structure of a metal can effectively be visualised as a collection of atoms embedded ...
... from culture and paraffin-embedded tissue samples". Int J Med Microbiol. 301 (7): 585-90. doi:10.1016/j.ijmm.2011.04.017. PMID ...
Some records are pressed on colored vinyl or with paper pictures embedded in them ("picture discs"). Certain 45 rpm RCA or RCA ... stearin and paraffin, among other ingredients. Cut "wax" sound discs would be placed in a vacuum chamber and gold-sputtered to ...
Pieces of tissue may be embedded in paraffin wax to increase their mechanical strength and stability and to make them easier to ...
"MALDI Imaging Mass Spectrometry Profiling of N-Glycans in Formalin-Fixed Paraffin Embedded Clinical Tissue Blocks and Tissue ...
"Polymerase chain reaction screening for DNA viruses in paraffin-embedded brains from dogs with necrotizing meningoencephalitis ...
Her brain, after being removed from the skull, was first scanned using an MRI machine, then embedded in paraffin and sliced ...
Clearing agents are liquids miscible with alcohols (such as ethanol or isopropanol) and with melted paraffin wax, in which ... specimens are embedded to facilitate cutting of thin sections for microscopy.[17][18][19] ... "Evaluation of Xylene Substitutes For A Paraffin Tissue Processing". Journal of Histotechnology (2): 143-149. doi:10.1179/ ...
Virtual karyotyping can be performed on fresh or paraffin-embedded tumors to assess copy number at these loci. SNP array ...
... a specific stain for mitochondria in formalin-fixed and paraffin-embedded human tissues". J. Histochem. Cytochem. 33 (5): 446- ...
Some pebble-bed reactors' moderators are not only simple, but also inexpensive:[citation needed] the nuclear fuel is embedded ... Hydrogen combined with carbon as in paraffin wax was used in some early German experiments. ... Classically, moderators were precision-machined blocks of high purity graphite[7][8] with embedded ducting to carry away heat. ...
Ionic species are added to the solution and remain embedded in the gel after polymerization. Ni/MH batteries of bipolar design ... The polymer resins are first mixed with, paraffin oil, antioxidant and other additives. The mixture is heated to produce a ...
... during which tissue samples are bathed in alcohol and xylene and then embedded in paraffin wax. When viewed under the ...
Tiny artificial muscles composed of twisted carbon nanotubes filled with paraffin are 200 times stronger than human muscle. ... braided/netted or embedded membranes and stretching membranes or rearranging membranes. Among the most commonly used PAMs today ...
For formalin-fixed paraffin-embedded tissues, antigen-retrieval is often necessary, and involves pre-treating the sections with ... Before sectioning, the tissue sample may be embedded in a medium, like paraffin wax or cryomedia. Sections can be sliced on a ...
... frequency and transcript variant analysis by RT-PCR and FISH on paraffin-embedded tissues". Modern Pathology. 20 (9): 921-8. ...
They usually consist of an embedded hardware unit connected to a pair of headphones and a feedback button, sometimes controlled ... and other additives like paraffin or petroleum solvents to aid in ignition. The design of the charcoal briquette was invented ...
The next morning the paraffin-impregnated specimen was embedded in a larger block of molten paraffin. Then the block was ... M. tuberculosis in Lymph Node Biopsy Paraffin-Embedded Sections. Abdurehman Eshete, Ahmed Zeyinudin, Solomon Ali, Solomon Abera ... Table 1: Sex distribution of Ziehl-Neelsen-stained paraffin-embedded lymph node biopsy sections by anatomical site and age, ... To evaluate the magnitude of M. tuberculosis from lymph node biopsy paraffin-embedded sections among suspected patients ...
... Zhonglin Chai Zhonglin.Chai at baker.edu.au Thu Jan 11 17:36:18 EST ... Hello Everyone, I am attempting to pcr from paraffin sections and have problem to get it to work. I have found a few messages ... The DNA extraction methods are similarly based on removal of paraffin using Xylene/ethanol, Digestion of proteins using ...
Formalin-Fixed Paraffin-Embedded Tissues: Methods and Protocols collects contributions from expert researchers in order to ... Formalin-Fixed Paraffin-Embedded Tissues. Book Subtitle. Methods and Protocols. Editors. * Fahd Al-Mulla ... Authoritative and accessible, Formalin-Fixed Paraffin-Embedded Tissues: Methods and Protocols serves as a practical guide for ... Formalin-Fixed Paraffin-Embedded Tissues. Methods and Protocols. Editors: Al-Mulla, Fahd (Ed.) ...
Highly multiplexed single-cell analysis of formalin-fixed, paraffin-embedded cancer tissue. Michael J. Gerdes, Christopher J. ... Highly multiplexed single-cell analysis of formalin-fixed, paraffin-embedded cancer tissue ... and subcellular characterization of multiple analytes in formalin-fixed paraffin-embedded tissue. Chemical inactivation of ...
"Paraffin Embedding" by people in Harvard Catalyst Profiles by year, and whether "Paraffin Embedding" was a major or minor topic ... "Paraffin Embedding" is a descriptor in the National Library of Medicines controlled vocabulary thesaurus, MeSH (Medical ... Melzi E, Rocchi MS, Entrican G, Caporale M, Palmarini M. Immunophenotyping of Sheep Paraffin-Embedded Peripheral Lymph Nodes. ... Utility of Histologic and Histochemical Screening for 16S Ribosomal RNA Gene Sequencing of Formalin-Fixed, Paraffin-Embedded ...
Indeed, analysis of paraffin-embedded tissue has proven superior to the study of cryo sections. Though, under favourable ... Indeed, analysis of paraffin-embedded tissue has proven superior to the study of cryo sections. Though, under favourable ... Immunodetection of NETs in Paraffin-Embedded Tissue. Volker Brinkmann1*, Ulrike Abu Abed1,2, Christian Goosmann1 and Arturo ... Indeed, analysis of paraffin-embedded tissue has proven superior to the study of cryo sections. Though, under favorable ...
FFPET stands for Formalin-Fixed Paraffin-Embedded Tissue. FFPET is defined as Formalin-Fixed Paraffin-Embedded Tissue somewhat ... How is Formalin-Fixed Paraffin-Embedded Tissue abbreviated? ... on AE patients and on formalin-fixed paraffin-embedded tissue ( ... they discuss an optimized RNA extraction method from archival formalin-fixed paraffin-embedded tissue, double immuno- ... n.d.) Acronym Finder. (2021). Retrieved February 25 2021 from https://www.acronymfinder.com/Formalin_Fixed-Paraffin_Embedded- ...
In this study, we prepared total RNA from paired samples of formalin-fixed paraffin-embedded (FFPE) and fresh frozen malignant ... MicroRNA expression profiling outperforms mRNA expression profiling in formalin-fixed paraffin-embedded tissues.. Liu A1, ... MicroRNA Expression Profiling Outperforms mRNA Expression Profiling in Formalin-fixed Paraffin-embedded Tissues ... MicroRNA Expression Profiling Outperforms mRNA Expression Profiling in Formalin-fixed Paraffin-embedded Tissues ...
Archived formalin-fixed and paraffin-embedded (FFPE) tissue collections represent invaluable resources for studying ... Figure 1. DNA extraction from formalin-fixed and paraffin-embedded tissue. Modified procedure using commercially available kit ... Whole Gene Amplification from Archived Formalinfixed, Paraffin-embedded Tissues. Application Notes. *High yield from limited ... Whole Gene Amplification from Archived Formalinfixed, Paraffin-embedded Tissues. By: Rosemarie Walter,† James Eliason,†* Yezhou ...
Visit CellSignal.com to view our Immunohistochemistry materials including Paraffin-embedded IHC & more. CST - Customer ... IF-paraffin (5) IHC-paraffin (8) Immunofluorescence (Immunocytochemistry) (28) Immunohistochemistry (Frozen) (2) Western blot ( ...
G. Stanta, S. Bonin, and R. Perin, "RNA extraction from formalin-fixed and paraffin-embedded tissues," Methods in Molecular ... S. K. Penland, T. O. Keku, C. Torrice et al., "RNA expression analysis of formalin-fixed paraffin-embedded tumors," Laboratory ... F. Lewis, N. J. Maughan, V. Smith, K. Hillan, and P. Quirke E, "Unlocking the archive-gene expression in paraffin-embedded ... T. E. Godfrey, S. H. Kim, M. Chavira et al., "Quantitative mRNA expression analysis from formalin-fixed, paraffin-embedded ...
Proteome of formalin-fixed paraffin-embedded pancreatic ductal adenocarcinoma and lymph node metastases.. Naidoo K1, Jones R, ... As frozen specimens of metastatic lesions are scarce, we examined formalin-fixed paraffin-embedded (FFPE) tissues. This poses ...
1. Prepare tissue with formalin fixation and by embedding it in paraffin wax.. 2. Make 4-mm sections and place on pre-cleaned ... Home » Immunohistochemistry-Paraffin Embedded Sections (NB110-40766). Immunohistochemistry-Paraffin Embedded Sections (NB110- ...
... uncharged paraffin-embedded slides: nebarvené, nesušené parafinové řezy na obyčejných sklíčkách [Medical (general) (Medical)]. ... uncharged paraffin-embedded slides. The pathologist agrees to carefully, prepare xxx unstained, unbaked, uncharged paraffin- ... unstained, unbaked, uncharged paraffin-embedded slides. Czech translation:. nebarvené, nesušené parafinové řezy na obyčejných ... unstained, unbaked, uncharged paraffin-embedded slides. Czech translation: nebarvené, nesušené parafinové řezy na obyčejných ...
Both paraffin-embedded tissue specimens and buccal cells are excellent resources for large-scale molecular epidemiological ... For paraffin-embedded tissue specimens, amplification of the beta-globin gene sequence was successful in 30 of 34 (88.2%) by ... Comparison of methods for DNA extraction from paraffin-embedded tissues and buccal cells Cancer Detect Prev. 2003;27(5):397-404 ... Both paraffin-embedded tissue specimens and buccal cells are excellent resources for large-scale molecular epidemiological ...
Drain off 2:1 EMbed-812:P.O. and place slides on a flat surface. Put a few drops of EMbed-812 on the sections and incubate for ... Routine TEM Processing and Embedding Protocol for Paraffin Sections Mounted on Slides. ... Paraffin sections mounted on slides, air dry overnight, and then dry in 50 C oven for 1 hour. The thickness of section should ... Method 2: Place slide on top of an Aclar Embedding Film (EMS Cat# 50425-10), make sure the size of the film is larger than the ...
These include rapid and robust WES of DNA derived from formalin-fixed, paraffin-embedded tumor tissue, analytical output ... Here, we describe a prospective clinical WES platform for archival formalin-fixed, paraffin-embedded tumor samples. The ... paraffin-embedded tumor tissues. Using a newly created WES clinical interpretation algorithm, they apply the complete clinical ... These include rapid and robust WES of DNA derived from formalin-fixed, paraffin-embedded tumor tissue, analytical output ...
Home » Immunohistochemistry-paraffin embedded sections protocol (NB110-40763). Immunohistochemistry-paraffin embedded sections ...
An important choice to be made is whether to carry out IHC on formalin-fixed, paraffin-embedded samples (IHC-P) or on fresh ... Tissue samples may be embedded in paraffin wax or frozen before being cut into thin slices and mounted onto slides for analysis ... Immunohistochemistry Protocol for Paraffin-embedded Tissue Sections - ADVERTISEMENT. Katie Crosby1, Jessica Simendinger1, ... The IHC protocol optimized for paraffin-embedded samples is detailed in this article so that you can replicate the procedure ...
... paraffin-embedded specimens. Download Prime PubMed App to iPhone, iPad, or Android ... Molecular detection of SARS-CoV-2 in formalin-fixed, paraffin-embedded specimens.. JCI Insight. 2020 06 18; 5(12)JI ... Molecular Detection of SARS-CoV-2 in Formalin-fixed, Paraffin-embedded Specimens. JCI Insight. 2020 06 18;5(12) PubMed PMID: ... "Molecular Detection of SARS-CoV-2 in Formalin-fixed, Paraffin-embedded Specimens." JCI Insight, vol. 5, no. 12, 2020. ...
The formalin-fixed paraffin-embedded tissue QC Kit enables assessment of the integrity of DNA. It also ensures accurate ... Formalin-fixed, paraffin-embedded tissue represents a valuable sample source for molecular cancer research but is highly ... Accurately qualify and quantify amplifiable DNA in challenging formalin-fixed, paraffin-embedded tissue samples. ...
Immerse the tissue in 3 changes of paraffin, 1 hour each. *Embed the tissue in a paraffin block. The paraffin tissue block can ... Prepare formalin-fixed, paraffin-embedded tissue sections (steps 1-8):. *Fix freshly dissected tissue (less than 3 mm thick) ... Section the paraffin-embedded tissue block at 5-8 µm thickness on a microtome and float in a 40°C water bath containing ... Immunostain formalin-fixed, paraffin-embedded tissue sections (steps 9-29):. *Deparaffinize slides in 2 changes of xylene, 5 ...
... paraffin embedding, and thin sectioning techniques for microbial colony biofilms. In prepared samples, biofilm... ... 7. Sample Embedding. *Fill a wax mold with molten paraffin wax heated to 55 ˚C. Use a heated, flat spatula to quickly transfer ... Paraffin Embedding and Thin Sectioning of Microbial Colony Biofilms for Microscopic Analysis. William C. Cornell1, Chase J. ... The process of paraffin-embedding and thin-sectioning biofilms follows a simple logic. First, the biofilms are encased in a ...
... paraffin-embedded sections) ; find Sigma-Aldrich-313S MSDS, related peer-reviewed papers, technical documents, similar products ... Paraffin embedded tissue section mounted on microscope slide Other Notes For Technical Service please contact: 800-665-7284 or ...
Specifications for pre-examinations processes for formalin-fixed and paraffin-embedded (FFPE) tissue -- Part 2: Isolated ... This document gives guidelines on the handling, documentation, storage and processing of formalin-fixed and paraffin-embedded ( ... Specifications for pre-examinations processes for formalin-fixed and paraffin-embedded (FFPE) tissue -- Part 2: Isolated ...
Diagnostic usefulness of dipeptidyl aminopeptidase IV monoclonal antibody in paraffin-embedded thyroid follicular tumours. ... were raised and selectively applied to paraffin-embedded sections of thyroid carcinoma. Five monoclonal antibodies were found ... image analysis based quantitative nuclear parameters in papillary and follicular thyroid tumors using paraffin-embedded tissue ... 11 benign cases reacting positively with DAP IV were rediagnosed as carcinoma after re-examinatioan of more thyroid paraffin ...
DNA recovered from paraffin embedded samples is typically strongly fragmented due to the fixation process, resulting in ... However, our new REPLI-g FFPE Kit overcomes these limitations by pre-processing of DNA directly derived from paraffin embedded ... Does REPLI-g technology for whole genome amplification work with paraffin embedded samples? ... and Mitochondrial DNA Kits are not recommended for the amplification of gDNA extracted from paraffin embedded tissues. ...
The new PCR method (LipL32 PCR) in paraffin-embedded tissues was compared with the 23S PCR. First, paraffin-embedded human ... optimization and evaluation in artificially-infected paraffin-embedded tissues. PCR was then applied to post-mortem, paraffin- ... Paraffin-embedded tissue is stable at ambient temperature for an extended period of time and relatively easy to transport ... Fifty seven paraffin-embedded organ samples (liver, kidney, lung, brain, heart or spleen) from 24 dead patients with suspicion ...
... be helpful in detecting novel genes associated with cancer initiation and progression using formalin fixed paraffin embedded ( ...
... be helpful in detecting novel genes associated with cancer initiation and progression using formalin fixed paraffin embedded ( ... On the other hand, the use of formalin fixed paraffin embedded material (FFPE) from pathology archives would open up the ... Table 1. Comparison of exome sequence read data between formalin fixed paraffin embedded (FFPE) normal prostatic, FFPE tumor ... Table 1. Comparison of exome sequence read data between formalin fixed paraffin embedded (FFPE) normal prostatic, FFPE tumor ...
  • In this study, we prepared total RNA from paired samples of formalin-fixed paraffin-embedded (FFPE) and fresh frozen malignant melanoma, and used that in microarray experiments to compare miRNA expression profiles between FFPE and fresh tissue with corresponding mRNA expression profiles from the same tissue sources. (nih.gov)
  • Archived formalin-fixed and paraffin-embedded (FFPE) tissue collections represent invaluable resources for studying pathogenesis of cancer and a variety of other diseases. (sigmaaldrich.com)
  • The use of formalin-fixed, paraffin-embedded (FFPE) tissue overcomes the most prominent issues related to research on relatively rare diseases: limited sample size, availability of control tissue, and time frame. (hindawi.com)
  • As frozen specimens of metastatic lesions are scarce, we examined formalin-fixed paraffin-embedded (FFPE) tissues. (nih.gov)
  • Targeted high throughput sequencing in clinical cancer settings: formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity. (nature.com)
  • This document gives guidelines on the handling, documentation, storage and processing of formalin-fixed and paraffin-embedded (FFPE) tissue specimens intended for the examination of isolated proteins during the pre-examination phase before a molecular assay is performed. (iso.org)
  • However, our new REPLI-g FFPE Kit overcomes these limitations by pre-processing of DNA directly derived from paraffin embedded tissue samples. (qiagen.com)
  • This robust technique, successfully applied in gene identification, might be helpful in detecting novel genes associated with cancer initiation and progression using formalin fixed paraffin embedded (FFPE) tissue. (mdpi.com)
  • Nucleic acids were isolated from FFPE mouse liver (20 µm section, fixed and embedded using standard hospital protocol) using the RecoverAll™ Total Nucleic Acid Isolation Kit. (thermofisher.com)
  • Formalin (HCHO)-fixed paraffin-embedded (FFPE) tissues have been globally used in pathology studies for decades. (medsci.org)
  • however, formalin fixation and paraffin embedding (FFPE) is the standard method for tissue preservation in the clinical setting. (mcponline.org)
  • Techniques for the extraction and use of nucleic acids from formalin‑fixed and paraffin-embedded (FFPE) tissues, preserved over long time periods in libraries, have been developed. (spandidos-publications.com)
  • However, the suitability of such systems for the examination of DNA derived from formalin-fixed, paraffin-embedded (FFPE) tissues has not been tested. (eurekamag.com)
  • Formalin-fixed paraffin-embedded (FFPE) tissue is the method of choice for storage of clinical samples, however low quality of FFPE genomic DNA (gDNA) can limit its use for downstream applications. (biomedcentral.com)
  • To date, formalin-fixed paraffin-embedded (FFPE) preservation is the method of choice for the archival storage of clinical samples in pathology archives worldwide. (biomedcentral.com)
  • The utility of formalin-fixed paraffin-embedded (FFPE) corneal tissue specimens for retrospective diagnosis of microsporidial keratitis was evaluated by transmission electron microscopy (TEM) analysis and the possible second case of microsporidial keratitis after Descemet stripping automated endothelial keratoplasty (DSAEK) was described. (springer.com)
  • In routine clinical practice, fresh-frozen tissue is rarely available and mutation testing usually needs to be carried out on archival formalin fixed, paraffin embedded (FFPE) tissue, from which DNA is typically fragmented, cross-linked and of lower quality. (garvan.org.au)
  • Methods In the present study, we used formalin-fixed paraffin-embedded (FFPE) tissue to investigate changes in the glomerular proteome in the non-clipped kidney of two-kidney one-clip (2K1C) hypertensive rats, with special emphasis on the glomerular filtration barrier. (uib.no)
  • Formalin-fixed, paraffin-embedded (FFPE) tissue samples are widely available for retrospective studies. (selectscience.net)
  • Formalin-fixed and paraffin-embedded (FFPE) sections mounted on microscope slides are one of the largest available resources for retrospective research on various diseases, but quantitative phosphoproteome analysis of FFPE sections has never been achieved because of the extreme difficulty of procuring sufficient phosphopeptides from the limited amounts of proteins on the slides. (semanticscholar.org)
  • RNA was extracted from formalin-fixed paraffin-embedded (FFPE) specimens of the tumour and adjacent non-tumour tissues from patients with mi/ea-FTC. (biomedcentral.com)
  • Here, we compare protein profiles obtained from formalin-fixed paraffin- embedded (FFPE) tissues of a primary gastric melanoma with its meningeal metastasis. (eurekaselect.com)
  • Unlocking clinically translatable genomic information, including copy number alterations (CNA), from formalin-fixed paraffin-embedded (FFPE) tissue is challenging due to low yields and degraded DNA. (biomedcentral.com)
  • However, the challenge of obtaining sufficient quantity and quality of DNA from formalin-fixed paraffin-embedded (FFPE) tissue has severely limited adoption of this approach. (biomedcentral.com)
  • DNA templates for these cases were prepared from formalin-fixed paraffin-embedded (FFPE) tissues to determine the HER2 copy number by ddPCR. (aaccjnls.org)
  • Both methods can be routinely performed on formalin-fixed paraffin-embedded (FFPE) tissue sections. (aaccjnls.org)
  • This study investigated whether formalin-fixed paraffin-embedded (FFPE) specimens from postmortem cases of neurodegenerative disorders would be suitable for miRNA profiling. (biomedcentral.com)
  • Annotated formalin-fixed, paraffin-embedded (FFPE) tissue archives constitute a valuable resource for retrospective biomarker discovery. (salford.ac.uk)
  • This study describes our experiences of nine new and established mRNA profiling techniques including Lexogen QuantSeq, Qiagen QiaSeq, BioSpyder TempO-Seq, Ion AmpliSeq, Nanostring, Affymetrix Clariom S or U133A, Illumina BeadChip and RNA-seq of formalin-fixed paraffin embedded (FFPE) and fresh frozen (FF) sequential patient-matched breast tumour samples. (biomedcentral.com)
  • The use of DNA from formalin fixed, paraffin-embedded (FFPE) tissue to interrogate methylation levels on a genome-wide scale can pose challenges. (edu.au)
  • Background Formalin-fixed paraffin-embedded (FFPE) samples can be DNA-extracted and used for human papillomavirus (HPV) genotyping. (cdc.gov)
  • Detection of fungal DNA from formalin-fixed, paraffin-embedded (FFPE) tissue is challenging due to degradation of DNA and presence of PCR inhibitors in these samples. (biomedcentral.com)
  • The difficulties in using formalin-fixed and paraffin-embedded (FFPE) tumour specimens for molecular marker studies have hampered progress in translational cancer research. (biomedcentral.com)
  • Formalin-fixed paraffin-embedded (FFPE) samples are a valuable source of clinical material, with great potential for predictive and prognostic biomarker discovery. (biomedcentral.com)
  • Pathology archives with linked clinical data are an invaluable resource for translational research, with the limitation that most cancer samples are formalin-fixed paraffin-embedded (FFPE) tissues. (cam.ac.uk)
  • However the ability to detect transcripts from gene fusions in RNA isolated from formalin-fixed paraffin-embedded (FFPE) tumor tissues, which exist in very large sample repositories for which disease outcome is known, is still limited due to the low complexity of FFPE libraries and the lack of appropriate bioinformatics methods. (rna-seqblog.com)
  • There is the need for efficient and timely methods to detect both somatic and germline mutations using formalin-fixed paraffin-embedded (FFPE) tissues and commercially available technology. (oncotarget.com)
  • Presenting an area of research that intersects with and integrates diverse disciplines, including genomics, epigenetics, proteomics, and cellular biology, among others, Formalin-Fixed Paraffin-Embedded Tissues: Methods and Protocols collects contributions from expert researchers in order to provide practical guidelines to this complex study. (springer.com)
  • Authoritative and accessible, Formalin-Fixed Paraffin-Embedded Tissues: Methods and Protocols serves as a practical guide for scientists of all backgrounds and aims to convey the appropriate sense of fascination associated with this vital field of research. (springer.com)
  • This text can be considered an introductory compendium of current methods and protocols in Molecular Biology for the use of Fixed Paraffin-Embedded Tissues that will be particularly suited to new researchers in the field who are eager to develop expertise. (springer.com)
  • MicroRNA expression profiling outperforms mRNA expression profiling in formalin-fixed paraffin-embedded tissues. (nih.gov)
  • Standard REPLI-g Kits, such as the REPLI-g Mini and Midi , UltraFast Mini- , Screening -, and Mitochondrial DNA Kits are not recommended for the amplification of gDNA extracted from paraffin embedded tissues. (qiagen.com)
  • New primers were designed for PCR optimization and evaluation in artificially-infected paraffin-embedded tissues. (scielo.br)
  • Incorporation of an additional SAX fractionation step at somewhat higher amounts enabled the analysis of formalin fixed and paraffin embedded human tissues prepared by LCM to a depth of 3600-4400 proteins per single experiment. (nih.gov)
  • To investigate this question, we performed clonal analysis on a variety of randomly selected, formalin-fixed, paraffin-embedded tumor tissues from 15 women. (aacrjournals.org)
  • The ability to accurately quantify proteins in formalin-fixed paraffin-embedded tissues using targeted mass spectrometry opens exciting perspectives for biomarker discovery. (mcponline.org)
  • The six HER2 peptides were quantified by selected reaction monitoring in a cohort of 40 archival formalin-fixed paraffin-embedded tumor tissues from women with invasive breast carcinomas, which showed different levels of HER2 gene amplification as assessed by standard methods used in clinical pathology. (mcponline.org)
  • The amounts of the six HER2 peptides were highly and significantly correlated with each other, indicating that peptide levels can be used as surrogates of protein amounts in formalin-fixed paraffin-embedded tissues. (mcponline.org)
  • This study demonstrated that selected reaction monitoring allows to accurately quantify protein expression in formalin-fixed paraffin-embedded tissues and represents therefore a powerful approach for biomarker discovery studies. (mcponline.org)
  • Sengüven B, Baris E, Oygur T, Berktas M. Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. (medsci.org)
  • DNA extraction, formalin fixed paraffin-embedded tissues. (medsci.org)
  • DNA samples from formalin-fixed paraffin-embedded tissues are highly degraded with variable quality, and this imposes a big challenge for targeted sequencing due to false positives, largely caused by PCR errors and cytosine deamination. (soton.ac.uk)
  • In this paper, we establish methods for whole-transcriptome RNA sequencing (RNA-seq) from formalin-fixed paraffin-embedded tissues. (uzh.ch)
  • Its low melting point (56-57º C, water bath temperature 37-42º C) reduces potential artifactual distortion in tissues heated above 60º during paraffin impregnation. (leicabiosystems.com)
  • Detection of monokines in paraffin-embedded tissues of pigs using polyclonal antibodies. (surrey.ac.uk)
  • This paper reports on immunohistochemical techniques developed for the detection of IL-alpha, IL-1beta, IL-6 and TNF-alpha in fixed and paraffin-embedded pig tissues (spleen, lymph nodes, thymus, liver and kidney). (surrey.ac.uk)
  • A simple technique is presented for the isolation of cells from paraffin-embedded tissues for Feulgen DNA cytophotometric investigations. (uni-regensburg.de)
  • Juliana de S. da G. Fischer, Nathalie H. S. Canedo, Katia Maria da S. Goncalves, Leila Maria Cardao Chimelli, Monique Franca, Felipe V. Leprevost, Priscila Ferreira Aquino, Paulo C. Carvalho and Maria da Gloria C. Carvalho, "Proteome Analysis of Formalin-Fixed Paraffin-Embedded Tissues from a Primary Gastric Melanoma and its Meningeal Metastasis: A Case Report", Current Topics in Medicinal Chemistry (2014) 14: 382. (eurekaselect.com)
  • AIMS: The study was undertaken to demonstrate wild-type p53 in normal paraffin-embedded tissues using two widely used antibodies, DO7 and 1801 and two different antigen retrieval buffer systems. (ox.ac.uk)
  • If available, we highly recommend that unprocessed tissues in 10% neutral buffered formalin be submitted in addition to paraffin blocks. (cdc.gov)
  • After fixation, if not paraffin-embedded, tissues SHOULD be transferred to 70% ethanol for long term storage and for shipping. (cdc.gov)
  • Epoxy-embedded tissues are also accepted. (cdc.gov)
  • 2014) Fusion Transcript Discovery in Formalin-Fixed Paraffin-Embedded Human Breast Cancer Tissues Reveals a Link to Tumor Progression . (rna-seqblog.com)
  • The infiltrating of tissue specimens with paraffin, as a supporting substance, to prepare for sectioning with a microtome. (harvard.edu)
  • Both paraffin-embedded tissue specimens and buccal cells are excellent resources for large-scale molecular epidemiological studies. (nih.gov)
  • For paraffin-embedded tissue specimens, amplification of the beta-globin gene sequence was successful in 30 of 34 (88.2%) by the simple boiling method, 29 of 34 (85.3%) samples using DNA extracted by the phenol-chloroform method, and 18 of 34 (52.9%) by the DNA Mini Kit. (nih.gov)
  • Both the simple boiling method and the phenol-chloroform method are better methods for DNA isolation from paraffin-embedded tissue specimens, and the phenol-chloroform method is the best method for DNA extraction from buccal cells. (nih.gov)
  • TY - JOUR T1 - Molecular detection of SARS-CoV-2 in formalin-fixed, paraffin-embedded specimens. (unboundmedicine.com)
  • Consequently, it should be possible to use methyl-ation-sensitive restriction enzymes and polymerase chain reaction to study differential methylation among alleles of this gene in formalin-fixed and paraffin-embedded archival tissue specimens. (aacrjournals.org)
  • We conclude that analysis of methylation in the androgen receptor gene should allow study of clonality in most formalin-fixed, paraffin-embedded tissue specimens from women, including small preneoplastic lesions or rare conditions for which sufficient material is not available for analysis by other techniques. (aacrjournals.org)
  • In addition, the diagnostically valuable IgA deposits were now stained in paraffin-embedded specimens making them more accessible in routine clinics. (springer.com)
  • The TaqMan real-time polymerase chain reaction (PCR) assay was evaluated systematically with respect to the standard curve, linear range, and used for detecting Mycobacterium leprae DNA in paraffin-embedded skin biopsy specimens from 60 confirmed leprosy patients and three healthy individuals and 29 other dermatoses and bacterial DNA from 21 different species. (ajtmh.org)
  • RNA extracted from the paraffin wax embedded liver specimens was examined by a polymerase chain reaction based HCV genotype assay. (bmj.com)
  • As a result of advances in molecular biotechnologies, various gene assays can now be performed on paraffin wax embedded pathological specimens. (bmj.com)
  • Genotyping of hepatitis C virus (HCV) RNA was performed on the paraffin wax embedded specimens, and easily resolved the situation. (bmj.com)
  • On all of the following specimens, the histologist is given the embedding orientation instructions to "embed on edge. (medialabinc.net)
  • We conducted a microarray-based genome-wide transcriptome analysis using formalin-fixed paraffin-embedded mi- or ea-FTC specimens from patients who developed distant metastasis up to 10 years postoperatively, which ensured the accuracy of diagnosis. (biomedcentral.com)
  • A purified paraffin specially formulated to provide ideal infiltration with all types of tissue specimens. (cancerdiagnostics.com)
  • Which of the following is NOT a purpose of the embedding process in routine histology? (medialabinc.net)
  • Conclusions FISH analysis of formalin-fixed paraffin-embedded tissue sections is a highly reproducible technique with an excellent success rate for the detection of genetic abnormalities which will play an increasingly important role in improving risk stratification of patients with HG-BNHL. (bmj.com)
  • Two methods for proteomic analysis of formalin-fixed, paraffin embedded tissue result in differential protein identification, data quality, and cost. (semanticscholar.org)
  • 1. Prepare tissue with formalin fixation and by embedding it in paraffin wax. (novusbio.com)
  • DNA recovered from paraffin embedded samples is typically strongly fragmented due to the fixation process, resulting in fragments only a few hundred base pairs long. (qiagen.com)
  • Formalin fixation and embedding of clinical tissue samples in paraffin is a common method for archiving biological material. (edu.au)
  • For molecular diagnostics DNA was prepared from paraffin sections for real-time polymerase chain reaction (RT-PCR). (unboundmedicine.com)
  • Gene expression, based on mRNA extracted from a training set (36 paraffin blocks) and two validation sets (133 + 1,083 blocks), were determined by quantitative reverse transcription polymerase chain reaction for all samples, as well as by microarray for 133 validation samples. (springer.com)
  • 1 Both RNA and DNA can be extracted from paraffin wax blocks and then analysed by the polymerase chain reaction (PCR). (bmj.com)
  • Detection of human papilloma virus in paraffin-embedded tissue using the polymerase chain reaction. (rupress.org)
  • Human papilloma virus (HPV) DNA sequences have been detected in paraffin-embedded tissue using an enzymatic in vitro amplification technique known as the polymerase chain reaction. (rupress.org)
  • The pathologist agrees to carefully, prepare xxx unstained, unbaked, uncharged paraffin-embedded slides from archived tumour tissue or tissue block for the Study in accordance with the protocol named above. (proz.com)
  • We used the Idylla EGFR Mutation Assay and the Idylla KRAS Mutation Test to analyse 18 formalin-fixed paraffin-embedded NSCLC tumour samples with known EGFR and KRAS mutation status according to next-generation sequencing (NGS) and droplet digital PCR (ddPCR) for EGFRT790M mutations. (ovid.com)
  • This study describes the analytical validation of one such assay designed to predict metastatic recurrence in prostate cancer using primary formalin fixed paraffin embedded tumour material. (biomedcentral.com)
  • These include rapid and robust WES of DNA derived from formalin-fixed, paraffin-embedded tumor tissue, analytical output similar to data from frozen samples and clinical interpretation of WES data for prospective use. (nature.com)
  • Immunofluorescence Labeling of Nuclear Receptor Expression in Formalin-Fixed, Paraffin-Embedded Tissue. (harvard.edu)
  • Proteome of formalin-fixed paraffin-embedded pancreatic ductal adenocarcinoma and lymph node metastases. (nih.gov)
  • Proteome stability analysis of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human colon mucosal biopsies. (semanticscholar.org)
  • The DNA extraction methods are similarly based on removal of paraffin using Xylene/ethanol, Digestion of proteins using proteinase K followed by boiling. (bio.net)
  • DNA extraction from formalin-fixed and paraffin-embedded tissue. (sigmaaldrich.com)
  • Messenger RNA extraction from the same paraffin-embedded biopsy block was successful and allowed large-scale qRT-PCR and RNAseq analyses for gene expression. (springer.com)
  • Extraction of cells from paraffin-embedded tissue sections for single-cell DNA cytophotometry. (uni-regensburg.de)
  • Rigorous digitally measured histologic and molecular markers suitable for gluten challenge studies can be obtained from a single paraffin-embedded biopsy specimen. (springer.com)
  • When embedding this specimen, how must the sections of the tube must b. (medialabinc.net)
  • Every specimen submitted to Histopathology must be labeled with the paraffin block number corresponding to the information on the Test Request Form. (questdiagnostics.com)
  • To evaluate the magnitude of M. tuberculosis from lymph node biopsy paraffin-embedded sections among suspected patients visiting the Jimma University Specialized Hospital. (hindawi.com)
  • A cross-sectional study design of histological examination among lymph node biopsy paraffin-embedded sections by Ziehl-Neelsen and hematoxylin/eosin staining technique was conducted from December, 2009, to October, 2010, at the Department of Medical Laboratory Science and Pathology. (hindawi.com)
  • PCR amplification from paraffin-embedded tissue sections. (bio.net)
  • Hello Everyone, I am attempting to pcr from paraffin sections and have problem to get it to work. (bio.net)
  • Indeed, analysis of paraffin-embedded tissue has proven superior to the study of cryo sections. (frontiersin.org)
  • Here, we present methods for formalin-fixed and paraffin-embedded sections. (frontiersin.org)
  • Paraffin sections mounted on slides, air dry overnight, and then dry in 50 C oven for 1 hour. (ihcworld.com)
  • Put a few drops of EMbed-812 on the sections and incubate for 1 hour, drain and change fresh EMbed-812 and incubate for another 1 hour. (ihcworld.com)
  • Monoclonal antibodies to dipeptidyl aminopeptidase IV (DAP IV, EC 3.4.14.5) were raised and selectively applied to paraffin-embedded sections of thyroid carcinoma. (wiley.com)
  • Five monoclonal antibodies were found to stain paraffin sections of thyroid carcinomas. (wiley.com)
  • In positive staining cases previously diagnosed as benign tumours, 11 benign cases reacting positively with DAP IV were rediagnosed as carcinoma after re-examinatioan of more thyroid paraffin block sections or serial sections. (wiley.com)
  • In this study, we developed an immunohistochemical staining technique, using E-selectin-human Ig Fc chimera (E-Ig) to characterize the expression and localization of E-selectin binding sites on paraffin-embedded sections of different cancer tissue. (biomedcentral.com)
  • These antisera were used for immunocytochemical staining of paraffin sections of 33 primary breast cancers. (aacrjournals.org)
  • We describe our experience of using a panel of fluorescence in situ hybridisation (FISH) probes on formalin-fixed paraffin-embedded tissue sections in the diagnostic work-up of 162 patients with non-Burkitt high grade B-cell non-Hodgkin's lymphomas (HG-BNHL). (bmj.com)
  • While formalin-fixed, paraffin-embedded human tissue retains excellent morphology, the detection of antigens by immunofluorescence in its sections and especially the demonstration of multiple simultaneous antibodies have limitations. (uni-regensburg.de)
  • Double immunofluorescence labeling of routinely processed paraffin sections has been described previously. (uni-regensburg.de)
  • The authors show multicolor labeling of three and four primary antibodies in routinely processed paraffin-embedded tissue sections using a standardized immunofluorescence technique. (uni-regensburg.de)
  • Phosphoproteome analysis of formalin-fixed and paraffin-embedded tissue sections mounted on microscope slides. (semanticscholar.org)
  • Submit formalin fixed, paraffin embedded tumor tissue, an H&E slide which corresponds to the tumor block submitted, and a copy of the pathology report. (questdiagnostics.com)
  • Here, we describe a prospective clinical WES platform for archival formalin-fixed, paraffin-embedded tumor samples. (nature.com)
  • Accurately qualify and quantify amplifiable DNA in challenging formalin-fixed, paraffin-embedded tissue samples. (agilent.com)
  • Do I need to perform antigen retrieval on my formalin-fixed, paraffin-embedded samples prior to staining? (biolegend.com)
  • Does REPLI-g technology for whole genome amplification work with paraffin embedded samples? (qiagen.com)
  • PCR was then applied to post-mortem, paraffin-embedded samples, followed by amplicon sequencing. (scielo.br)
  • However, post-mortem diagnosis of leptospirosis in paraffin-embedded tissue is much less widely used and PCR based methods have low sensitivity for these types of samples 3 . (scielo.br)
  • 2. Standard embedding protocols require heating the formaldehyde-soaked samples. (thermofisher.com)
  • Stainings for γδ T cells and IgA deposits, where previously frozen samples have been needed, were successful in PAXgene fixed paraffin-embedded samples. (springer.com)
  • Large biobanks exist worldwide containing formalin-fixed, paraffin-embedded samples and samples stored in RNAlater. (aau.dk)
  • This course will discuss the fundamental methodology, purpose, and skills needed for basic to intermediate level proficiency in routine paraffin embedding of human tissue samples. (medialabinc.net)
  • A molecular characterization of HPV was done on 245 paraffin embedded cervical biopsy samples collected from the two countries. (www.gov.uk)
  • Engers, H. Genotyping of human papillomavirus in paraffin embedded cervical tissue samples from women in Ethiopia and the Sudan. (www.gov.uk)
  • Accuracy was evaluated with a method comparison study between the assay development platform (Prostate Disease Specific Array) and an alternative platform (Xcel™ microarray) using 50 formalin-fixed, paraffin-embedded prostate cancer patient samples. (biomedcentral.com)
  • METHODS AND RESULTS: Formalin-fixed paraffin-embedded normal tissue samples were obtained from the archives of the John Radcliffe Hospital, Oxford. (ox.ac.uk)
  • We have shown that the DASL WG platform is suitable for profiling formalin-fixed paraffin-embedded samples, but robust bioinformatics analysis is required. (biomedcentral.com)
  • Recently, an ITS2 PCR assay has been successfully used for direct detection of T. verrucosum in paraffin-embedded formalin-fixed skin tissue. (unboundmedicine.com)
  • The sensitivity of direct molecular detection of the dermatophytes both in native clinical material, and in paraffin-embedded skin tissue can been increased. (unboundmedicine.com)
  • Immunocytochemical detection of somatostatin receptors sst1, sst2A, sst2B, and sst3 in paraffin-embedded breast cancer tissue using subtype-specific antibodies. (aacrjournals.org)
  • Amplification of a HPV DNA sequence before its detection with a cDNA probe significantly increases the rapidity as well as the sensitivity of detection such that a single 5-10-micron thick paraffin-embedded tissue section can be analyzed within 24 h. (rupress.org)
  • Immunohistochemical detection of P53 overexpression in paraffin wax-embedded squamous cell carcinomas of cattle, horses, cats and dogs. (oregonstate.edu)
  • p53 expression in normal paraffin-embedded tissue using different antibodies and antigen retrieval buffer systems. (ox.ac.uk)
  • Paraffin embedding is the standard technique used in nearly all clinical and most research histopathology laboratories to produce human tissue blocks for microtomy. (medialabinc.net)
  • In addition, our institute provides newly established molecular biologic methods (PCR) enabling not only an exact differentiation between liver cancer or metastases and AE but also species-specific diagnosis based on native material from operations on AE patients and on formalin-fixed paraffin-embedded tissue (12). (acronymfinder.com)
  • Formalin-fixed, paraffin-embedded tissue represents a valuable sample source for molecular cancer research but is highly challenging to analyze. (agilent.com)
  • Los resultados del análisis de la extracción molecular de BoHV-5 revelaron la existencia de cinco casos positivos, lo cual confirma la presencia del virus en Colombia. (udea.edu.co)
  • the other half was fixed and embedded using a standard hospital protocol. (thermofisher.com)
  • We here evaluated morphometric, immunohistochemical and messenger RNA (mRNA) expression changes in coeliac disease patients challenged with gluten using PAXgene fixed paraffin-embedded biopsies. (springer.com)
  • Tissue fragments from paraffin blocks were deparaffinized in xylene, rehydrated and refixed in a formalin solution and incubated in a solution of 0.5 pepsin in 0.25% hydrochloric acid. (uni-regensburg.de)
  • Drain off 2:1 EMbed-812:P.O. and place slides on a flat surface. (ihcworld.com)
  • For submission of slides in lieu of paraffin blocks, see slide preparation requirements. (questdiagnostics.com)
  • We have developed and evaluated a selectedreaction monitoring assay for the human receptor tyrosine-protein kinase erbB-2 (HER2) in formalin-fixed paraffin-embedded breast tumors. (mcponline.org)
  • Melzi E, Rocchi MS, Entrican G, Caporale M, Palmarini M. Immunophenotyping of Sheep Paraffin-Embedded Peripheral Lymph Nodes. (harvard.edu)
  • Then use one of the following methods to perform embedding. (ihcworld.com)
  • The paraffin tissue block can be stored at room temperature for years. (biolegend.com)
  • Section the paraffin-embedded tissue block at 5-8 µm thickness on a microtome and float in a 40°C water bath containing distilled water. (biolegend.com)
  • Identify the tissue type shown in the cut surface of this paraffin tissue block. (medialabinc.net)
  • Immunohistochemistry-Paraffin: Chk1 [p Ser317] Antibody [ABIN42979519] - Paraffin-embedded human breast carcinoma tissue at 1:50.showing nuclear staining. (antikoerper-online.de)
  • Combined use of PCR-based TCRG and TCRB clonality tests on paraffin-embedded skin tissue in the differential diagnosis of mycosis fungoides and inflammatory dermatoses. (harvard.edu)
  • Human-Stomach poor differentiated mucinous adenocarcinoma, partly signet-ring cell carcinoma tissue section slide (paraffin embedded). (acris-antibodies.com)
  • Utility of Histologic and Histochemical Screening for 16S Ribosomal RNA Gene Sequencing of Formalin-Fixed, Paraffin-Embedded Tissue for Bacterial Endocarditis. (harvard.edu)
  • Gene expression analysis on messenger RNA (mRNA) purified from formalin-fixed, paraffin-embedded tissue is increasingly used for research purposes. (springer.com)
  • Formalin-fixed paraffin-embedded tissue may be stored at room temperature indefinitely. (questdiagnostics.com)