Expressed sequence tags. Medical search

Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.

A large collection of DNA fragments cloned (CLONING, MOLECULAR) from a given organism, tissue, organ, or cell type. It may contain complete genomic sequences (GENOMIC LIBRARY) or complementary DNA sequences, the latter being formed from messenger RNA and lacking intron sequences.

Short tracts of DNA sequence that are used as landmarks in GENOME mapping. In most instances, 200 to 500 base pairs of sequence define a Sequence Tagged Site (STS) that is operationally unique in the human genome (i.e., can be specifically detected by the polymerase chain reaction in the presence of all other genomic sequences). The overwhelming advantage of STSs over mapping landmarks defined in other ways is that the means of testing for the presence of a particular STS can be completely described as information in a database.

Single-stranded complementary DNA synthesized from an RNA template by the action of RNA-dependent DNA polymerase. cDNA (i.e., complementary DNA, not circular DNA, not C-DNA) is used in a variety of molecular cloning experiments as well as serving as a specific hybridization probe.

Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.

A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.

Overlapping of cloned or sequenced DNA to construct a continuous region of a gene, chromosome or genome.

The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.

Databases devoted to knowledge about specific genes and gene products.

The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.

The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.

The functional hereditary units of PLANTS.

The genetic complement of a plant (PLANTS) as represented in its DNA.

Any method used for determining the location of and relative distances between genes on a chromosome.

The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.

Databases containing information about NUCLEIC ACIDS such as BASE SEQUENCE; SNPS; NUCLEIC ACID CONFORMATION; and other properties. Information about the DNA fragments kept in a GENE LIBRARY or GENOMIC LIBRARY is often maintained in DNA databases.

Deoxyribonucleic acid that makes up the genetic material of plants.

The insertion of recombinant DNA molecules from prokaryotic and/or eukaryotic sources into a replicating vehicle, such as a plasmid or virus vector, and the introduction of the resultant hybrid molecules into recipient cells without altering the viability of those cells.

A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.

The relationships of groups of organisms as reflected by their genetic makeup.

The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.

Hybridization of a nucleic acid sample to a very large set of OLIGONUCLEOTIDE PROBES, which have been attached individually in columns and rows to a solid support, to determine a BASE SEQUENCE, or to detect variations in a gene sequence, GENE EXPRESSION, or for GENE MAPPING.

Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control of gene action in plants.

The systematic study of the complete DNA sequences (GENOME) of organisms.

A set of genes descended by duplication and variation from some ancestral gene. Such genes may be clustered together on the same chromosome or dispersed on different chromosomes. Examples of multigene families include those that encode the hemoglobins, immunoglobulins, histocompatibility antigens, actins, tubulins, keratins, collagens, heat shock proteins, salivary glue proteins, chorion proteins, cuticle proteins, yolk proteins, and phaseolins, as well as histones, ribosomal RNA, and transfer RNA genes. The latter three are examples of reiterated genes, where hundreds of identical genes are present in a tandem array. (King & Stanfield, A Dictionary of Genetics, 4th ed)

RNA sequences that serve as templates for protein synthesis. Bacterial mRNAs are generally primary transcripts in that they do not require post-transcriptional processing. Eukaryotic mRNA is synthesized in the nucleus and must be exported to the cytoplasm for translation. Most eukaryotic mRNAs have a sequence of polyadenylic acid at the 3' end, referred to as the poly(A) tail. The function of this tail is not known for certain, but it may play a role in the export of mature mRNA from the nucleus as well as in helping stabilize some mRNA molecules by retarding their degradation in the cytoplasm.

A phenotypically recognizable genetic trait which can be used to identify a genetic locus, a linkage group, or a recombination event.

Ribonucleic acid in plants having regulatory and catalytic roles as well as involvement in protein synthesis.

A variety of simple repeat sequences that are distributed throughout the GENOME. They are characterized by a short repeat unit of 2-8 basepairs that is repeated up to 100 times. They are also known as short tandem repeats (STRs).

Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.

The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.

Proteins found in plants (flowers, herbs, shrubs, trees, etc.). The concept does not include proteins found in vegetables for which VEGETABLE PROTEINS is available.

A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.

Sequential operating programs and data which instruct the functioning of a digital computer.

The phenotypic manifestation of a gene or genes by the processes of GENETIC TRANSCRIPTION and GENETIC TRANSLATION.

The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.

A variation of the PCR technique in which cDNA is made from RNA via reverse transcription. The resultant cDNA is then amplified using standard PCR protocols.

A sequence of successive nucleotide triplets that are read as CODONS specifying AMINO ACIDS and begin with an INITIATOR CODON and end with a stop codon (CODON, TERMINATOR).

Annual cereal grass of the family POACEAE and its edible starchy grain, rice, which is the staple food of roughly one-half of the world's population.

A plant genus of the family BRASSICACEAE that contains ARABIDOPSIS PROTEINS and MADS DOMAIN PROTEINS. The species A. thaliana is used for experiments in classical plant genetics as well as molecular genetic studies in plant physiology, biochemistry, and development.

The process of cumulative change at the level of DNA; RNA; and PROTEINS, over successive generations.

Complex nucleoprotein structures which contain the genomic DNA and are part of the CELL NUCLEUS of PLANTS.

A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange.

A process whereby multiple RNA transcripts are generated from a single gene. Alternative splicing involves the splicing together of other possible sets of EXONS during the processing of some, but not all, transcripts of the gene. Thus a particular exon may be connected to any one of several alternative exons to form a mature RNA. The alternative forms of mature MESSENGER RNA produce PROTEIN ISOFORMS in which one part of the isoforms is common while the other parts are different.

The sequential correspondence of nucleotides in one nucleic acid molecule with those of another nucleic acid molecule. Sequence homology is an indication of the genetic relatedness of different organisms and gene function.

The degree of similarity between sequences. Studies of AMINO ACID SEQUENCE HOMOLOGY and NUCLEIC ACID SEQUENCE HOMOLOGY provide useful information about the genetic relatedness of genes, gene products, and species.

The parts of plants, including SEEDS.

A plant genus of the family POACEAE that is the source of EDIBLE GRAIN. A hybrid with rye (SECALE CEREALE) is called TRITICALE. The seed is ground into FLOUR and used to make BREAD, and is the source of WHEAT GERM AGGLUTININS.

Detection of RNA that has been electrophoretically separated and immobilized by blotting on nitrocellulose or other type of paper or nylon membrane followed by hybridization with labeled NUCLEIC ACID PROBES.

Mapping of the linear order of genes on a chromosome with units indicating their distances by using methods other than genetic recombination. These methods include nucleotide sequencing, overlapping deletions in polytene chromosomes, and electron micrography of heteroduplex DNA. (From King & Stansfield, A Dictionary of Genetics, 5th ed)

The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.

The restriction of a characteristic behavior, anatomical structure or physical system, such as immune response; metabolic response, or gene or gene variant to the members of one species. It refers to that property which differentiates one species from another but it is also used for phylogenetic levels higher or lower than the species.

Short sequences (generally about 10 base pairs) of DNA that are complementary to sequences of messenger RNA and allow reverse transcriptases to start copying the adjacent sequences of mRNA. Primers are used extensively in genetic and molecular biology techniques.

A method for ordering genetic loci along CHROMOSOMES. The method involves fusing irradiated donor cells with host cells from another species. Following cell fusion, fragments of DNA from the irradiated cells become integrated into the chromosomes of the host cells. Molecular probing of DNA obtained from the fused cells is used to determine if two or more genetic loci are located within the same fragment of donor cell DNA.

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.

The complete genetic complement contained in the DNA of a set of CHROMOSOMES in a HUMAN. The length of the human genome is about 3 billion base pairs.

The portion of an interactive computer program that issues messages to and receives commands from a user.

A sequence of amino acids in a polypeptide or of nucleotides in DNA or RNA that is similar across multiple species. A known set of conserved sequences is represented by a CONSENSUS SEQUENCE. AMINO ACID MOTIFS are often composed of conserved sequences.

Diseases of plants.

DNA constructs that are composed of, at least, a REPLICATION ORIGIN, for successful replication, propagation to and maintenance as an extra chromosome in bacteria. In addition, they can carry large amounts (about 200 kilobases) of other sequence for a variety of bioengineering purposes.

A single nucleotide variation in a genetic sequence that occurs at appreciable frequency in the population.

The biosynthesis of RNA carried out on a template of DNA. The biosynthesis of DNA from an RNA template is called REVERSE TRANSCRIPTION.

The parts of the messenger RNA sequence that do not code for product, i.e. the 5' UNTRANSLATED REGIONS and 3' UNTRANSLATED REGIONS.

The usually underground portions of a plant that serve as support, store food, and through which water and mineral nutrients enter the plant. (From American Heritage Dictionary, 1982; Concise Dictionary of Biology, 1990)

A surgical specialty concerned with the structure and function of the eye and the medical and surgical treatment of its defects and diseases.

A plant species of the family POACEAE. It is a tall grass grown for its EDIBLE GRAIN, corn, used as food and animal FODDER.

A plant genus of the FABACEAE family known for the seeds used as food.

A plant genus of the family FABACEAE. This genus was formerly known as Tetragonolobus. The common name of lotus is also used for NYMPHAEA and NELUMBO.

Proteins found in any species of helminth.

A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.

A plant genus of the family RUBIACEAE. It is best known for the COFFEE beverage prepared from the beans (SEEDS).

A plant genus of the family POACEAE. The grain is used for FOOD and for ANIMAL FEED. This should not be confused with KAFFIR LIME or with KEFIR milk product.

Deoxyribonucleic acid that makes up the genetic material of helminths.

Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control (induction or repression) of gene action at the level of transcription or translation.

Proteins found in any species of algae.

The parts of a transcript of a split GENE remaining after the INTRONS are removed. They are spliced together to become a MESSENGER RNA or other functional RNA.

A plant family of the order Solanales, subclass Asteridae. Among the most important are POTATOES; TOMATOES; CAPSICUM (green and red peppers); TOBACCO; and BELLADONNA.

The functional hereditary units of INSECTS.

A process that includes the determination of AMINO ACID SEQUENCE of a protein (or peptide, oligopeptide or peptide fragment) and the information analysis of the sequence.

A plant genus of the family POACEAE widely cultivated in the tropics for the sweet cane that is processed into sugar.

Sequences of DNA in the genes that are located between the EXONS. They are transcribed along with the exons but are removed from the primary gene transcript by RNA SPLICING to leave mature RNA. Some introns code for separate genes.

Proteins found in any species of insect.

The genetic complement of a helminth (HELMINTHS) as represented in its DNA.

A plant genus of the family ROSACEAE known for the edible fruit.

The presence of two or more genetic loci on the same chromosome. Extensions of this original definition refer to the similarity in content and organization between chromosomes, of different species for example.

Characteristic restricted to a particular organ of the body, such as a cell type, metabolic response or expression of a particular protein or antigen.

A class of unsegmented helminths with fundamental bilateral symmetry and secondary triradiate symmetry of the oral and esophageal structures. Many species are parasites.

Techniques of nucleotide sequence analysis that increase the range, complexity, sensitivity, and accuracy of results by greatly increasing the scale of operations and thus the number of nucleotides, and the number of copies of each nucleotide sequenced. The sequencing may be done by analysis of the synthesis or ligation products, hybridization to preexisting sequences, etc.

The body of a fungus which is made up of HYPHAE.

Plants of the division Rhodophyta, commonly known as red algae, in which the red pigment (PHYCOERYTHRIN) predominates. However, if this pigment is destroyed, the algae can appear purple, brown, green, or yellow. Two important substances found in the cell walls of red algae are AGAR and CARRAGEENAN. Some rhodophyta are notable SEAWEED (macroalgae).

The complete gene complement contained in a set of chromosomes in a fungus.

Expanded structures, usually green, of vascular plants, characteristically consisting of a bladelike expansion attached to a stem, and functioning as the principal organ of photosynthesis and transpiration. (American Heritage Dictionary, 2d ed)

A plant genus of the family FABACEAE known for the edible beans.

The rose plant family in the order ROSALES and class Magnoliopsida. They are generally woody plants. A number of the species of this family contain cyanogenic compounds.

Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.

A multistage process that includes the determination of a sequence (protein, carbohydrate, etc.), its fragmentation and analysis, and the interpretation of the resulting sequence information.

The encapsulated embryos of flowering plants. They are used as is or for animal feed because of the high content of concentrated nutrients like starches, proteins, and fats. Rapeseed, cottonseed, and sunflower seed are also produced for the oils (fats) they yield.

Chromosomes in which fragments of exogenous DNA ranging in length up to several hundred kilobase pairs have been cloned into yeast through ligation to vector sequences. These artificial chromosomes are used extensively in molecular biology for the construction of comprehensive genomic libraries of higher organisms.

The reproductive organs of plants.

A multistage process that includes cloning, physical mapping, subcloning, sequencing, and information analysis of an RNA SEQUENCE.

A form of GENE LIBRARY containing the complete DNA sequences present in the genome of a given organism. It contrasts with a cDNA library which contains only sequences utilized in protein coding (lacking introns).

Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control of gene action during the developmental stages of an organism.

Mining SNPs from EST databases. (1/3795)

There is considerable interest in the discovery and characterization of single nucleotide polymorphisms (SNPs) to enable the analysis of the potential relationships between human genotype and phenotype. Here we present a strategy that permits the rapid discovery of SNPs from publicly available expressed sequence tag (EST) databases. From a set of ESTs derived from 19 different cDNA libraries, we assembled 300,000 distinct sequences and identified 850 mismatches from contiguous EST data sets (candidate SNP sites), without de novo sequencing. Through a polymerase-mediated, single-base, primer extension technique, Genetic Bit Analysis (GBA), we confirmed the presence of a subset of these candidate SNP sites and have estimated the allele frequencies in three human populations with different ethnic origins. Altogether, our approach provides a basis for rapid and efficient regional and genome-wide SNP discovery using data assembled from sequences from different libraries of cDNAs. (+info)

UCP4, a novel brain-specific mitochondrial protein that reduces membrane potential in mammalian cells. (2/3795)

Uncoupling proteins (UCPs) are a family of mitochondrial transporter proteins that have been implicated in thermoregulatory heat production and maintenance of the basal metabolic rate. We have identified and partially characterized a novel member of the human uncoupling protein family, termed uncoupling protein-4 (UCP4). Protein sequence analyses showed that UCP4 is most related to UCP3 and possesses features characteristic of mitochondrial transporter proteins. Unlike other known UCPs, UCP4 transcripts are exclusively expressed in both fetal and adult brain tissues. UCP4 maps to human chromosome 6p11.2-q12. Consistent with its potential role as an uncoupling protein, UCP4 is localized to the mitochondria and its ectopic expression in mammalian cells reduces mitochondrial membrane potential. These findings suggest that UCP4 may be involved in thermoregulatory heat production and metabolism in the brain. (+info)

Combining SSH and cDNA microarrays for rapid identification of differentially expressed genes. (3/3795)

Comparing patterns of gene expression in cell lines and tissues has important applications in a variety of biological systems. In this study we have examined whether the emerging technology of cDNA microarrays will allow a high throughput analysis of expression of cDNA clones generated by suppression subtractive hybridization (SSH). A set of cDNA clones including 332 SSH inserts amplified by PCR was arrayed using robotic printing. The cDNA arrays were hybridized with fluorescent labeled probes prepared from RNA from ER-positive (MCF7 and T47D) and ER-negative (MDA-MB-231 and HBL-100) breast cancer cell lines. Ten clones were identified that were over-expressed by at least a factor of five in the ER-positive cell lines. Northern blot analysis confirmed over-expression of these 10 cDNAs. Sequence analysis identified four of these clones as cytokeratin 19, GATA-3, CD24 and glutathione-S-transferase mu-3. Of the remaining six cDNA clones, four clones matched EST sequences from two different genes and two clones were novel sequences. Flow cytometry and immunofluorescence confirmed that CD24 protein was over-expressed in the ER-positive cell lines. We conclude that SSH and microarray technology can be successfully applied to identify differentially expressed genes. This approach allowed the identification of differentially expressed genes without the need to obtain previously cloned cDNAs. (+info)

The Dictyostelium developmental cDNA project: generation and analysis of expressed sequence tags from the first-finger stage of development. (4/3795)

In an effort to identify and characterize genes expressed during multicellular development ill Dictyostelium, we have undertaken a cDNA sequencing project. Using size-fractionated subsets of cDNA from the first finger stage, two sets of gridded libraries were constructed for cDNA sequencing. One, library S, consisting of 9984 clones, carries relatively short inserts, and the other, library L, which consists of 8448 clones, has longer inserts. We sequenced all the selected clones in library S from their 3'-ends, and this generated 3093 non-redundant, expressed sequence tags (ESTs). Among them, 246 ESTs hit known Dictyostelium genes and 910 showed significant similarity to genes of Dictyostelium and other organisms. For library L, 1132 clones were randomly sequenced and 471 non-redundant ESTs were obtained. In combination, the ESTs from the two libraries represent approximately 40% of genes expressed in late development, assuming that the non-redundant ESTs correspond to independent genes. They will provide a useful resource for investigating the genetic networks that regulate multicellular development of this organism. (+info)

Molecular identification of human G-substrate, a possible downstream component of the cGMP-dependent protein kinase cascade in cerebellar Purkinje cells. (5/3795)

G-substrate, an endogenous substrate for cGMP-dependent protein kinase, exists almost exclusively in cerebellar Purkinje cells, where it is possibly involved in the induction of long-term depression. A G-substrate cDNA was identified by screening expressed sequence tag databases from a human brain library. The deduced amino acid sequence of human G-substrate contained two putative phosphorylation sites (Thr-68 and Thr-119) with amino acid sequences [KPRRKDT(p)PALH] that were identical to those reported for rabbit G-substrate. G-substrate mRNA was expressed almost exclusively in the cerebellum as a single transcript. The human G-substrate gene was mapped to human chromosome 7p15 by radiation hybrid panel analysis. In vitro translation products of the cDNA showed an apparent molecular mass of 24 kDa on SDS/PAGE which was close to that of purified rabbit G-substrate (23 kDa). Bacterially expressed human G-substrate is a heat-stable and acid-soluble protein that cross-reacts with antibodies raised against rabbit G-substrate. Recombinant human G-substrate was phosphorylated efficiently by cGMP-dependent protein kinase exclusively at Thr residues, and it was recognized by antibodies specific for rabbit phospho-G-substrate. The amino acid sequences surrounding the sites of phosphorylation in G-substrate are related to those around Thr-34 and Thr-35 of the dopamine- and cAMP-regulated phosphoprotein DARPP-32 and inhibitor-1, respectively, two potent inhibitors of protein phosphatase 1. However, purified G-substrate phosphorylated by cGMP-dependent protein kinase inhibited protein phosphatase 2A more effectively than protein phosphatase 1, suggesting a distinct role as a protein phosphatase inhibitor. (+info)

Cloning, expression, and genetic mapping of Sema W, a member of the semaphorin family. (6/3795)

The semaphorins comprise a large family of membrane-bound and secreted proteins, some of which have been shown to function in axon guidance. We have cloned a transmembrane semaphorin, Sema W, that belongs to the class IV subgroup of the semaphorin family. The mouse and rat forms of Sema W show 97% amino acid sequence identity with each other, and each shows about 91% identity with the human form. The gene for Sema W is divided into 15 exons, up to 4 of which are absent in the human cDNAs that we sequenced. Unlike many other semaphorins, Sema W is expressed at low levels in the developing embryo but was found to be expressed at high levels in the adult central nervous system and lung. Functional studies with purified membrane fractions from COS7 cells transfected with a Sema W expression plasmid showed that Sema W has growth-cone collapse activity against retinal ganglion-cell axons, indicating that vertebrate transmembrane semaphorins, like secreted semaphorins, can collapse growth cones. Genetic mapping of human SEMAW with human/hamster radiation hybrids localized the gene to chromosome 2p13. Genetic mapping of mouse Semaw with mouse/hamster radiation hybrids localized the gene to chromosome 6, and physical mapping placed the gene on bacteria artificial chromosomes carrying microsatellite markers D6Mit70 and D6Mit189. This localization places Semaw within the locus for motor neuron degeneration 2, making it an attractive candidate gene for this disease. (+info)

Exon shuffling by L1 retrotransposition. (7/3795)

Long interspersed nuclear elements (LINE-1s or L1s) are the most abundant retrotransposons in the human genome, and they serve as major sources of reverse transcriptase activity. Engineered L1s retrotranspose at high frequency in cultured human cells. Here it is shown that L1s insert into transcribed genes and retrotranspose sequences derived from their 3' flanks to new genomic locations. Thus, retrotransposition-competent L1s provide a vehicle to mobilize non-L1 sequences, such as exons or promoters, into existing genes and may represent a general mechanism for the evolution of new genes. (+info)

A RAPID algorithm for sequence database comparisons: application to the identification of vector contamination in the EMBL databases. (8/3795)

MOTIVATION: Word-matching algorithms such as BLAST are routinely used for sequence comparison. These algorithms typically use areas of matching words to seed alignments which are then used to assess the degree of sequence similarity. In this paper, we show that by formally separating the word-matching and sequence-alignment process, and using information about word frequencies to generate alignments and similarity scores, we can create a new sequence-comparison algorithm which is both fast and sensitive. The formal split between word searching and alignment allows users to select an appropriate alignment method without affecting the underlying similarity search. The algorithm has been used to develop software for identifying entries in DNA sequence databases which are contaminated with vector sequence. RESULTS: We present three algorithms, RAPID, PHAT and SPLAT, which together allow vector contaminations to be found and assessed extremely rapidly. RAPID is a word search algorithm which uses probabilities to modify the significance attached to different words; PHAT and SPLAT are alignment algorithms. An initial implementation has been shown to be approximately an order of magnitude faster than BLAST. The formal split between word searching and alignment not only offers considerable gains in performance, but also allows alignment generation to be viewed as a user interface problem, allowing the most useful output method to be selected without affecting the underlying similarity search. Receiver Operator Characteristic (ROC) analysis of an artificial test set allows the optimal score threshold for identifying vector contamination to be determined. ROC curves were also used to determine the optimum word size (nine) for finding vector contamination. An analysis of the entire expressed sequence tag (EST) subset of EMBL found a contamination rate of 0.27%. A more detailed analysis of the 50 000 ESTs in est10.dat (an EST subset of EMBL) finds an error rate of 0.86%, principally due to two large-scale projects. AVAILABILITY: A Web page for the software exists at http://bioinf.man.ac.uk/rapid, or it can be downloaded from ftp://ftp.bioinf.man.ac.uk/RAPID CONTACT: [email protected] (+info)

In genetics, an expressed sequence tag (EST) is a short sub-sequence of a cDNA sequence. ESTs may be used to identify gene ... Because of the way ESTs are sequenced, many distinct expressed sequence tags are often partial sequences that correspond to the ... Jun 1991). "Complementary DNA sequencing: expressed sequence tags and human genome project". Science. 252 (5013): 1651-6. ... In an effort to reduce the number of expressed sequence tags for downstream gene discovery analyses, several groups assembled ...

https://en.wikipedia.org/wiki/Expressed_sequence_tag

Boguski, M.S.; Lowe, T.M.; Tolstoshev, C.M. (1993). "dbEST--database for "expressed sequence tags"". Nature Genetics. 4 (4): ... in part to aid multiplexing with MPBLAST and in part to aid analysis of segmented query sequences from shotgun sequencing ... Construction of the DFA was O(n), where n is the sum of the lengths of the query sequences. The DFA could then be used to scan ... Sense from Sequences: Stephen F. Altschul on Bettering BLAST Aho, Alfred V.; Corasick, Margaret J. (June 1975). "Efficient ...

https://en.wikipedia.org/wiki/Warren_Gish

... low-throughput sequencing using the Sanger method was used to sequence random transcripts, producing expressed sequence tags ( ... An expressed sequence tag (EST) is a short nucleotide sequence generated from a single RNA transcript. RNA is first copied as ... Legend: RAM - random access memory; MPI - message passing interface; EST - expressed sequence tag. Quantification of sequence ... June 1991). "Complementary DNA sequencing: expressed sequence tags and human genome project". Science. 252 (5013): 1651-6. ...

https://en.wikipedia.org/wiki/Transcriptomics_technologies

... using expressed sequence tags in genetic analyses, ... sequencing of microbial genomes, and his leadership in ... sequencing ...

https://en.wikipedia.org/wiki/NAS_Award_for_the_Industrial_Application_of_Science

September 1996). "Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-828. doi: ... It is expressed on lymph node endothelia, whereas the L-selectin to which it binds is on the T cell. Conversely, under other ... CD34 is expressed in roughly 20% of murine haematopoietic stem cells, and can be stimulated and reversed. CD34+ is often used ... Cells expressing CD34 (CD34+ cell) are normally found in the umbilical cord and bone marrow as haematopoietic cells, or in ...

https://en.wikipedia.org/wiki/CD34

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... This gene, an active X chromosome homolog of the Y chromosome RBMY gene, is widely expressed whereas the RBMY gene evolved a ... sequence and characterization of a glycosylated RNA-binding protein". Nucleic Acids Research. 21 (18): 4210-7. doi:10.1093/nar/ ...

https://en.wikipedia.org/wiki/RBMX

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... It can be expressed in various tissues in the body including the testis, spleen, and the placenta. This gene encodes a protein ...

https://en.wikipedia.org/wiki/BANP

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... "Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins ...

https://en.wikipedia.org/wiki/GPR34

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... Heterologously expressed CNGA1 can form a functional channel that is permeable to calcium. In rod photoreceptors, however, ... amino acid sequence, gene structure, and functional expression". The Journal of Neuroscience. 12 (8): 3248-56. doi:10.1523/ ... exchanger oligomers with cGMP-gated channel subunits as probed with heterologously expressed cDNAs" (PDF). Biochemistry. 42 (15 ...

https://en.wikipedia.org/wiki/Cyclic_nucleotide-gated_channel_alpha_1

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... The protein encoded by this gene is a ubiquitously expressed nuclear protein and belongs to a highly conserved subfamily of WD- ...

https://en.wikipedia.org/wiki/RBBP5

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... ArgBP2 is highly abundant in cardiac muscle cells at sarcomeric Z-disc structures, and is expressed in other cells at actin ... sequencing and analysis of 500 novel complete protein coding human cDNAs". Genome Research. 11 (3): 422-35. doi:10.1101/gr. ...

https://en.wikipedia.org/wiki/SORBS2

September 1996). "Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi: ... "Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence" (PDF). ...

https://en.wikipedia.org/wiki/SH3KBP1

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... which binds to the consensus DNA sequence, 5-GGAA/T-3 within a 9-to-10 bp sequence, in the target genes it regulates. ETV6 ... Fainstein E, Einat M, Gokkel E, Marcelle C, Croce CM, Gale RP, Canaani E (December 1989). "Nucleotide sequence analysis of ... the gene is expressed in virtually all cell types and tissues. Mice depleted of the ETV6 gene by Gene knockout die between day ...

https://en.wikipedia.org/wiki/ETV6

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... In addition, the haptoglobin gene is expressed in murine and human adipose tissue. Haptoglobin had been shown to be expressed ... Raugei G, Bensi G, Colantuoni V, Romano V, Santoro C, Costanzo F, Cortese R (1983). "Sequence of human haptoglobin cDNA: ... Maeda N (1985). "Nucleotide sequence of the haptoglobin and haptoglobin-related gene pair. The haptoglobin-related gene ...

https://en.wikipedia.org/wiki/Haptoglobin

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... "A new growth-regulated complementary DNA with the sequence of a putative trans-activating factor". Cell Growth & ...

https://en.wikipedia.org/wiki/UHRF1

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ...

https://en.wikipedia.org/wiki/CRADD

Sudo K, Chinen K, Nakamura Y (Nov 1994). "2058 expressed sequence tags (ESTs) from a human fetal lung cDNA library". Genomics. ... "Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ...

https://en.wikipedia.org/wiki/Sphingosine_kinase_1

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... These proteins bind specific DNA sequences, including the kappa-B motif (GGGACTTTCC), in the promoters and enhancer regions of ... protein structure consisting of a pair of C2H2 zinc fingers with an acidic-rich region and a serine/threonine-rich sequence. ...

https://en.wikipedia.org/wiki/HIVEP2

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... OCT-4 consists of an octamer motif, a particular DNA sequence of AGTCAAAT that binds to their target genes and activates or ... Wey E, Lyons GE, Schäfer BW (March 1994). "A human POU domain gene, mPOU, is expressed in developing brain and specific adult ... Ben-Shushan E, Thompson JR, Gudas LJ, Bergman Y (April 1998). "Rex-1, a gene encoding a transcription factor expressed in the ...

https://en.wikipedia.org/wiki/Oct-4

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-828. doi:10.1101/gr.6.9.807. PMID ... The CHRNA7 gene is primarily expressed in the posterior amygdalar nucleus and the field CA3 of Ammon's horn in the mouse, and ... An evolutionarily recent partial duplication event in this region results in a hybrid containing sequence from this gene and a ... Groot Kormelink PJ, Luyten WH (1997). "Cloning and sequence of full-length cDNAs encoding the human neuronal nicotinic ...

https://en.wikipedia.org/wiki/CHRNA7

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro". DNA Research. 7 (1): 65-73. ... Nagase T, Kikuno R, Ishikawa KI, Hirosawa M, Ohara O (Feb 2000). "Prediction of the coding sequences of unidentified human ... sequencing and analysis of 500 novel complete protein coding human cDNAs". Genome Research. 11 (3): 422-35. doi:10.1101/gr. ...

https://en.wikipedia.org/wiki/SMPD4

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... Adams MD, Dubnick M, Kerlavage AR, Moreno R, Kelley JM, Utterback TR, Nagle JW, Fields C, Venter JC (March 1992). "Sequence ...

https://en.wikipedia.org/wiki/CNOT7

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... "NotI flanking sequences: a tool for gene discovery and verification of the human genome". Nucleic Acids Research. 30 (14): 3163 ... "Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence" (PDF). ...

https://en.wikipedia.org/wiki/CMAS_(gene)

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... Adenosine deamination of pre-mRNA results in a change in the amino acid sequence of the gene product, which differs from that ... predicted by the genomic DNA sequence. Other members of this family include DRADA (ADAR) and RED1 (ADARB1). Unlike ADAR1 and ...

https://en.wikipedia.org/wiki/ADARB2

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-828. doi:10.1101/gr.6.9.807. ... Lumican is highly expressed in pleural effusions (lung fluid) of patients with adenocarcinoma. Its expression was low in cancer ... "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proceedings of the National ... "Lumican is down-regulated in cells expressing endoglin. Evidence for an inverse correlationship between Endoglin and Lumican ...

https://en.wikipedia.org/wiki/Lumican

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... In contrast to the other class IA PI3Ks p110α and p110β, p110δ is principally expressed in leukocytes (white blood cells). ... The p55γ regulatory subunit is not thought to be expressed at significant levels in immune cells. There is no evidence for ... a novel phosphatidylinositol 3-kinase catalytic subunit that associates with p85 and is expressed predominantly in leukocytes ...

https://en.wikipedia.org/wiki/P110δ

June 2002). "Expressed sequence tag analysis of human RPE/choroid for the NEIBank Project: over 6000 non-redundant transcripts ... September 1996). "Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-828. doi: ... Homer1 is expressed widely in the central nervous system as well as peripheral tissue including heart, kidney, ovary, testis, ... This sequence motif exists in group 1 metabotrophic glutamate receptor (mGluR1 and mGluR5), IP3 receptors (IP3R), Shank, ...

https://en.wikipedia.org/wiki/HOMER1

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... This protein is expressed most abundantly in skeletal and cardiac muscle. The mutations in this gene have been associated with ...

https://en.wikipedia.org/wiki/Delta-sarcoglycan

"Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ... Abedinia M, Layfield R, Jones SM, Nixon PF, Mattick JS (1992). "Nucleotide and predicted amino acid sequence of a cDNA clone ...

https://en.wikipedia.org/wiki/Discoidin_domain-containing_receptor_2

"Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-28. doi:10.1101/gr.6.9.807. PMID ...

https://en.wikipedia.org/wiki/CCDC6

Sometimes, she is shown to be a little dangerous as seen in the title sequence to be driving a monster machine. She is also a ... She has a short temper and when provoked will often try to physically attack the other person to express her anger at the other ... Cleanup tagged articles without a reason field from June 2011, Wikipedia pages needing cleanup from June 2011, Sonny with a ...

https://en.wikipedia.org/wiki/List_of_Sonny_with_a_Chance_characters

Non-violent first-person shooter developers have expressed the notion that it is the challenge of making a non-violent game in ... Doom to become the green shroud from the slime-sequence in Chex Quest or the removal of the red shroud from the death-sequence ... Cleanup tagged articles without a reason field from July 2010, Wikipedia pages needing cleanup from July 2010, Use dmy dates ... non-violent arena-style laser tag FPS Nerf Arena Blast - A non-lethal Nerf FPS NRA Gun Club - A first-person target-shooting ...

https://en.wikipedia.org/wiki/Nonviolent_video_game

1997). "Generation and analysis of 280,000 human expressed sequence tags". Genome Res. 6 (9): 807-28. doi:10.1101/gr.6.9.807. ... 2004). "Complete sequencing and characterization of 21,243 full-length human cDNAs". Nat. Genet. 36 (1): 40-5. doi:10.1038/ ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ...

https://en.wikipedia.org/wiki/ODAM_(gene)

... and all or nearly all sequences of nonidentical vowels are possible. All sequences of nonidentical short vowels occur and are ... Phrases introduced by demonstratives can also be expressed using the definite article te or ngā preceding a noun followed by ... Language articles with IETF language tag, Languages with ISO 639-2 code, Languages with ISO 639-1 code, Language articles ... As in many other Polynesian languages, diphthongs in Māori vary only slightly from sequences of adjacent vowels, except that ...

https://en.wikipedia.org/wiki/Māori_language

"Shotgun sequencing of the human transcriptome with ORF expressed sequence tags". Proceedings of the National Academy of ... The splicing factor 3b/3a complex binds pre-mRNA upstream of the intron's branch site in a sequence independent manner and may ... "Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia". Nature ... "Large-scale concatenation cDNA sequencing". Genome Research. 7 (4): 353-8. doi:10.1101/gr.7.4.353. PMC 139146. PMID 9110174. ...

https://en.wikipedia.org/wiki/SF3B1

This sentiment was expressed by Fr. George Coyne, (the Vatican's chief astronomer between 1978 and 2006): ...in America, ... the sequence and duration of the creation "days" may be paralleled to the scientific consensus for the age of the earth and the ... Articles tagged with the inline citation overkill template from September 2021, Articles containing potentially dated ... It is rooted in belief that everything depends on God, or better, all is a gift from God." Other Christians have expressed ...

https://en.wikipedia.org/wiki/Creationism

Bouzid, W.; Klopp, C.; Vétillard, A. (December 2013). "Transcriptome analysis of expressed sequence tags (ESTs) from the venom ...

https://en.wikipedia.org/wiki/Tetramorium_bicarinatum

While on the one hand Wenger is filmed in low angle shot and sings rock music in the opening sequence, on the other hand he ... Throughout the film high and low angle shots are used in order to express the balance of power, those at the "top" and those at ... that the pretended serfdom of the Wave-supporters is also undermined by celebrating and tagging excessively. Why the teacher, ...

https://en.wikipedia.org/wiki/The_Wave_(2008_film)

In the letter, Webb stated that if Activision ever expressed interest in developing a Twinsanity remake, he and a handful of ... and Louis Bedigian of GameZone considered the RollerBrawl sequence to be the game's best. However, the platforming sections ... Twinsanity was re-released in the three-disc Crash Bandicoot Action Pack compilation alongside Crash Nitro Kart and Crash Tag ...

https://en.wikipedia.org/wiki/Crash_Twinsanity

While expressing displeasure at the cuts, Welles was appalled particularly with the musical score. The film was considered a ... Bronson, Gail, "In Advertising, Big Names Mean Big Money". U.S. News & World Report, July 4, 1983 The "probably" tag is still ... Welles made a correction of the script in 13 extraordinary sequences. The high salary demanded by del Río stopped the project. ... He recorded an introduction to an episode entitled "The Dream Sequence Always Rings Twice," which was partially filmed in black ...

https://en.wikipedia.org/wiki/Orson_Welles

San Antonio Express. (San Antonio, Tex.), Vol. 48, No. 194, Ed. 1 Sunday, July 13, 1913 HOUSTON DAILY POST...LEESVILLE, Texas ... "Patent for a new and improved merchandise tag. This design consists of a stick "provided with means for holding it fixed in its ... or absolves from only a portion of the legal con sequences of the crime. It is conditional when it does not become operative ... Mickle, Hans (January 20, 1880). "Story tells of one year's labor on Capote Farm". San Antonio Express (Republished by The ...

https://en.wikipedia.org/wiki/Leesville,_Texas

In Season 2, Reggie is fired by Sam after defending Ruth over her decision to direct GLOW's title sequence and the show's pilot ... They are known in the wrestling business as the tag team "The Lumberjacksons". At the insistence of Carmen, the duo train Ruth ... In Season 2, Bash meets Gary at Birdie's house after his falling out with Florian, and expresses his various issues to Gary ... Their in-ring personas are Edna and Ethel Rosenblatt: The Beatdown Biddies - a geriatric tag team based on the real GLOW ...

https://en.wikipedia.org/wiki/List_of_GLOW_characters

... expressed as the ratio Fi/Di of two integers. When TA1 is absent, it's assumed default value is '11', corresponding to fmax = 5 ... encoded in the sequence of characters following the initial character TS. ISO/IEC 7816-4:2005 concurs, stating that TS is a ... Cleanup tagged articles with a reason field from June 2014, Wikipedia pages needing cleanup from June 2014, Smart cards). ...

https://en.wikipedia.org/wiki/Answer_to_reset

Although non-battle sequences are rendered in 3D, battles themselves are still portrayed two dimensionally. The ability to talk ... Enix of America still expressed their satisfaction with the sales figures. Dragon Warrior VII met with mostly positive reviews ... even if she sometimes has to pressure them into letting her tag along. Maribel is primarily a magic user: with low starting ...

https://en.wikipedia.org/wiki/Dragon_Quest_VII

If you have express permission, this must be verified either by explicit release at the source or by e-mail or letter to the ... Atto additionally stated that he was not consulted about the project or approached for permission, and that the film sequence ... Instructions for filing If you have tagged the article for investigation, please complete the following steps: Add the ... About importing text to Wikipedia Posting copyrighted material without the express permission of the copyright holder is ...

https://en.wikipedia.org/wiki/Osman_Ali_Atto

He was in a Tag Team match with the at the time NSF champion Ryan Genesis against the tag team of The Fringe Connection (Myke ... At One Night Stand, when Eugene made his way to the ring to read a poem expressing his love of ECW, The Sandman came out with ... It was revealed that the entire sequence of events was a double-cross planned all along by Woman to aid Sandman while ... 1 ECW World Tag Team Championship (1 time) - with 2 Cold Scorpio Frontier Martial-Arts Wrestling WEW World Tag Team ...

https://en.wikipedia.org/wiki/The_Sandman_(wrestler)

Thus, tumors that express β3-tubulin are not only resistant to the cytotoxic effects of microtubule targeted drugs, but also to ... The sequence and exact composition of molecules during microtubule formation can thus be summarised as follows: A β-tubulin ... In vitro assays for microtubule motor proteins such as dynein and kinesin are researched by fluorescently tagging a microtubule ...

https://en.wikipedia.org/wiki/Microtubule

Tag lines for a December 1995 HBO special were heavily marketed on the copies of this single, but the special was canceled ... The same year, a Daily Express headline read "Drug Treatment Star Faces Life on the Run", while a News of the World headline ... sequencing arranger, sound effects, soundscape, synthesizer, synthesizer programming Caleena Campbell - children's chorus, ... One analyst for SoundScan expressed the opinion that the press was out of touch with the public when it came to Jackson; the ...

https://en.wikipedia.org/wiki/HIStory:_Past,_Present_and_Future,_Book_I

Programs are expressed in physical terms, using concepts like vision, hearing, and time to control character behavior. While ... As part of the One Laptop per Child project, a sequence of Smalltalk-based languages has been developed, each designed to act ... Cleanup tagged articles with a reason field from January 2013, Wikipedia pages needing cleanup from January 2013, Articles ... not as general-purpose as classical programming languages, Kodu can express advanced game design concepts in a simple, direct, ...

https://en.wikipedia.org/wiki/List_of_educational_programming_languages

"Expressed sequence tag analysis of adult human iris for the NEIBank Project: steroid-response factors and similarities with ...

https://en.wikipedia.org/wiki/TRIM63

Using order of operations, logical operators are applied to R-diagrams in the proper sequence. Finally, the result is an R- ... All the basic logical operations, or connectives, can be expressed using an R-diagrams as a more easily readable alternative to ... Graphical concepts in set theory, Diagrams, Pages that use a deprecated format of the math tags). ...

https://en.wikipedia.org/wiki/Randolph_diagram

Roger Tsien had built the foundation of next generation sequencing technology that is widely used today. On 26 October 1990, ... Tsien contributed to the fields of cell biology and neurobiology by discovering genetically programmable fluorescent tags, ... fluorescent proteins developed in Tsien's lab are used by scientists to track where and when certain genes are expressed in ... filed a patent of stepwise ("base-by-base") sequencing with removable 3' blockers on DNA arrays. Illumina integrated this ...

https://en.wikipedia.org/wiki/Roger_Y._Tsien

"Expressed sequence tag analysis of human RPE/choroid for the NEIBank Project: over 6000 non-redundant transcripts, novel genes ...

https://en.wikipedia.org/wiki/RAB27A

... , "HYPOCRITES", Marlborough Express (Marlborough, New Zealand: June 18, 1917): 8. Koszarski, 1976 p. 49. "Smalleys ... Weber's independence allowed her to shoot her films in sequence, as she preferred (rather than out of order to suit production ... headlined by Lon Chaney's The Hunchback of Notre Dame and marketed under the tag line "Great Pictures made from Great Books ... the National Board of Review expressed disapproval of the film for showings to mixed audiences, but later approved it for adult ...

https://en.wikipedia.org/wiki/Lois_Weber

Express Sequence Tag) Sequencing Team and Genome Fingerprinting and Mapping Teams at Washington University's Genome Sequence ... Led by Marra, the GSC was first in the world to sequence the SARS virus in 2003. Using this information they were the first to ... Sequencing techniques used for SARs were also applied to many fields of research and discovery, including cancer. In 2020, the ... At their request, Marra returned to British Columbia to head the Mapping and Sequencing teams. During his first two years with ...

https://en.wikipedia.org/wiki/Marco_Marra

Saudi scholar Saud al-Sarhan has expressed doubt over the age of the fragments as they contain dots and chapter separators that ... tags, when Muhammad is commanded to speak (e.g., "Say: 'God's guidance is the true guidance'," "Say: 'Would you then dispute ... and it often emphasizes the moral significance of an event over its narrative sequence. Supplementing the Quran with ...

https://en.wikipedia.org/wiki/Quran

Evolution: Uniform sequence of practiced steps by squad carrying out common tasks such as selection and placement of ladders, ... For example, a reported structure fire on Some Road would be tagged with box 6; the notecard in box 6 would contain the list of ... Limits vary with temperature and pressure, but are normally expressed in terms of volume percentage at 25 °C and atmospheric ... Personnel accountability system: Tag, "passport," or other system for identification and tracking of personnel at an incident, ...

https://en.wikipedia.org/wiki/Glossary_of_firefighting

Thurman has been a face and spokeswoman of Lancôme, TAG Heuer, Louis Vuitton, and Parfums Givenchy. She posed for the 2014 ... "Uma Thurman's Instagram posting with short sequence of the car crash video". Archived from the original on December 23, 2021. ... Roger Ebert expressed that "Thurman's performance is the best element" of the story. That year, she also starred as a British ... confirming that she had suffered sexual harassment and expressing disgust for Harvey Weinstein. In a 2018 interview with The ...

https://en.wikipedia.org/wiki/Uma_Thurman

Analysis of expressed sequence tags (ESTs) from a normalized cDNA library and isolation of EST simple sequence repeats from the ... expressed sequence tags (ESTs). Parasites and Vectors 4: 189, 2011. Expressed sequence tags for the chicken genome from a ... Expressed Sequence Tags Analysis and Design of Simple Sequence Repeats Markers from a Full-Length cDNA Library in Perilla ... Large-scale identification of expressed sequence tags (ESTs) from Nicotiana tabacum by normalized cDNA library sequencing. ...

https://eurekamag.com/research/051/522/051522122.php

We obtained 2,486 expressed sequence tags (ESTs) from 2,586 clones derived from the cDNA library of desiccated P. murrayi. The ... The subtractive library of desiccated nematodes showed 80 transcripts differentially expressed during desiccation stress, of ... had no significant match to any sequences in the current databases. The 1,387 unique transcripts were functionally classified ... 3 down-regulated and 2 continuously expressed in response to desiccation. The establishment of a desiccation EST collection for ...

https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-10-69/tables/3

Fall and winter expressed sequence tags of rainbow smelt (Osmerus mordax) and the identification of two genes up-regulated ... Fall and winter expressed sequence tags of rainbow smelt (Osmerus mordax) and the identification of two genes up-regulated ... Fall and winter expressed sequence tags of rainbow smelt (Osmerus mordax) and the identification of two genes up-regulated ... In order to identify genes differentially expressed in smelt liver response to winter water temperatures, a large-scale ...

https://nrc-publications.canada.ca/eng/view/object/?id=01cb25e4-1f83-47cd-9739-2033cb762d34

expressed sequence tags. Website summaries. Medical Information Search ... Expressed sequence tag - Wikipedia. In genetics, an expressed sequence tag (EST) is a short sub-sequence of a cDNA sequence. ... Expressed Sequence TagsGene LibrarySequence Tagged SitesAmino Acid SequenceBase SequenceGenes, PlantGenome, PlantPhylogeny ... A tree-structured index algorithm for expressed sequence tags clustering. Abstract Expressed sequence tags (ESTs) are ...

https://lookformedical.com/en/sites/expressed-sequence-tags

Rapid cDNA sequencing (expressed sequence tags) from a directionally cloned human infant brain cDNA library (English) ... Rapid cDNA sequencing (expressed sequence tags) from a directionally cloned human infant brain cDNA library. scientific article ... 3,400 new expressed sequence tags identify diversity of transcripts in human brain ... A murine sequence-specific DNA binding protein shows extensive local similarities to the amyloid precursor protein ...

https://m.wikidata.org/wiki/Q28264112

Gene expression profile of human bone marrow stromal cells: High-throughput expressed sequence tag sequencing analysis. ... Gene expression profile of human bone marrow stromal cells : High-throughput expressed sequence tag sequencing analysis. In: ... Gene expression profile of human bone marrow stromal cells : High-throughput expressed sequence tag sequencing analysis. / Jia ... Gene expression profile of human bone marrow stromal cells: High-throughput expressed sequence tag sequencing analysis. ...

https://jhu.pure.elsevier.com/en/publications/gene-expression-profile-of-human-bone-marrow-stromal-cells-high-t-3

In this study, 3,429 Express Sequence Tag (EST) sequences were generated from B. rapa cv. Osome cDNA library and the unique ... Gene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. Osome. Indian Journal of ... Gene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. Osome. ... Clustering of ESTs returned 333 contigs and 2,446 singlets, giving a total of 3,284 putative unigene sequences. This dataset ...

https://imsear.searo.who.int/handle/123456789/147623

keywords = "Amino Acid Sequence, Expressed Sequence Tags, Molecular Sequence Data, Protein Biosynthesis, Proteins, Sequence ... protein multiple sequence alignments from expressed sequence tags",. abstract = "MOTIVATION: An automatic sequence searching ... ProtEST : protein multiple sequence alignments from expressed sequence tags. / Cuff, J A; Birney, E; Clamp, M E et al. ... ProtEST : protein multiple sequence alignments from expressed sequence tags. In: Bioinformatics. 2000 ; Vol. 16, No. 2. pp. 111 ...

https://discovery.dundee.ac.uk/en/publications/protest-protein-multiple-sequence-alignments-from-expressed-seque

Consequently, comparative sequence analysis has significantly altered our view on the complexity of genome organization, gene ... Precomputed data sets cover homologous gene families, multiple sequence alignments, phylogenetic trees, intraspecies whole- ... a centralized infrastructure is required where all data generated by different sequencing initiatives is integrated and ... The number of sequenced genomes of representatives within the green lineage is rapidly increasing. ...

https://www.semanticscholar.org/paper/PLAZA%3A-A-Comparative-Genomics-Resource-to-Study-and-Proost-Bel/63f4c96346eed2fc43dfdc34c6e4f366bca127fe?p2df

Expressed Sequence Tags. In our help pages and training course material, we suggest Expressed Sequence Tags (ESTs) as a source ... Database Manager is a great tool for keeping your sequence databases up to date in Mascot. If the database is available as a ... there are only 1,207 distinct protein sequences in NCBInr, compared [...] ... of sequence data for organisms that are poorly represented in the protein databases. For example, even though the Atlantic cod ...

http://www.matrixscience.com/tag/dna

Expressed Sequence Tags * Genome, Plant * Microsatellite Repeats * Phylogeny * Polymorphism, Genetic * Triticum / ...

https://pubmed.ncbi.nlm.nih.gov/17272859/

Deletion mapping of homoeologous group 6-specific wheat expressed sequence tags.. Randhawa, H S; Dilbirligi, M; Sidhu, D; ... About 43% of the wheat group 6 ESTs identified rice homologs upon comparisons of genome sequences. Fifty-eight percent of these ...

https://pesquisa.bvsalud.org/perinatal/resource/es/mdl-15514044

Robust simple sequence repeat markers for spruce (Picea spp.) from expressed sequence tags. Theor. Appl. Genet. 109 (6), 1283- ... 关键词: Cycas debaoensis, Coralloid root, cDNA library, Expressed sequence tags, Symbiosis and defense, SSRs ... Key words: Cycas debaoensis, Coralloid root, cDNA library, Expressed sequence tags, Symbiosis and defense, SSRs ... Generation and characterization of expressed sequence tags (ESTs) from coralloid root cDNA library of Cycas debaoensis Yunhua ...

https://journal.kib.ac.cn/CN/Y2018/V40/I05/245

2, 19] B0 AT1 appears to be largely restricted to the kidneys and intestine; however, expressed sequence tags have been ... SLC6A19 is a sodium-dependent and chloride-independent neutral amino acid transporter, expressed predominately in the kidneys ...

http://emedicine.medscape.com/article/1115549-overview

Transcriptome assembly results were used for expressed sequence tags. Next, MAKER polished the alignments using Exonerate, ... expressed sequence tags with BLASTn ver. 2.2.28+(BLASTN, RRID:SCR_001598) ... the Sequence Read Archive (SRA) database under accession number SRX3462978, and isoform sequence from PacBio sequencing data ... repetitive sequences and 1.08 % coding sequences. Repeats were dominated by simple repeats (14.7% of genome) and transposable ...

https://www.researchgate.net/publication/327876646_The_genome_of_common_long-arm_octopus_Octopus_minor

Generation and analysis of 280,000 human expressed sequence tags. Hillier LD, et al. Genome Res, 1996 Sep. PMID 8889549 ... These reference sequences exist independently of genome builds. Explain. These reference sequences are curated independently of ... Source sequence(s). AC092685, BC040594, BP284170, BX647875, DB342562, T52873 Consensus CDS. CCDS75609.1 UniProtKB/Swiss-Prot. ... Source sequence(s). AC092685, BC040594, BX647875, DA637374, DB342562, T52873 Consensus CDS. CCDS75609.1 UniProtKB/Swiss-Prot. ...

https://www.ncbi.nlm.nih.gov/gene/168374

EXPRESSED SEQUENCE TAGS. ETIQUETAS DE SECUENCIA EXPRESADA. SEQUÊNCIAS REPETIDAS EM TANDEM. TANDEM REPEAT SEQUENCES. SECUENCIAS ... TERMINAL REPEAT SEQUENCES. SECUENCIAS REPETIDAS TERMINALES. SEQUÊNCIAS REPETITIVAS DE AMINOÁCIDOS. REPETITIVE SEQUENCES, AMINO ... OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS. ANALISIS DE SECUENCIA EN ORDEN DE OLIGONUCLEOTIDO. ANÁLISE HETERODUPLEX. HETERODUPLEX ...

https://decs.bvs.br/P/decswebpage2p.htm

Discovering Fragrance Biosynthesis Genes from Vanda Mimi Palmer Using the Expressed Sequence Tag (EST) Approach. By Seow-Ling ... Each patient has an image sequence. All the images in the same sequence, which are similar since they belong to the same ... I would like to express my sincere gratitude to people for helping me during my study. I would especially like to thank my ...

https://www.intechopen.com/chapters/38580

Hennig, S.; Panopoulou, G.; Lehrach, H.; Poustka, A.: Comparative expressed sequence tag analysis. In: Analysing Gene ... Groth, D.; Hartmann, S.; Panopoulou, G.; Poustka, A. J.; Hennig, S.: GOblet: annotation of anonymous sequence data with Gene ... Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention. Genome ...

https://www.molgen.mpg.de/publication-search/3661872?person=%2Fpersons%2Fresource%2Fpersons50458

TRANSCRIPTION PROFILING OF DROUGHT STRESS-INDUCED EXPRESSED SEQUENCE TAGS DURING COTTON BOLL FORMATION (Abstract Only) (3-Aug- ... VIRAL INTERGENIC SEQUENCE REPEATS THAT FAIL TO ENHANCE GENE EXPRESSION IN VIVO (Abstract Only) (25-Jul-02) ...

https://www.ars.usda.gov/research/publications/publications-at-this-location/?modecode=30-96-05-10&locpubs=yes&filterYear=2002

Expressed sequence tag analysis and development of gene. Autor/es:. CERVIGNI, G.; PANIEGO, N.; DIAZ, M; SELVA, J.P.; ZAPPACOSTA ... Sequence comparison against the cereals genes indexes (GI) revealed 50% significant hits. A total of 254 EST-SSRs were detected ... unigenes were functionally categorized by BLASTX analysis against sequences deposited in public databases, but only 37.80% ...

https://www.conicet.gov.ar/new_scp/detalle.php?keywords=echenique&id=21596&articulos=yes&detalles=yes&art_id=6784676

expressed sequence tag. GPCR. G protein-coupled receptor. NOEPA. N-oleoyl ethanolamide phosphoric acid. NPSPA. N-palmitoyl ... 1998a) is contained within an expressed sequence tag (EST) cDNA (accession no. aa419064) . We obtained this cDNA from the I.M.A ... Figure 1A shows the DNA sequence and deduced amino acid sequence of human Edg-7. This sequence is from a single cDNA, but it is ... Therefore, we mutated our Edg-4 cDNA to conform to the consensus sequence; this cDNA is expressed in pcDNA3.1. Edg-2, the full ...

https://molpharm.aspetjournals.org/content/57/4/753?ijkey=58e50b0c2ada672ebee23990ab578c2572b61da8&keytype2=tf_ipsecsha

In the case of the RNA editing enzyme ADARB1, which contains an Alu exon peptide in its catalytic domain, RNA sequencing ... Our data indicate that Alu elements have contributed to the acquisition of novel protein sequences during primate and human ... Using RNA sequencing, ribosome profiling, and proteomics data from human tissues and cell lines, we provide evidence for the ... and others carried out large-scale discoveries of Alu exons in human genes using cDNA sequences and expressed sequence tags ( ...

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0876-5

... and expressed-sequence tags (ESTs) were examined for mutations. ... Mitochondrial HVS-I sequences from 10,365 subjects belonging to ... Using CAT reporter constructs of sequences 5′ to the CTNS coding sequence, we identified the CTNS promoter as the region ... failed to bind target sequence in vitro and that all four had dominant negative effects when expressed in eukaryotic cells. ... The Promoter of a Lysosomal Membrane Transporter Gene, CTNS, Binds Sp-1, Shares Sequences with the Promoter of an Adjacent Gene ...

https://www.cell.com/ajhg/issue?pii=S0002-9297

4. Predicting proteomes of mitochondria and related organelles from genomic and expressed sequence tag data; D. Gaston, A. ...

https://www.elsevier.com/books/mitochondrial-function-part-b/allison/978-0-12-374622-1

Jakupovic, M., Heintz, M., Reichmann, P., Mendgen, K., Hahn, M. (2006). Microarray analysis of expressed sequence tags from ... Kim, S., Ahn, I. P., Lee, Y. H. (2001). Analysis of genes expressed during rice-Magnaporthe grisea interactions. Mol. Plant ... Moreover, the Zn-tolerant species, A. halleri, constitutively expressed high DFN and showed an increased tolerance to the ... Identification of microRNAs from Zn-treated Solanum nigrum roots by small RNA sequencing. Acta Physiol. Plant. 39, 32. doi: ...

https://www.frontiersin.org/articles/10.3389/fpls.2019.01171/full

Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags. ... Sequencing and de novo assembly of 150 genomes from Denmark as a population reference. Sørensen, L. M., Jensen, J. M., Petersen ... A human gut microbial gene catalogue established by metagenomic sequencing. Publikation: Bidrag til tidsskrift › ... In 1993 Søren Brunak became the founding Director of the Center for Biological Sequence Analysis (CBS) at the Technical ...

https://forskning.ku.dk/soeg/result/?pure=da%2Fpersons%2Fsoeren-brunak

Carson DL and Botha FC: Preliminary analysis of Expressed Sequence Tags for sugarcane. Crop Sci, 2000, 40: 1769-1779 ... Groenewald J-H, Hiten F and Botha FC: The introduction of an inverted repeat to the 5 untranslated leader sequence of a ... Carson DL, Huckett BI and Botha FC: Sugarcane ESTs differentially expressed in immature and maturing internodal tissue. Plant ... Venter M, Groenewald J-H & Botha FC: Sequence analysis and transcriptional profiling of two vacuolar H+-pyrophosphatase ...

http://www.sun.ac.za/english/faculty/agri/plant-biotech/publications/publication-archives

In the present study, expressed sequence tags (ESTs) were analyzed from a normalized complementary DNA library of P. solenopsis. (eurekamag.com)
However, ESTs generally correspond to only partial cDNA sequences, and EST samples are typically highly redundant (especially if EST sets are not derived from normalized EST libraries). (lookformedical.com)
A normalised cDNA library was constructed from Bermudagrass to attain notion into the transcriptome of Cynodondactylon L. An entire of 15 588 high-top quality expressed sequence tags (ESTs) from the cDNA library have been subjected to The Institute for Genomic Evaluation Gene Indices clustering devices to offer a unigene set. (lookformedical.com)
The data confirmed the central distribution of the sequences, the significant normalization of the sequence population, the frequent extension of contigs composed of existing human ESTs, and the identification of a series of potentially important homologues of known genes. (lookformedical.com)
We used high-throughput DNA sequencing analysis to generate 4258 single-pass sequencing reactions (known as expressed sequence tags, or ESTs) obtained from the 5′ (97) and 3′ (4161) ends of human cDNA clones from a HBMSC cDNA library. (elsevier.com)
Our goal was to obtain tag sequences from the maximum number of possible genes and to deposit them in the publicly accessible database for ESTs (dbEST of the National Center for Biotechnology Information). (elsevier.com)
Comparisons of our EST sequencing data with nonredundant human mRNA and protein databases showed that the ESTs represent 1860 gene clusters. (elsevier.com)
The EST sequencing data analysis showed 60 novel genes found only in this cDNA library after BLAST analysis against 3.0 million ESTs in NCBI's dbEST database. (elsevier.com)
IMSEAR at SEARO: Gene ontology based characterization of Expressed Sequence Tags (ESTs) of Brassica rapa cv. (who.int)
Clustering of ESTs returned 333 contigs and 2,446 singlets, giving a total of 3,284 putative unigene sequences. (who.int)
MOTIVATION: An automatic sequence searching method (ProtEST) is described which constructs multiple protein sequence alignments from protein sequences and translated expressed sequence tags (ESTs). (dundee.ac.uk)
In our help pages and training course material, we suggest Expressed Sequence Tags (ESTs) as a source of sequence data for organisms that are poorly represented in the protein databases. (matrixscience.com)
The 5011 high-quality expressed sequence tags (ESTs) were obtained from 5393 randomly picked cDNA clones. (kib.ac.cn)
Clustering and assembly of ESTs resulted in 2984 unique sequences, consisting of 618 contigs and 2366 singlets. (kib.ac.cn)
Generation and characterization of expressed sequence tags (ESTs) from coralloid root cDNA library of Cycas debaoensis [J]. Plant Diversity, 2018, 40(05): 245-252. (kib.ac.cn)
About 43% of the wheat group 6 ESTs identified rice homologs upon comparisons of genome sequences. (bvsalud.org)
In the 1990s and early 2000s, Makałowski and others carried out large-scale discoveries of Alu exons in human genes using cDNA sequences and expressed sequence tags (ESTs) [ 11 , 12 , 16 ]. (biomedcentral.com)
Contigs in this region were assembled, and expressed-sequence tags (ESTs) were examined for mutations. (cell.com)
To gain a better understanding of changes in gene expression associated with cold acclimation in blueberry, the Rowland laboratory (USDA-ARS, Beltsville, MD) has undertaken a genomics approach based on the analysis of Expressed Sequence Tags (ESTs). (usda.gov)
The expressed sequence tags (ESTs), hormones and genes responsible for regulating wood formation were identified in Populu s increasingly [7, 8, 9]. (researchsquare.com)
Using simple sequence repeat (SSR) markers developed from expressed sequence tags (ESTs), the genetic diversity of 43 populations of Festuca species from Oruro, La Paz, Potosi and Cochabamba departments was evaluated for the purpose of providing information for effective conservation and breeding. (slu.se)

Our data indicate that Alu elements have contributed to the acquisition of novel protein sequences during primate and human evolution. (biomedcentral.com)
Using the protein sequences of these receptors as queries we identified overlapping expressed sequence tags which were predicted to encode an additional subtype. (ku.dk)
These scholarly research have got supplied a summary of genes that are principal downstream goals of Oct3/4, and demonstrated physical associations between transcription aspect promoter and protein sequences transgene [19]. (bio2009.org)

However, the presence of an in-frame Alu exon in the mRNA coding sequence does not guarantee its translation and incorporation into stable protein products. (biomedcentral.com)
GPRC5D mRNA is widely expressed in the peripheral system but all four receptors show distinct expression patterns. (ku.dk)
Interestingly, mRNA levels of all four group 5 receptors were found in medium to high levels in the kidney, pancreas and prostate and in low to medium levels in the colon and the small intestine, whereas other organs only express a subset of the genes. (ku.dk)
2. Define the transcriptional landscape of embryogenic cells using high throughput mRNA sequencing. (europa.eu)

A set of core gene families within the green plant lineage are proposed that will be instrumental to assess the gene space of draft or newly sequenced plant genomes during the assembly or annotation phase, based on phylogenetic profiling. (semanticscholar.org)
An updated annotation of the E. grandis plastid genome is reported, and predicted editing sites are identified to allow for the discrimination of RNA-sequencing reads between nuclear and organellar gene copies, finding that nuclear copies of organellar genes are not expressed in E.grandis. (semanticscholar.org)
EST sequence annotation revealed that 2333 and 1901 unigenes were functionally annotated in the NCBI non-redundant database and Swiss-Prot protein database, respectively. (kib.ac.cn)
GOblet: annotation of anonymous sequence data with Gene Ontology and pathway terms. (mpg.de)
Comprehensive transcription factor (TF) annotation discovered 978 TFs in 62 families, among which 404 TFs within 40 families were differentially expressed upon dehydration-rehydration. (nature.com)
Details of unigene entries, deduced amino acid sequences and putative annotation are available from our database to browse, search and download. (biomedcentral.com)

Although stated in the patent application to be the full translational open reading frame (ORF), our nucleotide sequence analyses of multiple cDNAs from independent RT-PCR reactions differed consistently from the patent application sequence, most problematically in that all our cDNAs lacked an in-frame translational termination codon. (aspetjournals.org)
In the case of the RNA editing enzyme ADARB1, which contains an Alu exon peptide in its catalytic domain, RNA sequencing analyses of A-to-I editing demonstrate that both the Alu exon skipping and inclusion isoforms encode active enzymes. (biomedcentral.com)
By haplotype and linkage-disequilibrium analyses in Finnish carriers of a putative founder mutation, the critical region was narrowed to 250 kb, of which we sequenced, assembled, and annotated 207 kb. (cell.com)
Functional analyses of the four mutants disclosed that two, R225C and R225S, failed to bind target sequence in vitro and that all four had dominant negative effects when expressed in eukaryotic cells. (cell.com)

EST sequences are valuable data for gene discovery, especially for plant species with large genomes that have not been fully sequenced, and they provide a convenient means of accessing the transcriptome of a given species. (lookformedical.com)

Such a database would add significant value to existing public EST databases, which consist mostly of sequences derived from the extremities of cDNAs, and facilitate the construction of contigs of transcript sequences. (lookformedical.com)
Science: molecular biology) expressed sequence tags are sequence tagged sites derived from cdnas. (biologyonline.com)

Intuitive and graphical representations of EST/unigene sequences, functional annotations, metabolic pathways and metabolic networks are also available. (biomedcentral.com)

The University of Florida has purchased Geospiza's lab-management software for its genomics sequencing lab, the company said last week. (genomeweb.com)
In November, 2017, the NASEM Roundtable on Genomics and Precision Health held the workshop, " Implementing and Evaluating Genomic Screening Programs in Health Care Systems , " which explored the emerging landscape of worldwide organizations that are (or soon will be) applying genome sequencing as a screening tool in populations. (cdc.gov)

Using RNA sequencing, ribosome profiling, and proteomics data from human tissues and cell lines, we provide evidence for the translational activities of Alu exons and the presence of Alu exon derived peptides in human proteins. (biomedcentral.com)
We conducted proteome analysis to explore specific proteins that can be used as diagnostic markers for urothelial carcinoma, and C7orf24 was identified as a highly expressed protein in cancer tissues [ 7 ]. (hindawi.com)
CXCR5 gene is specifically expressed in Burkitt′s lymphoma and lymphatic tissues, such as follicles in lymph nodes, as well as in spleen. (fishersci.com)

Systematic, high-throughput sequencing of such products would result in an expressed sequence tag (EST) database consisting of central, generally coding regions of expressed genes. (lookformedical.com)
It is expected that high-throughput EST sequencing and data mining analysis will greatly promote our understanding of gene expression in these cells and of growth and development of the skeleton. (elsevier.com)
Vieux, E.F., Kwok, P.Y. and Miller, R.D. (2002) Primer Design for PCR and Sequencing in High-Throughput Analysis of SNPs. (scirp.org)

Accumulation levels of seed storage compounds, such as triacylglycerol (TAG), proteins and carbohydrates, show significant species-specific variations. (biomedcentral.com)
MADS-box genes encode proteins that share a highly conservative DNA-binding domain, the MADS domain, which recognizes similar 10-bp A/T-rich DNA sequences, the CArG-box [ 4 ]. (biomedcentral.com)
Mouse immunization with the fusion proteins induced high levels of antibodies against PspA and Pds, able to bind to intact pneumococci expressing a homologous PspA with the same intensity as antibodies to rPspA alone or the co-administered proteins. (cdc.gov)
Finally, mice immunized with fusion proteins were protected against fatal challenge with pneumococcal strains expressing heterologous PspAs. (cdc.gov)
The scientists focused on gene expression - the process by which a gene's DNA sequence is converted into cellular proteins. (uclahealth.org)
This protease is used to cleave affinity tags, such as MBP tag or poly-His tag from fusion proteins. (cellron.com)
These proteins either arise from proteins expressed by cells at the deposition site (localized), or they precipitate systemically after production at a local site (systemic). (medscape.com)

Microarray analysis indentified differentially expressed genes which can be further investigated by conventional methods. (cdc.gov)
From the profiles of 30,000 genes, we selected 68 differentially expressed genes among sham (S), R0 and R5 groups using a random-variance F-test. (bvsalud.org)

In order to identify genes differentially expressed in smelt liver response to winter water temperatures, a large-scale analysis of gene expression using suppression subtractive hybridization was carried out using samples obtained in fall and winter. (canada.ca)
article{e9ac4e46-7f3f-4f79-aec3-ce5508715b29, abstract = {Comparative analysis of expressed sequence tags is becoming an important tool in molecular ecology for comparing gene expression in organisms grown in certain environments. (lookformedical.com)
Consequently, comparative sequence analysis has significantly altered our view on the complexity of genome organization, gene function, and regulatory pathways. (semanticscholar.org)
Generation and analysis of 280,000 human expressed sequence tags. (nih.gov)
Comparative expressed sequence tag analysis. (mpg.de)
A total of 7,029 (79.11%) unigenes were functionally categorized by BLASTX analysis against sequences deposited in public databases, but only 37.80% could be classified according to Gene Ontology. (conicet.gov.ar)
In 1993 Søren Brunak became the founding Director of the Center for Biological Sequence Analysis (CBS) at the Technical University of Denmark (DTU), heading a multi-disciplinary research group of molecular biologists, biochemists, medical doctors, physicists, and computer scientists. (ku.dk)
Under the agreement, the Interdisciplinary Center for Biotechnology Research's Next Generation DNA Sequencing Laboratory will use Geospiza's FinchLab platform to manage multiple genetic analysis technologies, including capillary electrophoresis and next-generation sequencing tools from Applied Biosystems and Roche. (genomeweb.com)
2003). „Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences." . (wikipedia.org)
Blair, M.W., Panaud, O. and McCouch, S.R. (1999) Inter-Simple Sequence Repeat (ISSR) Amplification for Analysis of Microsatellite Motif Frequency and Fingerprinting in Rice (Oryza sativa L.). Theoretical and Applied Genetics, 98, 780-792. (scirp.org)
Thirdly, we conducted expression pattern analysis of NAC15 gene, and proved NAC15 gene was most highly expressed in the xylem. (researchsquare.com)
Data from: Analysis of expressed sequence tags from a significant livestock pest, the stable fly (Stomoxys calcitrans), identifies transcripts with a putative role in chemosensation and sex determination. (usda.gov)
The bacterial 16S tag-encoded FLX-titanium amplicon pyrosequencing (bTEFAP) method was used to carry out the classification analysis of bacterial flora in adult female and male horn flies and horn fly eggs. (usda.gov)

GPRC5D has seven putative transmembrane segments and is expressed in the cell membrane. (ku.dk)

However, its amino acid sequence and gene locus were unknown for many years [ 1 - 3 ]. (hindawi.com)
The four human receptor subtypes, which we assign to group 5 of family C GPCRs, show 31-42% amino acid sequence identity to each other and 20-25% sequence identity to the transmembrane domains of metabotropic glutamate receptor subtypes 2 and 3 and other family C members. (ku.dk)

Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. (nih.gov)
cDNA sequences were confirmed using the SP6 and T7 Promoter Primers. (promega.com)
A) Map of RNA sequencing reads aligned to the promoter area of Csmd1. (lckinhibitor.com)

The number of sequenced genomes of representatives within the green lineage is rapidly increasing. (semanticscholar.org)
Phytozome provides a view of the evolutionary history of every plant gene at the level of sequence, gene structure, gene family and genome organization, while at the same time providing access to the sequences and functional annotations of a growing number of complete plant genomes. (semanticscholar.org)
PIECE is a powerful tool for comparing gene sequences and provides valuable insights into the evolution of gene structure in plant genomes. (semanticscholar.org)
These unigenes were annotated by a sequence similarity search against databases including TAIR, NR protein database, Gene Ontology, COG, Swiss-Prot, TrEMBL and Kyoto Encyclopedia of Genes and Genomes (KEGG). (biomedcentral.com)

Forward and reverse subtractions were performed, subtraction-enriched products were cloned, and clones were sequenced from both of the resulting libraries. (canada.ca)

However, individual transcript sequences of the same gene can differ through naturally occurring variations (e.g. polymorphisms), each with its own valid existence. (origene.com)

This dataset contained 1,017 EST sequences functionally annotated to stress responses and from which expression of randomly selected SRGs were analyzed against cold, salt, drought, ABA, water and PEG stresses. (who.int)

Large-scale expressed sequence tag (EST) collections are also making valuable contributions to the investigation of genetic traits of crops. (biomedcentral.com)
Note that the sequence of available ORFs provided by InvivoGen can differ from a given reference Genbank record due to genetic variations and/or alternative splicing. (invivogen.com)

Comparing an EST sequence with the human genomic sequence database enables assignment of an EST to a specific chromosomal region (a process called digital gene localization) and often enables immediate partial determination of intron/exon boundaries within the genomic structure. (elsevier.com)

To explore all this genome information, a centralized infrastructure is required where all data generated by different sequencing initiatives is integrated and combined with advanced methods for data mining. (semanticscholar.org)
The two schools have fiber optic cables running between them that can "transfer the huge amounts of data" the sequencing projects generate, Apicella continued. (genomeweb.com)
cDNA and/or genome sequence data of these important oil crops are becoming publicly available. (biomedcentral.com)
This data set was obtained from pyrosequencing of stable fly immature and adult specimens, comprising genes expressed at these stages. (usda.gov)
These early adopters have taken a leap of faith that having genome sequence data readily at hand to guide health management will eventually yield improved health outcomes. (cdc.gov)
The existence of early adopter organizations generating sequence data on large numbers of individuals with paired longitudinal electronic health record data provides opportunities for real-world clinical research directed at health outcome endpoints. (cdc.gov)
Time will tell if such collaborations can be developed and maintained, but failure to do so would seem a missed opportunity to generate clinical utility data for using genome sequencing as a screening tool to prevent disease and improve population health. (cdc.gov)
Data show that junctophilin-4 (JP4) is expressed in T cells and localized at the endoplasmic reticulum-plasma membrane junctions to regulate Ca(2+) signaling. (genscript.com)
Our data suggest that Pi limitation activates Pi-related metabolism, RNA degradation, and TAG biosynthesis while inhibits ribosome biosynthesis and TCA cycle, leading to enhanced carbon fluxes into lipids. (biomedcentral.com)
00:06:29 We call on all countries to increase the sequencing of the virus to supplement ongoing surveillance, monitoring and testing efforts and to share that data internationally. (bvsalud.org)

Main objective in this project has been to isolate and characterize the different embryogenic cell types in Brassica napus microspore culture using a set of fluorescently-tagged gene reporters. (europa.eu)

In addition, EST-derived microsatellite loci (also known as simple sequence repeats or SSRs) were isolated and characterized. (eurekamag.com)
Furthermore, a total of 94 simple sequence repeats (SSRs) were discovered, of which 20 loci were successfully amplified in C. debaoensis . (kib.ac.cn)

The gene expression profile of this cell type is revealed by analyzing both the frequency with which a message is encountered and the functional categorization of expressed sequences. (elsevier.com)

A partial nucleotide sequence similar to Edg-2 and Edg-4 was found in a published patent application by Ellis et al. (aspetjournals.org)
Using that nucleotide sequence as a guide, we amplified via reverse transcription-polymerase chain reaction (RT-PCR) a 1022 base pair fragment from HEK293 cell RNA (oligonucleotide primers: forward 5′-ccacaatgaatgagtgtcact, reverse 5′-tttatactggctgcccgt). (aspetjournals.org)

I am an early career scientist interested in the evolution of deep eukaryote lineages and have therefore developed extensive skills in culturing, sequencing, phylogenetics and bioinformatics. (uio.no)

Theoretical considerations predict that amplification of expressed gene transcripts by reverse transcription-PCR using arbitrarily chosen primers will result in the preferential amplification of the central portion of the transcript. (lookformedical.com)

Out of 2000 expressed sequence tags obtained from P. somniferum, 69 show increased expression in morphinan alkaloid-containing species. (opioids.com)

emagglutinin, the main floor protein of influenza viruses, was recombinantly expressed in eukaryotic cells as a monomer as a substitute of its native trimer, and was solely immunogenic when administered with an adjuvant [Pion et al. (vitechnologies.com)

Recombinant Biotinylated Human CD155/PVR Protein is expressed from Expi293 with His tag and Avi tag at the C-terminal.It contains Trp21-Asn343. (kactusbio.com)
POLR3H Human Recombinant expressed in E.Coli is a single, non-glycosylated polypeptide chain containing 227a.a. (1-204 a.a.) and having a molecular weight of 25.3kDa (Molecular size on SDS-PAGE will appear higher).POLR3H is fused to a 23a.a. (betalifesci.com)

identified 46 common cancer signature genes from a pooled DNA array database of previously reported human cancers and they reported that one of the highly expressed genes was C7orf24 [ 6 ]. (hindawi.com)
Then we identified a nucleus-targeted gene, NAC15 gene, which was one of the most highly expressed genes in the stem among NAC family members. (researchsquare.com)

You can query the sequence database by clone ID, accession number or gene (clone) name below. (usda.gov)
The molecular sequence of this clone aligns with the gene accession number as a point of reference only. (origene.com)
One clone ID might be correlated to multiple accession numbers, which share the same CDS sequence. (genscript.com)

In addition, please pay attention to the signal peptide, propeptide and transit peptide in target ORF, which may affect the choice of vector (N/C terminal tag vector). (genscript.com)
This short sequence (YPYDVPDYA) encodes a peptide which is the epitope of a very efficient and specific monoclonal antibody. (invivogen.com)

We developed expressed sequence tag microsatellite markers (EST-SSR) for X. vietnamensis . (datadryad.org)

The overall results indicated that NAC15 gene is highly expressed in the xylem of poplar and plays an important role in wood formation in transgenic tobacco, which provides a foundation for the identification of wood-associated downstream genes and has significant implication in tree biology and biotechnology. (researchsquare.com)
The Us9 gene is highly conserved among the alphaherpesviruses sequenced to date, yet its function remains unknown. (vetres.org)

ORF sequences can be delivered in our standard vector, pcDNA3.1 + /C-(K)DYK or the vector of your choice as an expression/transfection-ready ORF clone. (genscript.com)

The two new sequencers will make both universities "competitive for major federal funding related to new genome sequencing initiatives, including the [National Institute of Health's] microbiome project," Apicella explained. (genomeweb.com)

The unigenes have been moreover subjected to a search for EST-derived straightforward sequence repeats (EST-SSRs) and conserved-intron scanning primers (CISPs), which might be useful as DNA markers. (lookformedical.com)
In this study, we developed ocsESTdb, the first database of expressed sequence tag (EST) information on seeds of four large-scale oil crops with an emphasis on global metabolic networks and oil accumulation metabolism that target the involved unigenes. (biomedcentral.com)

In a cross-validated test of protein secondary structure prediction, alignments from the new procedure led to an improvement of 3.4% average Q3 prediction accuracy over single sequences. (dundee.ac.uk)

Read Large-scale EST sequencing in rice, Plant Molecular Biology on DeepDyve, the largest online rental service for scholarly research with thousands of academic publications available at your fingertips. (lookformedical.com)

However, the calcium-mobilizing receptor Edg-4 is not expressed in some cell lines that exhibit robust calcium responses to this ligand, thus predicting the existence of additional receptor subtypes. (aspetjournals.org)
Components of the zebrafish GDNF receptor complex are expressed very early in the development of enteric nervous system precursors, and are already present as these cells begin to enter the gut and migrate caudally along its length. (biologists.com)
Both gfra1a and gfra1b as well as ret are expressed at this time, while gfra2 expression, the receptor component that binds the GDNF-related ligand neurturin, is not detected until the precursors have migrated along the gut. (biologists.com)

Additionally, expressed sequence tag database information can be used for the construction of DNA microarrays and for the detection of single nucleotide polymorphisms. (lookformedical.com)
Additionally, attendees broadly expressed the perspective that health care disparities for genomic applications in underserved populations are an existing and expanding issue no matter the level of evidence of clinical utility. (cdc.gov)

Gfra genes are also expressed in regions of the zebrafish brain and peripheral ganglia, expression domains conserved with other species. (biologists.com)

The bTEFAP method identified 16S rDNA sequences in our samples which allowed the identification of various prokaryotic taxa associated with the life stage examined. (usda.gov)

These include immune response-related genese, transcriptional factors, signal transducing molecules and Expressed Sequence Tags. (cdc.gov)

Anatomy9

Organisms15

Chemicals and Drugs13

Analytical, Diagnostic and Therapeutic Techniques and Equipment18

Phenomena and Processes42

Disciplines and Occupations3

Technology, Industry, Agriculture4

Information Science12

Health Care1

Mining SNPs from EST databases. (1/3795)

UCP4, a novel brain-specific mitochondrial protein that reduces membrane potential in mammalian cells. (2/3795)

Combining SSH and cDNA microarrays for rapid identification of differentially expressed genes. (3/3795)

The Dictyostelium developmental cDNA project: generation and analysis of expressed sequence tags from the first-finger stage of development. (4/3795)

Molecular identification of human G-substrate, a possible downstream component of the cGMP-dependent protein kinase cascade in cerebellar Purkinje cells. (5/3795)

Cloning, expression, and genetic mapping of Sema W, a member of the semaphorin family. (6/3795)

Exon shuffling by L1 retrotransposition. (7/3795)

A RAPID algorithm for sequence database comparisons: application to the identification of vector contamination in the EMBL databases. (8/3795)

Expressed Sequence Tags

Gene Library

Sequence Tagged Sites

DNA, Complementary

Molecular Sequence Data

Sequence Analysis, DNA

Contig Mapping

Gene Expression Profiling

Databases, Genetic

Amino Acid Sequence

Base Sequence

Genes, Plant

Genome, Plant

Chromosome Mapping

Sequence Alignment

Databases, Nucleic Acid

DNA, Plant

Cloning, Molecular

Computational Biology

Phylogeny

Sequence Homology, Amino Acid

Oligonucleotide Array Sequence Analysis

Gene Expression Regulation, Plant

Genomics

Multigene Family

RNA, Messenger

Genetic Markers

RNA, Plant

Microsatellite Repeats

Databases, Factual

Molecular Sequence Annotation

Plant Proteins

Cluster Analysis

Software

Gene Expression

Genome

Reverse Transcriptase Polymerase Chain Reaction

Open Reading Frames

Oryza sativa

Arabidopsis

Evolution, Molecular

Chromosomes, Plant

Internet

Alternative Splicing

Sequence Homology, Nucleic Acid

Sequence Homology

Plant Structures

Triticum

Blotting, Northern

Physical Chromosome Mapping

Transcriptome

Species Specificity

DNA Primers

Radiation Hybrid Mapping

Polymerase Chain Reaction

Genome, Human

User-Computer Interface

Conserved Sequence

Plant Diseases

Chromosomes, Artificial, Bacterial

Polymorphism, Single Nucleotide

Transcription, Genetic

Untranslated Regions

Plant Roots

Ophthalmology

Zea mays

Lens Plant

Lotus

Helminth Proteins

Algorithms

Coffea

Sorghum

DNA, Helminth

Gene Expression Regulation

Algal Proteins

Exons

Solanaceae

Genes, Insect

Sequence Analysis, Protein

Saccharum