• Sequencing of 16 M. persicae cDNA libraries generated 26,669 expressed sequence tags (ESTs). (nih.gov)
  • A total of 600,000 sequencing attempts were made, generating a total of 438,321 quality ESTs. (auburn.edu)
  • In order to select reliable SNPs, contigs containing four or more ESTs should be used and the minor allele sequence should be represented at least twice. (auburn.edu)
  • Application of such quality assessment measures, along with large resources of ESTs, should provide effective means for SNP identification in species where genome sequence resources are lacking. (auburn.edu)
  • Here, we describe the isolation and characterization of expressed sequence tags (ESTs) isolated from a chicken pineal gland cDNA library. (westminster.ac.uk)
  • 6% of the ESTs matched neither GenBank cDNA sequences nor the newly assembled chicken genomic DNA sequence, three ESTs aligned with sequences designated to be on the Z_random, while one matched a W chromosome sequence and could be useful in cataloguing functionally important genes on this sex chromosome. (westminster.ac.uk)
  • Additionally, single nucleotide polymorphisms (SNPs) were identified and validated in 10 ESTs that showed 98% or higher sequence similarity to known chicken genes. (westminster.ac.uk)
  • Single pass sequencing of such libraries will be used to create a catalogue of Expressed Sequence Tags (ESTs) that will be used to develop single nucleotide polymorphic (SNP) markers. (europa.eu)
  • The aim of this project was to generate clones and sequence data in the form of ESTs to provide a platform for the future molecular characterisation of the processes involved in protective dehydration. (nih.gov)
  • Among the matched sequences, ESTs were identified from tissues other than berries or from berries at different developmental stages. (biomedcentral.com)
  • Additional MPSS signatures not matching to known grape ESTs can extend our knowledge of the V. vinifera transcriptome, particularly when these data are used to assist in annotation of whole genome sequences from Vitis vinifera . (biomedcentral.com)
  • The Atlantic Cod Genomics and Broodstock Development Project (www.codgene.ca) aims to generate an extensive set of molecular tools for cod, including a database containing approximately 160,000 expressed sequence tags (ESTs). (canada.ca)
  • To date approximately 25,000 ESTs have been generated from normalized cDNA libraries representing various tissues (e.g. gonad, liver, heart, gill, brain), and suppression subtractive hybridization (SSH) libraries are being created for the purpose of identifying cod genes responsive to immunogens or environmental stress. (canada.ca)
  • Sequence Tags (ESTs) from worldwide CDNA sequencing efforts. (cnas.ro)
  • A survey of the greater than 14,000 expressed sequence tags (ESTs) from B malayi deposited in dbEST shows that greater than 2% of the ESTs sequenced from Mf cDNA libraries correspond to Bm-spn-2. (elsevierpure.com)
  • The prediction of transcription factor binding sites in genomic sequences is in principle very useful to identify upstream regulatory factors. (lu.se)
  • Their design of molecular probes that target the genomic sequences of specific pathogens can enable diagnosticians and clinical laboratories to spot extremely small amounts of viral and bacterial pathogens in patients' biological samples, as well as in the environment and wildlife. (darkdaily.com)
  • After Blast analysis within GenBank, 64% could be identified, 21% were homologous to unannotated expressed sequence tag (EST) or genomic sequences, and 15% were novel. (appliedbioinfo.com)
  • In silico comparison of cDNA libraries identified aphid genes with tissue-specific expression patterns, and gene expression that is induced by feeding on Nicotiana benthamiana. (nih.gov)
  • Furthermore, 2423 genes that are novel to science and potentially aphid-specific were identified. (nih.gov)
  • These include previously unknown sequence data, a collection of expressed genes, molecular markers, and a DNA microarray that can be used to study aphid gene expression. (nih.gov)
  • Of these unique sequences, over 35% had significant similarities to known genes by BLASTX searches, which allowed the identification of 14,776 unique genes in the catfish. (auburn.edu)
  • However, when applying this concept to genomes of multicellular organisms such as mammals, one has to deal with a large number of false positive predictions since many transcription factor genes are only expressed in specific tissues or cell types. (lu.se)
  • We developed TS-REX, a database/software system that supports the analysis of tissue and cell type-specific transcription factor-gene networks based on expressed sequence tag abundance of transcription factor-encoding genes in UniGene EST libraries. (lu.se)
  • Here, we have described resources that may be useful in comparative and functional genomic analysis of genes expressed in an important organ, the pineal gland, in a model and agriculturally important organism. (westminster.ac.uk)
  • Genes known to be highly expressed in β-cells were represented at a high frequency, namely insulin (15 of 80 clones), islet amyloid polypeptide (8 of 80 clones), proinsulin convertase 1 (6 of 80 clones), and neuropeptide Y (2 of 80 clones). (diabetesjournals.org)
  • Genes specifically expressed in fruit tissues were selected and their isolated promoter regions were fused with the GUSPlus reporter gene for evaluation in transgenic plants. (biomedcentral.com)
  • Use of these fruit specific/preferential promoters for genetic engineering can help with precise expression of beneficial genes and help with accurate prediction of the activity of new genes in host fruit plants. (biomedcentral.com)
  • Quantitative PCR and high-throughput methods, such as expressed sequence tag analysis, have been used for measuring gene expression and identifying subsets of elm genes that are differentially expressed in the presence of O. novo-ulmi . (sisef.it)
  • These analyses have also helped identify genes that were differentially expressed in DED fungi grown under defined experimental conditions. (sisef.it)
  • In the present study, 795 cotton tubulin expressed sequence tags were analysed and 19 beta-tubulin genes (TUB) cloned from a cotton cDNA library. (singerinstruments.com)
  • Three methods are being used to generate markers within specific genes: 1) identification of gene-linked microsatellites, 2) development of exon-primed intron-flanking (EPIC) markers, and 3) analysis of single nucleotide polymorphisms (SNPs) within EST clusters. (canada.ca)
  • Through searches in publicly available barley sequence databases we have obtained a list of 48 barley NAC genes ( HvNACs ) with 43 of them representing full-length coding sequences. (biomedcentral.com)
  • One-third of the 471 genes predicted to encode transcription factors are differentially expressed during sexual development of S. commune . (nature.com)
  • Genes preferentially expressed in bovine oocytes revealed by subtractive and suppressive hybridization. (appliedbioinfo.com)
  • The subtracted library was characterized by sequencing 185 random clone inserts, representing 146 nonredundant genes. (appliedbioinfo.com)
  • Several well-known oocyte-specific genes were represented, including growth differentiation factor 9, bone morphogenetic protein 15, or the zona pellucida glycoprotein genes. (appliedbioinfo.com)
  • B-cell translocation gene 4, cullin 1, MCF.2 transforming sequence, a locus similar to snail soma ferritin, and three unidentified genes were, indeed, preferentially expressed in the oocyte, even though most were also highly expressed in testis. (appliedbioinfo.com)
  • To systematically discover ovarian fertility genes en masse, we employed a mouse model (Foxo3) in which follicles are assembled normally but then undergo synchronous activation. (appliedbioinfo.com)
  • We developed a microarray-based approach for the systematic discovery of tissue-specific genes and, by applying it to Foxo3 ovaries and other samples, defined a surprisingly large set of ovarian factors (n = 348, approximately 1% of the mouse genome). (appliedbioinfo.com)
  • Over-expressed MS1 co-localized with actin in H9c2 cells and altered expression of genes of the myocardin-related transcription factor (MRTF)/serum response factor (SRF) transcriptional pathways and in addition the apoptosis repressor with caspase recruitment domain (Nol3) gene. (westminster.ac.uk)
  • In this study, Roche-454 RNA-seq reads from 27 libraries of various oil palm tissues were systematically analysed to identify a set of potential reference genes. (mpob.gov.my)
  • A polymerase chain reaction-based subtractive hybridization procedure was applied to cDNAs prepared from mouse insulinoma (βTC3) and glucagonoma (αTC2) cell lines to construct a library of cDNAs that are highly expressed in pancreatic β-cells. (diabetesjournals.org)
  • Of these, 17 were identical or homologous to known mammalian cDNAs or expressed sequence tags. (diabetesjournals.org)
  • Results Here we present the development of a porcine-embryo-specific microarray platform created from a large expressed sequence tag (EST) analysis generated by Roche/454 next-generation sequencing of cDNAs constructed from critical stages of in vivo or in vitro porcine preimplantation embryos. (ualberta.ca)
  • Array probes are produced by polymerase chain reaction (PCR) amplification of selected cDNAs or designed on the basis of cDNA or gene sequence information. (biomedcentral.com)
  • Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived. (ouhsc.edu)
  • The (PCR) technique relies on primers that bind to nucleic acid sequences specific to an organism or group of organisms. (darkdaily.com)
  • Sequence based assays will be developed following the creation of cDNA libraries from selected tissues of A. senegal. (europa.eu)
  • Many of the novel cDNA sequences that were highly represented in the library showed a relative specificity to β-cells compared with other tissues, including glucagonoma, liver, kidney, brain, 3T3 fibroblasts, and AtT20 corticotrophs, and warrant further investigation. (diabetesjournals.org)
  • The RNA-seq analysis revealed remarkable differences in the expression profiles between the two tissues, allowing the identification of liver- and testis-specific transcripts which may play a fundamental role in important biological processes carried out by these two organs. (biomedcentral.com)
  • Promoters that confer expression in fruit tissues are important tools for genetic engineering of fruit quality traits, yet few fruit-specific promoters have been identified, particularly for citrus fruit development. (biomedcentral.com)
  • Among the five candidate citrus promoters characterized in this study, the CitSEP promoter showed a fruit-specific expression pattern, while the CitWAX and CitJuSac promoters exhibited high fruit-preferential expression with strong activity in the fruit, weak activity in floral tissues and low or undetectable activity in other tissues. (biomedcentral.com)
  • The use of tissue-specific promoters is critical for producing transgenic crops with improved economically important tissues, such as the fruits in citrus. (biomedcentral.com)
  • The high-complexity cDNA libraries are being built from tissues collected in New Brunswick and Newfoundland, and individuals from the same populations have also been used to generate families for selective breeding. (canada.ca)
  • Comparative profiling of other tissues, including microdissected oocytes and somatic cells, revealed distinct gene classes and provided new insights into oogenesis and ovarian function, demonstrating the utility of our approach for tissue-specific gene discovery. (appliedbioinfo.com)
  • In 2009-2010, transcriptome sequences were generated from highbush fruit at different stages of development, flower buds at different stages of cold acclimation, and leaves by "next generation" 454 sequencing. (usda.gov)
  • This large scale EST sequencing project would allow the identification of majority of catfish transcriptome. (auburn.edu)
  • The BioProject database is a searcheable collection of complete and incomplete (in-progress) large-scale molecular projects including genome sequencing and assembly, transcriptome, metagenomic, annotation, expression and mapping projects. (nih.gov)
  • Our results revealed that the trichome-specific transcriptome approach is a powerful tool to investigate the defensive functions of trichomes against both abiotic and biotic stress. (uni-bayreuth.de)
  • The comparison with the recently sequenced genome of the African congener Latimeria chalumnae and with the available genomic resources of other vertebrates revealed a good reconstruction of full length transcripts and a high coverage of the predicted full coelacanth transcriptome. (biomedcentral.com)
  • To date, a number of fruit-specific promoters have been isolated and characterized from various plant species. (biomedcentral.com)
  • Here, we used a genomics/proteomics approach (including immunoblot experiments from pigs infected with T. suis ) to prioritize putative immunogenic excretory/secretory (E/S) proteins conserved across and specific to several gastrointestinal (GI) parasitic nematode species. (frontiersin.org)
  • For a selected subset of CEAPs and candidate effectors, semiquantitative RT-PCR showed that these transcripts were either expressed constitutively in both in vitro and in planta or induced during plant infection. (biomedcentral.com)
  • The sequence depth of MPSS allowed us to capture and quantify almost all the transcripts at a specific stage in the development of the grape berry. (biomedcentral.com)
  • The number and relative abundance of transcripts from stage II grape berries was defined using Massively Parallel Signature Sequencing (MPSS). (biomedcentral.com)
  • Fedorova M, van de Mortel J, Matsumoto PA, Cho J, Town CD, Vandenbosch KA, Gantt JS, Vance CP: Genome-wide identification of nodule-specific transcripts in the model legume Medicago truncatula . (biomedcentral.com)
  • SAGE results in quantitative information connected to 10-14 base-pair (bp) sequence tags derived from the 3' ends of transcripts. (biomedcentral.com)
  • Here we performed mRNA profiling using Massively Parallel Signature Sequencing (MPSS) and combined it with available Expressed Sequence Tag (EST) data. (biomedcentral.com)
  • Those included five libraries prepared from mRNA of M. truncatula root nodules at different developmental stages. (biomedcentral.com)
  • 2014). Where annotations were not present or were different, the online Softberry server (http://linux1.softberry.com/berry.phtml) was used to predict mRNA and protein sequences using the FGNESH+ prediction algorithm (Solovyev et al. (molquest.com)
  • This is due to a paucity of functional annotation from sequence homology, which is compounded by low genetic tractability compared with many model organisms. (portlandpress.com)
  • Over 500,000 sequences were assembled into approximately 15,000 contigs, which are currently being annotated. (usda.gov)
  • The 162 sequences could be assembled into 122 tentative unigenes comprising 32 contigs and 90 singletons. (biomedcentral.com)
  • The National Human Genome Research Institute defines a "probe" in genetics as a "single-stranded sequence of DNA or RNA used to search for its complementary sequences in a sample genome . (darkdaily.com)
  • Until recently, however, functional analysis of the DED fungi was hampered by the lack of protocols for efficient gene knockout and by the unavailability of a full genome sequence. (sisef.it)
  • The inter- and intra- specific SNPs identified from all catfish EST dataset assembly will greatly benefit the catfish introgression breeding selection and whole genome association studies. (auburn.edu)
  • This is the advanced search page for the National Library of Medicine's free access (PubMed) to Medline, one of the greatest databases in the world. (cnas.ro)
  • Expressed Sequence Tags" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus, MeSH (Medical Subject Headings) . (ouhsc.edu)
  • Expressed sequence tag (EST) sequencing projects have generated millions of cDNA sequences for human, mouse and other organisms that are identified by an accession number in databases such as GenBank. (biomedcentral.com)
  • In general, a sequence-specific identifier (GenBank accession number) serves as a reference to the array probe sequence. (biomedcentral.com)
  • Over the last few years next generation sequencing technologies (NGS) have revolutionized the fields of genomics and transcriptomics, providing the opportunity to analyze genomes and transcriptomes with high sequencing depth in a relatively short time in comparison with Sanger sequencing. (biomedcentral.com)
  • An analysis of 555 randomly chosen clones in the library showed that 80 were derived from abundant mRNAs and were accounted for by 29 distinct sequences. (diabetesjournals.org)
  • Almost 2,000 expressed sequence tag (EST) cDNA clones were sequenced to analyze gene expression in control and Cd-treated leaf trichomes. (uni-bayreuth.de)
  • Identification of these clones in specific libraries associated with desiccation validates the computational analysis by library rather than producing a global overview of all libraries combined. (nih.gov)
  • In particular, non-conservative amino acid substitutions in a highly expressed gut protease may be of adaptive significance for M. persicae feeding on different host plants. (nih.gov)
  • Transcription profiling revealed that nine GhTUBs were highly expressed in elongating fibre cells as compared with fuzzless-lintless mutant ovules. (singerinstruments.com)
  • A collection of different allotypes or allelic protein variants, a new type of protein library. (genomicglossaries.com)
  • Entrez is NCBI's primary text search and retrieval system that integrates the PubMed database of biomedical literature with 38 other literature and molecular databases including DNA and protein sequence, structure, gene, genome, genetic variation and gene expression. (nih.gov)
  • Conserved Domains is a database of protein domains represented by sequence alignments and profiles for protein domains conserved in molecular evolution. (nih.gov)
  • We provide a method to simultaneously screen a library of antibody fragments for binding affinity and cytoplasmic solubility by using the Escherichia coli twin-arginine translocation pathway, which has an inherent quality control mechanism for intracellular protein folding, to display the antibody fragments on the inner membrane. (jove.com)
  • Commonly used methods for the display and screening of recombinant antibody libraries do not incorporate intracellular protein folding quality control, and, thus, the antigen-binding capability and cytoplasmic folding and solubility of antibodies engineered using these methods often must be engineered separately. (jove.com)
  • Xenopus laevis oocytes expressing hOAT1 supported probenecid-sensitive uptake of [ 3 H] p -aminohippurate ( K m = 4 μM), which was trans -stimulated in oocytes preloaded with glutarate. (aspetjournals.org)
  • Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition. (mbl.edu)
  • Over one million high-quality EST sequences were obtained and used to develop the EM bryogene P orcine V ersion 1 (EMPV1) microarray composed of 43,795 probes. (ualberta.ca)
  • To compare experiments that are performed on these different platforms, array probes and sequence tags need to be linked. (biomedcentral.com)
  • In addition, the database can be used to annotate array probes with reference sequences and updated gene descriptions from UniGene. (biomedcentral.com)
  • The researchers say their probes enable a shortcut to detection-even in an infection's early stages-by "targeting, isolating, and identifying the DNA sequences specifically and simultaneously. (darkdaily.com)
  • Bm-SPN-2 is one of the largest of the 93 known serpins, due to a 22 amino acid carboxy-terminal extension, and contains the conserved serpin signature sequence. (elsevierpure.com)
  • A: An alignment of amino acid sequences of rat preproapelin with human and bovine preproapelin. (phoenixpeptide.com)
  • B: An alignment of amino acid sequences of human apelin and angiotensin II. (phoenixpeptide.com)
  • Phylogenetic analyses using site-heterogeneous CAT mixture models of amino acid sequence evolution resulted in a strongly supported tree topology resolving the relationships among four major tunicate clades: (1) Appendicularia, (2) Thaliacea + Phlebobranchia + Aplousobranchia, (3) Molgulidae, and (4) Styelidae + Pyuridae. (biomedcentral.com)
  • Anti-Siglec-8 antibody administration in vivo to humanized and transgenic mice selectively expressing Siglec-8 on mouse eosinophils and mast cells confirmed the in vitro findings, and identified additional anti-inflammatory effects. (mdpi.com)
  • Each of the four different nucleobases are characterized by distinct edge-specific distribution patterns of their respective hydrogen bond donor and acceptor atoms, complementarity with which, in turn, define the hydrogen bonding patterns involved in base pairing. (wikiversity.org)
  • analyzed an expressed sequence tag (EST) database of the model legume M. truncatula and determined and characterized putative gene products or tentative consensus sequences (TCs) specifically expressed in root nodules. (biomedcentral.com)
  • determined a large collection of TCs that are specifically expressed in nodules of the model legume M. truncatula , and may, therefore, act in nodulation and/or nitrogen fixation. (biomedcentral.com)
  • These include cDNA clone libraries, Affymetrix GeneChips, and oligonucleotide sets for human, mouse and rat (Table 1 ). (biomedcentral.com)
  • A cDNA clone was isolated from a human renal library and designated human organic anion transporter 1 (hOAT1). (aspetjournals.org)
  • Aphids for library construction were raised on Arabidopsis thaliana, Nicotiana benthamiana, Brassica oleracea, B. napus, and Physalis floridana (with and without Potato leafroll virus infection). (nih.gov)
  • It will be interesting to see whether these nodule-specific TCs are present in non-nodulating plants such as Arabidopsis thaliana , and in agronomically important crops such as rice, wheat and maize. (biomedcentral.com)
  • CRISPR/Cas9 screens, which have revolutionised human and model organism research, have not yet been implemented in malaria parasites due to the need for more complex CRISPR/Cas9 gene targeting vector libraries. (portlandpress.com)
  • Two cDNA libraries constructed from in vitro and in vivo produced preimplantation porcine embryos were normalized and sequenced using 454 Titanium pyrosequencing technology. (ualberta.ca)
  • Northern analysis detected a specific 2.5-kilobase pair hOAT1 transcript only in human kidney. (aspetjournals.org)
  • Next generation deep sequencing and microarray technologies are powerful tools for delineation of molecular pathways involved in the developing embryo. (ualberta.ca)
  • Conclusions Using next-generation deep sequencing we have produced a large EST dataset to allow for the selection of probe sequences for the development of the EMPV1 microarray platform. (ualberta.ca)
  • Sequence analyses of unigenes revealed four potential groups: hydrolases, cell envelope associated proteins (CEAPs), candidate effectors and other proteins. (biomedcentral.com)
  • Reverse transcription-PCR (RT-PCR) analysis demonstrated that antipathogenic T-phylloplanin-like proteins, glutathione peroxidase and several classes of pathogenesis-related (PR) proteins were expressed specifically or dominantly in trichomes. (uni-bayreuth.de)
  • Cysteine-rich PR proteins, such as non-specific lipid transfer proteins (nsLTPs) and metallocarboxypeptidase inhibitors, are candidates for the sequestration of metals. (uni-bayreuth.de)
  • The Interleukin 17 (IL-17) family proteins, comprising six members (IL-17, IL-17B through IL-17F), are secreted, structurally related proteins that share a conserved cysteine-knot fold near the C-terminus, but have considerable sequence divergence at the N-terminus (1, 2). (rndsystems.com)
  • Global gene-expression analysis is carried out using different technologies that are either array- or sequence-tag-based. (biomedcentral.com)
  • Co-dominant simple sequence repeat (SSRs) are popular DNA markers, widely applied in oil palm genetic studies, especially in genetic mapping, marker-trait association, diversity analysis and detecting illegitimacy. (mpob.gov.my)
  • Options include popular configurable preset facet filters to help focus on specific kinds of results, an Advanced Search interface that facilitates constructing more sophisticated queries. (nih.gov)
  • When combined with functional or immunological screening procedures, the approach will be useful for the isolation of β-cell-specific molecules for immunological and genetic investigations of β-cell function and pathology. (diabetesjournals.org)
  • FIND) has partnered with Cepheid, Inc. (Sunnyvale, CA) and the University of Medicine and Dentistry of New Jersey (UMDNJ, Newark, NY) to develop a TB-specific automated, cartridge-based nucleic amplification assay (Xpert MTB/RIF) based on the GeneXpert multi-disease platform, currently unique in its simplification of molecular testing with fully integrated and automated sample preparation, amplification and detection required for real-time polymerase chain reaction. (bvsalud.org)
  • Our specific objectives are to develop genomic resources for blueberry, which include expressed sequence tag (EST) libraries, EST-derived molecular markers, and genetic linkage maps in diploid and tetraploid blueberries. (usda.gov)
  • In this study, we report five citrus fruit-specific/preferential promoters for genetic engineering. (biomedcentral.com)
  • The deep RNA sequencing performed with Illumina technologies generated 145,435,156 paired-end reads, accounting for ~14 GB of sequence data, which were de novo assembled using a Trinity/CLC combined strategy. (biomedcentral.com)
  • Over 300,000 putative SNPs have been identified, of which over 48,000 are high quality SNPs as defined by contig size of at least four sequences and the minor allele presence of at least twice in the contig. (auburn.edu)
  • However, the published material is being distributed without warranty of any kind, either expressed or implied. (who.int)
  • Five normalised libraries were produced from both desiccating and rehydrating populations of O. arcticus from stages that had previously been defined as potentially informative for molecular analyses. (nih.gov)
  • Data table showing topics related to specific cancers and associated disorders. (cancerindex.org)
  • 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)
  • The quality of this embryo-specific array was confirmed with a high-level of reproducibility using current Agilent microarray technology. (ualberta.ca)