Resources cdna expressed sequence tags. Medical search. Frequent questions

In the present work, genes expressed in human umbilical cord blood CD34(+) cells were catalogued by partially sequencing a large amount of cDNA clones [or expressed sequence tags (ESTs)] and analyzing these sequences with the tools of bioinformatics. (nih.gov)
From the two cDNA-libraries 24,000 ESTs were collected and a total of 2200 unigenes have been sequenced and annotated ( www.marinegenomics.org ). (vin.com)
Translation of ESTs can provide partial aa sequences of the proteome. (rndsystems.com)
The generation of large numbers of partial cDNA sequences, or expressed sequence tags (ESTs), has provided a method with which to sample a large number of genes from an organism. (jcvi.org)
The results of this analysis indicate that sequence information is available for approximately 12,600 nonoverlapping ESTs from Arabidopsis. (jcvi.org)
Sequencing from 5' and 3' ends of the clones generated 68 661 expressed sequence tags (ESTs). (nih.gov)
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 single pass, short 300-500 nucleotide sequences obtained from sequencing either end of the cDNA insert are called expressed sequence tags (ESTs). (nih.gov)
One way to solve the problem of identifying genes responsible for a particular phenotype is to generate a cDNA library from patient tissues/samples and obtain a number of ESTs. (nih.gov)
Then, use the ESTs to determine the genes expressing them and to determine whether they contain any nucleotide variations or single nucleotide polymorphisms (SNPs) when compared to normal individuals. (nih.gov)
ZIRC also offers for purchase other types of biological molecules, including expressed sequence tags (ESTs), complementary DNAs (cDNAs), and monoclonal antibodies. (nih.gov)
This highlights the important role of ESTs for generating genetic and genomic resources of aquaculture species. (marbigen.org)
EPSTI1 showed no homology to any known gene, but matched a cluster of expressed-sequence tags (ESTs). (nih.gov)
Clustering and assembly of ESTs resulted in 2,731 unique sequences, consisting of 2,234 singletons and 497 contigs. (biomedcentral.com)
Sequence-finished full-length (FL)cDNAs and large collections of expressed sequence tags (ESTs) are essential for gene discovery, functional genomics, and for future efforts of conifer genome annotation. (inrae.fr)
We sequenced and analyzed 206,875 3'- or 5'-end ESTs from these libraries, and developed a resource of 6,464 high-quality sequence-finished FLcDNAs from Sitka spruce. (inrae.fr)
Our emphasis on capturing FLcDNAs and ESTs from cDNA libraries representing herbivore-, wound- or elicitor-treated induced spruce tissues, along with incorporating normalization to capture rare transcripts, resulted in a rich resource for functional genomics and proteomics studies. (inrae.fr)
As the number of Thellungiella halophila (Thellungiella salsuginea) expressed sequence tags (ESTs) was 9388 in July 2008, the number of ESTs has increased to approximately four times the original value as a result of this effort. (nih.gov)
The combined ESTs were assembled into 27,229 unique sequences (11,694 contigs and 15,535 singletons). (biomedcentral.com)
The sequencing and analysis of expressed sequence tags (ESTs) has been a primary tool for the discovery of novel genes in plants, especially in non-model plants for which full genome sequences are not currently available [ 1 ]. (biomedcentral.com)
Among these, 52 non redundant DEGs were subjected to BLAST analysis for similarity search using BioEdit local blast tool (E-values 1.0E-50) against total ESTs, genomic survey sequences (GSS) and nucleotide sequences of pigeonpea downloaded from NCBI. (longdom.org)
To begin to decipher the molecular processes underlying gene function, we constructed a database of expressed sequence tags (ESTs) generated from sparganum. (biomedcentral.com)
SpiroESTdb is a web-based information resource that is built upon the annotation and curation of 5,655 ESTs data. (biomedcentral.com)
For contemporary functional genomic studies, the significant efforts invested in the creation of integrative transcript databases of expressed sequence tags (ESTs) derived from full-length cDNA libraries have provided opportunities to direct gene discovery and functional analysis. (biomedcentral.com)
However, with the advent of short read sequencing, fewer and fewer ESTs are submitted to NCBI every year, and reference genomes are available for most organisms with a sizable research community. (nih.gov)

Together they represent a more or less complete set of expressed genes from these organisms. (wikipedia.org)
The analysis of the hippocampus only included two studies and was, therefore, relatively underpowered to detect differentially expressed genes. (medscape.com)
This collection of genes was highlighted as significantly differentially expressed in several previous studies, including a weighted gene co-expression network analysis of BP and schizophrenia [ 84 ] and two previous meta-analyses of BP and psychosis using gene expression studies from SMRI. (medscape.com)
The 2200 unigenes from the EST collection and the 62 immune-function targeted genes, together with other genes randomly selected without sequencing from the cDNA libraries, have been amplified and used to construct a cDNA microarray representing 3700 dolphin genes in duplicate for a total of 7400. (vin.com)
Conservation of Y-linked genes during human evolution revealed by comparative sequencing in chimpanzee. (nih.gov)
Identification of genes related to Parkinson's disease using expressed sequence tags. (nih.gov)
Comparison of the assemblies with 953 Arabidopsis coding sequences indicates that up to 57% of all Arabidopsis genes are represented by an EST. (jcvi.org)
A large collection of full-length cDNAs is essential for the correct annotation of genomic sequences and for the functional analysis of genes and their products. (nih.gov)
All of the obtained data confirmed that our collection of soybean full-length cDNAs covers a wide variety of genes. (nih.gov)
Comparative analysis between the derived sequences from soybean and Arabidopsis, rice or other legumes data revealed that some specific genes were involved in our collection and a large part of them could be annotated to unknown functions. (nih.gov)
2. Identification of gastric cancer-related genes using a cDNA microarray containing novel expressed sequence tags expressed in gastric cancer cells. (nih.gov)
17. Gene expression profile of gastric carcinoma: identification of genes and tags potentially involved in invasion, metastasis, and carcinogenesis by serial analysis of gene expression. (nih.gov)
The mini-course guides us through one of the several ways to identify disease related genes, starting from the expressed sequence data such as that may have been obtained from patients. (nih.gov)
The chapter then demonstrates the practical application of these resources to the identification of genes related to two diseases, hemochromatosis and sickle cell anemia. (nih.gov)
The mini-courses are either problem-based such as "Identification of Disease Genes" or NCBI resource-based such as "BLAST Quick Start. (nih.gov)
One way to identify genes in a genome is to generate a cDNA library from the pool of RNA messages. (nih.gov)
In non-model species with large genome size, EST (expressed sequence tag) sequencing and their annotation can provide the first step towards understanding the transcriptome and expression patterns of specific genes, which can complement the whole genome sequencing, and can assist with genome sequence annotation. (biomedcentral.com)
RESULTS: As part of a conifer genomics program to characterize defense against insects and adaptation to local environments, and to discover genes for the production of biomaterials, we developed 20 standard, normalized or full-length enriched cDNA libraries from Sitka spruce (P. sitchensis), white spruce (P. glauca), and interior spruce (P. glauca-engelmannii complex). (inrae.fr)
Thellungiella genes exhibit high sequence identity (approximately 90% at the cDNA level) with Arabidopsis genes. (nih.gov)
Although an important goal of any sequence project is to obtain a genomic sequence and to identify a complete set of genes, the ultimate goal is to gain an understanding of the expression of these genes, their life-stage and tissue-specificity and regulation, and to predict the biochemical function and cellular role of each gene product. (unipv.it)
Of particular interest are the sequences that share homology with Drosophila genes involved in sex determination, olfaction, and reproductive behaviour. (unipv.it)
The sequences obtained in this study represent the first major dataset of expressed genes in a tephritid species of agricultural importance. (unipv.it)
Here we develop and utilize a capture-based sequencing panel, which covers host hotspot genes and the full-length genome of human T-cell leukemia virus type-1 (HTLV-1), to investigate the clonal architecture of adult T-cell leukemia-lymphoma (ATL). (nature.com)
2002) and the primers for the genes of interest were designed using software primer express v3.0 (Applied Biosystems) (Depreter et al. (sirna-library.com)
His most recent project involved analysing transcriptomic data, sequenced from patient blood samples, to identify genes that may be important in the progression from mild cognitive impairment to Alzheimer's disease and the role of inflammation in this process. (exeter.ac.uk)
Effector-encoding genes are expressed only during plant infection and show very low expression during other developmental stages. (exeter.ac.uk)
On the contrary, significant amount of genomic information are in the domain for a closely related leguminous crop soybean (Glycine max L.). Here, we have reported an in silico analysis for the identification of differentially expressed genes (DEGs) and their signaling pathways due to drought stress. (longdom.org)
Out of 52 DEGs, 4 up-regulated and 30 down-regulated genes showed blast hits against pigeonpea sequences and, their relation to drought response was confirmed by comparing with the previous studies. (longdom.org)
This study reveals that the genes expressed due to drought stress and the pathways triggered in soybean were similar with the pigeonpea and hence, it can be extrapolated for further biochemical analysis. (longdom.org)
However, surprisingly little is known about the molecular function of genes that are expressed during the course of the parasite life cycle. (biomedcentral.com)
SpiroESTdb provides an integrated platform for expressed sequence data, expression dynamics, functional genes, genetic markers including single nucleotide polymorphisms and tandem repeats, gene ontology and KEGG pathway information. (biomedcentral.com)
The goals of this study were to identify expressed sequence tags (EST) in Citrus sinensis (L.) Osbeck corresponding to genes involved in general phenylpropanoid biosynthesis and the key genes involved in the main flavonoids pathways (flavanones, flavones, flavonols, leucoanthocyanidins, anthocyanins and isoflavonoids). (scielo.br)
The expression data developed provide a resource for illuminating the molecular mechanisms involved in breast cancer development, especially through the identification of genes that are critical in cancer initiation and progression. (biomedcentral.com)
In particular, the method is used to enrich a preparation of genomic DNA for low copy sequences (more likely to be genes). (integratedbreeding.net)
Based on the combined sequencing-based and microarray-based transcriptome data we compiled an annotated reference set of infection-responsive genes in zebrafish embryos, encoding transcription factors, signal transduction proteins, cytokines and chemokines, complement factors, proteins involved in apoptosis and proteolysis, proteins with anti-microbial activities, as well as many known or novel proteins not previously linked to the immune response. (refine.bio)
Furthermore, by comparison of the deep sequencing data of S. typhimurium infection in zebrafish embryos with previous deep sequencing data of Mycobacterium marinum infection in adult zebrafish we derived a common set of innate host defense genes that are expressed both in the absence and presence of a fully developed adaptive immune system and that provide a valuable reference for future studies of host-pathogen interactions using zebrafish infection models. (refine.bio)

Random Expressed Sequence Tag (EST) clones have been isolated and sequenced from dolphin Peripheral Blood Leukocyte (PBL) cDNA libraries. (vin.com)
We obtained a total of 39,936 soybean cDNA clones (GMFL01 and GMFL02 clone sets) in a full-length-enriched cDNA library which was constructed from soybean plants that were grown under various developmental and environmental conditions. (nih.gov)
Our data indicated that 87.7% of the soybean cDNA clones contain complete coding sequences in addition to 5'- and 3'-untranslated regions. (nih.gov)
A large set of soybean full-length cDNA clones reported in this study will serve as a useful resource for gene discovery from soybean and will also aid a precise annotation of the soybean genome. (nih.gov)
To generate a cDNA library, the RNA messages from a tissue or from cells representing a developmental stage are copied into more stable cDNA molecules, which are then placed into an appropriate vector to generate a collection of cDNA clones (vector and the individual cDNA insert). (nih.gov)
From the cDNA library 10,449 clones were sequenced and analyzed. (nih.gov)
We conducted bidirectional sequencing of cDNA clones from a standard cDNA library constructed from black spruce needle tissues. (biomedcentral.com)
We randomly selected about 20,000 clones and sequenced them from both ends to obtain a total of 35 171 sequences. (nih.gov)
The full-length enriched cDNA clones will enable the construction of overexpressing mutant plants by introduction of the cDNAs driven by a constitutive promoter, the complementation of Thellungiella mutants, and the determination of promoter regions in the Thellungiella genome. (nih.gov)
Interim maps have proven useful for biomedical research, but the most valuable map resources for production DNA sequencing are megabase-scale assemblies of overlapping DNA clones (contigs). (ornl.gov)
In total, 5,760 randomly selected clones were picked and sequenced. (biomedcentral.com)
UniGene has since been used as a source of approximate expression profiles, an index of available cDNA clones, and as a guide to transcript-oriented resource design. (nih.gov)

Two cDNA libraries from known health status dolphin PBL have been generated including an IL-2 and an LPS-stimulated cDNA library, respectively biased towards T and B-cell gene expression. (vin.com)
Sequence based assays will be developed following the creation of cDNA libraries from selected tissues of A. senegal. (europa.eu)
This study aimed at increasing genomic resources for the two species and produced and annotated two sets of 30,000 expressed sequence tags (EST) each from 14 normalized tissue-specific cDNA libraries from sea bream and sea bass. (marbigen.org)
this information emphasizes on reproduction, sex determination, and chemosensory perception, since the study was based on normalized cDNA libraries from embryos and adult heads. (unipv.it)
Five loblolly pine (Pinus taeda) cDNA libraries representing multiple tissues, treatments, and genotypes produced over four million sequence reads that, along with available Sanger expressed sequence tags, were used to create contig assemblies using three different assembly algorithms: Newbler, MiraEST, and NGen. (inra.fr)
In addition, libraries from 11 other conifer species, as well as one member of the Gnetales (Gnetum gnemon), produced 0.4 to 1.2 million sequence reads each. (inra.fr)
The soybean cDNA libraries of drought stressed and unstressed leaf tissues were downloaded from unigene database of NCBI. (longdom.org)
DGE libraries from the RNA pools (1 Âµg) of Salmonella-infected and control embryos were prepared using the DGE:Tag Profiling for NlaIII Sample Prep kit from Illumina as previously described (Hegedus et al. (refine.bio)
Tag counts from duplicate libraries were merged in silico. (refine.bio)

The comparative annotation approach represents a good strategy for transferring more relevant biological information from highly studied species to genomic resource poorer species. (marbigen.org)
EST (expressed sequence tag) sequences and their annotation provide a highly valuable resource for gene discovery, genome sequence annotation, and other genomics studies that can be applied in genetics, breeding and conservation programs for non-model organisms. (biomedcentral.com)
The EST sequences reported here provide an important resource for genome annotation, functional and comparative genomics, molecular breeding, conservation and management studies and applications in black spruce and related conifer species. (biomedcentral.com)
CONCLUSION: This paper provides detailed annotation and quality assessment of a large EST and FLcDNA resource for spruce. (inrae.fr)
Our sequences will thus contribute to correct future annotation of the Thellungiella genome sequence. (nih.gov)
This resource provides essential information to support the investigation of numerous questions regarding the biology of the medfly and other related species and also constitutes an invaluable tool for the annotation of complete genome sequences. (unipv.it)
Eventually, the human genome will be represented by DNA chromosome sequences with various levels of annotation. (ornl.gov)

Previously existing sequence data were restricted to around 22,000 expressed sequence tag (EST) sequences and ~ 1,500 GenBank sequences. (edu.pe)
Sequence comparisons against five plant genomes and the non-redundant GenBank protein database revealed that a substantial number of spruce transcripts have no obvious similarity to known angiosperm gene sequences. (inrae.fr)
Keep in mind that the Gene record contains selected Reference Sequences and GenBank mRNA sequences rather than the larger set of expressed sequences in the UniGene cluster. (nih.gov)
When new sequences are submitted to GenBank, the submission is checked for new organism names, which are then classified and added to the Taxonomy database. (nih.gov)

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

EST (Expressed Sequence Tags) databases contain the sequences of a large number of cDNA fragments from a variety of tissues and organisms. (rndsystems.com)
Thus, EPSTI1 is a novel human gene expressed in tissues characterized by extensive epithelial-stromal interaction, and expression of this gene may be a crucial event in invasion and metastasis of cancer. (nih.gov)
We constructed a full-length enriched Thellungiella (Shan Dong ecotype) cDNA library from various tissues and whole plants subjected to environmental stresses, including high salinity, chilling, freezing, and abscisic acid treatment. (nih.gov)
GPR35 is an orphan receptor and expressed in various tissues including stomach, gastrointestinal tissues, and several types of immune cells. (multispaninc.com)
DR3 is expressed primarily in tissues enriched in lymphocytes. (rndsystems.com)

The sequence databases contain genomic, mRNA, and protein sequences representing all three stages in the pathway. (nih.gov)
METHODS: mRNA was purified from iris during dedifferentiation and its cDNA library was constructed. (nih.gov)
Deep sequencing analysis identified no female-specific small RNAs mapped onto OfMasc mRNA. (bvsalud.org)
to include a cDNA sequence corresponding to a splice variant of IL18r1 , formed by inclusion of part of an unspliced intron in the mRNA sequence. (peerj.com)
the mechanism by which different introns (intervening sequences found within a gene) are removed during transcription, which results in the formation of variant mRNA messages from a single gene. (integratedbreeding.net)

The full-ORF clone resource of the German cDNA Consortium. (nih.gov)
We have used 454 pyrosequencing to augment the available gene sequence information to enhance functional genomics and marker design for this plant species.Results: Two quarter 454 pyrosequencing runs used two normalized cDNA collections from stems and leaves from drought-stressed sweetpotato clone Tanzania and yielded 524,209 reads, which were assembled together with 22,094 publically available expressed sequence tags into 31,685 sets of overlapping DNA segments and 34,733 unassembled sequences. (edu.pe)
Opportunities for future applications of the sequence and clone resources for comparative and functional genomics are discussed. (inrae.fr)
To help alleviate this impending bottleneck, in 1998 DOE sponsored projects to enrich the BAC clone resources preferred for high-throughput sequencing systems. (ornl.gov)
The molecular sequence of this clone aligns with the gene accession number as a point of reference only. (origene.com)
This clone was engineered to express the complete ORF with an expression tag. (origene.com)
A UPF1 sequence-verified cDNA clone was ordered from Dharmacon (clone ID 5555509). (addgene.org)

The National Center for Biotechnology Information (NCBI) has developed several web-based mini-courses ( www.ncbi.nlm.nih.gov/Class/minicourses ) illustrating the applications of NCBI resources. (nih.gov)
The sequences reported in this paper have been deposited in the NCBI database, under accession numbers HS514072-HS519705. (biomedcentral.com)
We have also removed links to UniGene from the NCBI home page and other resources. (nih.gov)
To add to the mix, in 1990 the NCBI and the NLM initiated a journal-scanning program to capture and annotate sequences reported in the literature that had not been submitted to any of the sequence databases. (nih.gov)
databases agreed to adopt the NCBI taxonomy as the standard classification for the nucleotide sequence databases. (nih.gov)

When that's not possible, web requests will be routed to either a representative nucleotide sequence entry or a helpful Entrez query against nucleotide records. (nih.gov)

The cDNA dolphin array will be used to analyze PBL RNA from captive and wild dolphins of known health status with the aim to validate and optimize the cDNA microarray as a sensitive and informative tool for dolphin health assessment. (vin.com)
7. Comparison of gene expression profiles between primary tumor and metastatic lesions in gastric cancer patients using laser microdissection and cDNA microarray. (nih.gov)
10. S100A11 gene identified by in-house cDNA microarray as an accurate predictor of lymph node metastases of gastric cancer. (nih.gov)
To characterize the embryonic innate host response at the transcriptome level, we have extended and validated previous microarray data by Illumina next-generation sequencing analysis. (refine.bio)

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)
UniGene was originally implemented as a gene-oriented grouping of transcript sequences in the absence of a reference genome for a broad range of organisms. (nih.gov)

cDNA molecules usually lack intron sequence. (integratedbreeding.net)
The coding DNA sequences are transcribed to make messenger RNA molecules, which are then translated to make proteins. (elifesciences.org)
Researchers have known for many years that some of the noncoding DNA sequences are also transcribed to make other types of RNA molecules, such as transfer and ribosomal RNA. (elifesciences.org)

Further, 27,119 sequences had no match to protein sequences of UniRef100database. (edu.pe)

The construction of Arabidopsis expressed sequence tag assemblies. (jcvi.org)
The 6,464 Sitka spruce FLcDNAs represent the third largest sequence-verified FLcDNA resource for any plant species, behind only rice (Oryza sativa) and Arabidopsis (Arabidopsis thaliana), and the only substantial FLcDNA resource for a gymnosperm. (inrae.fr)

A recent effort employing whole-genome/exome sequencing (WGS/WES) revealed the genetic landscape of ATL 6 . (nature.com)

The real-time PCR reaction system included the following: 200 to 400 nM primers, see more 5 ng cDNA samples, and 1× SYBR® Green PCR Master Mix (Applied Biosystems, Foster City, CA, USA). (sirna-library.com)
Conduct of PCR with genomic DNA using single short (8-10 mer) primers of arbitrary sequence generates a product that can be used in gel electrophoretic fingerprint analysis to generate numerous polymorphic markers (6,7). (justia.com)

Among model organisms, genome sequences have been completed in the fruitfly Drosophila melanogaster, the malaria mosquito Anopheles gambiae, the domesticated silkworm Bombyx mori, the honeybee Apis mellifera and the major arbovirus vector, Aedes aegypti. (unipv.it)

While the mouse and rat transcripts are predicted to encode a truncated receptor with a novel 5 amino acid C-terminal domain, the human sequence is predicted to encode a truncated protein with a novel 22 amino acid sequence bearing resemblance to the 'Box 1' motif of the Toll/interleukin-1 receptor (TIR) domain, in a similar fashion to the inhibitory interleukin-1 receptor 2. (peerj.com)
Here we report on cloning of a novel splice variant of PI4KIIIb(PI4KIIIbS) from a bovine cDNA library that has an extra stretch of serine/threonine rich 15 amino acid sequence located adjacent to the NCS-1 binding region and the PKD phosphorylation site of the enzyme. (nih.gov)

Approximately two-thirds (63%) of unique sequences were functionally annotated. (biomedcentral.com)
On the basis of this gene index, we have identified 1,661 gene-based microsatellite sequences, of which 223 were selected for testing and 195 were successfully amplified in a test panel of 6 hexaploid (I. batatas) and 2 diploid (I. trifida) accessions.Conclusions: The sweetpotato gene index is a useful source for functionally annotated sweetpotato gene sequences that contains three times more gene sequence information for sweetpotato than previous EST assemblies. (edu.pe)

The EST sequences were clustered into 22,674 scaffolds involving 2580 full-length sequences. (nih.gov)
In addition, we sequenced 4712 full-length cDNAs. (nih.gov)
After removing overlaps, we obtained 6570 new full-length sequences of soybean cDNAs so far. (nih.gov)
The full-length cDNA of 1508 bp was generated by 5'-RACE, included an open reading frame (ORF) encoding a putative 307-amino-acid protein, and mapped to chromosome 13q13.3. (nih.gov)
We named these cDNAs "RTFL" (RIKEN Thellungiella Full-Length) cDNAs. (nih.gov)
The full-length cDNAs of CsGSTo1 and 2 constituted 965 bp and 1,061 bp with open reading frames of 737 bp (246 amino acids) and 669 bp (223 amino acids). (biomedcentral.com)

All contigs for every species generated using each assembler can be obtained from Conifer DBMagic, a public database for searching, viewing, and downloading contig sequences, the associated sequence reads, and their annotations. (inra.fr)

Despite research into the behaviour and classical and population genetics of this organism, the quantity of sequence data available is limited. (unipv.it)
DOE accepted related applications in 1996 and implemented a fast-track, special review process involving a panel composed of international experts in human and mouse genetics, mapping, sequencing, informatics, and management. (ornl.gov)

Furthermore, Thellungiella not only shows tolerance to extreme salinity stress, but also to chilling, freezing, and ozone stress, supporting the use of Thellungiella as a good genomic resource in studies of abiotic stress tolerance. (nih.gov)
Large genome sizes (10,000-40,000 Mbp) and large amounts of repetitive DNA have limited efforts to produce a conifer reference genome, and genomic resource development has focused primarily on characterization of expressed sequences. (inra.fr)

The primary objective of our study was to develop a black spruce transcriptomic resource to facilitate on-going functional genomics projects related to growth and adaptation to climate change. (biomedcentral.com)
In contrast to angiosperms, functional and comparative genomics research on conifers, or other gymnosperms, is limited by the lack of a relevant reference genome sequence. (inrae.fr)
Information on functional domains and Gene Ontology (GO) terms for the RTFL cDNAs were obtained using InterPro. (nih.gov)
This integrative web-based database of sequence data, functional annotations and expression profiling data will serve as a useful tool to help understand and expand the characterization of parasitic infections. (biomedcentral.com)

A conifer genomics resource of 200,000 spruce (Picea spp. (inrae.fr)

They shared 44 % sequence identity with each other and 14.8-44.8 % with orthologues/homologues from other organisms. (biomedcentral.com)
Inheritance, homology by common descent, and the conservation of sequence and structure in the determination of function are all central ideas in biology that are directly related to the evolutionary history of any group of organisms. (nih.gov)
an approach which sets out to compare the sequences of two or more related organisms. (integratedbreeding.net)
They have been heavily used for gene discovery, particularly in organisms that have not yet been sequenced, and also as a source of sequence to design genic molecular markers. (integratedbreeding.net)

From 1993 to 2007, the cDNA library was maintained by the IMAGE Consortium, a joint effort of four academic groups led by Drs. Greg Lennon, Charles Auffray, Mihael Polymeropoulos, and Marcelo Bento Soares. (wikipedia.org)
Scientists are encouraged to take advantage of ZIRC's extensive library of information and resources on zebrafish research and husbandry. (nih.gov)
To obtain a comprehensive view of sparganum gene activity, we constructed a non-normalized cDNA library derived from parasites isolated from wild snakes. (biomedcentral.com)

However, there are limited transcriptomic and genomic resources for this species. (biomedcentral.com)

The earliest discoveries of chemokines were made as a result of their biological activity or through studies that sought to identify proteins that are upregulated following cell activation or differentially expressed in selected cell types. (rndsystems.com)
Bacterially expressed recombinant proteins (rCsGSTo1 and 2) exhibited dehydroascorbate reductase (DHAR) and thioltransferase activities. (biomedcentral.com)
The proteins were mainly expressed in the elements of the reproductive system, such as vitelline follicles, testes, seminal receptacle, sperm and eggs. (biomedcentral.com)
The mammalian genome is comprised of DNA sequences that contain the templates for proteins, and other DNA sequences that do not code for proteins. (elifesciences.org)

The aim of this project is to generate molecular tools to assess the health of wild dolphins, thereby indicating the status of the local marine environment and providing information for marine resources management. (vin.com)
The purpose of this research is to obtain sequence resources for a newt lens regeneration study and to obtain insights of dedifferentiation at the molecular level. (nih.gov)
Presently less genomic resources are available on pigeonpea for drought related studies at molecular level. (longdom.org)

The improved length and accuracy of reads obtained from Sanger sequencing can complement NGS workflows. (biomedcentral.com)
Therefore, EST sequences derived from the Sanger method are still a valuable resource in the NGS era. (biomedcentral.com)

The Zebrafish International Resource Center (ZIRC) has become NIH's flagship zebrafish repository and resource center, and the zebrafish ( Danio rerio ) has ascended to become a mainstream model organism, akin to such vertebrates as the mouse ( Mus musculus ) and the frog ( Xenopus spp . (nih.gov)

The reading frame resulting from inclusion of an unspliced intron introduces a stop codon shortly into the unspliced intron sequence. (peerj.com)

Although contig maps of chromosomes 16 and 19 (developed at Los Alamos and Lawrence Livermore national laboratories, respectively) were largely complete in 1995, comparable contig maps of other chromosomes are less ready to support high-throughput sequencing. (ornl.gov)
In collaboration with Dr. Lee Eiden's laboratory she also established cAMP sensor cell lines expressing individual G protein-coupled receptor (GPCR) as a means of high throughput methodology for assessing individual GPCR function to guide drug screening. (nih.gov)
The ultimate goal of precision agriculture is to improve crop productivity, in terms of yield and quality, making a sustainable use of land and water resources under adverse environmental conditions using all available biotechnological tools and high-throughput phenotyping. (frontiersin.org)
Gene expression profile of human bone marrow stromal cells: high-throughput expressed sequence tag sequencing analysis. (nih.gov)

Expressed sequence tag (EST) counts per unigene were used for in silico expression analysis by online IDEG6 web statistical tool. (longdom.org)

Recent DOE-sponsored projects are producing sequence tag connectors (STCs) on BACs to help extend the human chromosome sequence already acquired. (ornl.gov)

Clustering analysis of these sequences suggests that between 300 and 700 gene families are represented by between 700 and 2000 sequences in the EST database. (jcvi.org)
EST resource: SNP analysis available at DIAS http://snp.agrsci.dk . (rth.dk)
DOE JGI in Walnut Creek, California, provides state-of-the-science capabilities for genome sequencing and analysis. (ornl.gov)
The present invention provides a method of arbitrary sequence oligonucleotide fingerprinting (ASOF), a novel technology which eliminates gel electrophoresis as a step in polymorphic marker analysis, species identification and transcriptional profiling. (justia.com)
More specifically, the present invention relates to a novel method of genetic analysis using arbitrary sequence oligonucleotide fingerprinting. (justia.com)
Although restriction fragment length polymorphism analysis remains a widely used method for detecting DNA sequence polymorphism, several useful variations on the fragment length theme have recently been introduced. (justia.com)
DNA sequencing and PCR analysis can also be performed to achieve accurate microbial identification and typing, but like current DNA typing procedures, these microbial DNA diagnostic tests require gel electrophoretic analysis, which is time consuming and labor intensive and accommodates a relatively low sample throughput. (justia.com)
Wen-Hsiung Ko Abstract: Background: Analysis of phylogenetic relationship of 91 isolates of Phellinus noxius obtained from 46 plant species in Taiwan did not show distinct grouping based on ITS sequences. (gov.tw)
Conclusion: Phylogenetic analysis of ITS sequences among Phellinus species showed that isolates of P. noxius were in the same clade distinctly separated from other Phellinus species. (gov.tw)
Image analysis, base calling, extraction of 17 bp tags and tag counting were performed using the Illumina pipeline. (refine.bio)

The zebrafish reference genome sequence and its relationship to the human genome. (nih.gov)

New tools for the management of genetic resources and new approaches to examining biodiversity in a tropic al tree species will be derived from the study. (europa.eu)
We have developed the first high quality EST resource for black spruce and identified 493 novel transcripts, which may be species-specific related to life history and ecological traits. (biomedcentral.com)

The existence of variable number tandem repeat (VNTR) or "microsatellite" sequences scattered throughout genomic DNA has been exploited in the identification of polymorphic markers (2,3). (justia.com)

Although complete genome sequence exists for sweet orange ( Citrus sinensis ) and clementine ( Citrus clementina ), olive tree ( Olea europaea ) and grapevine ( Vitis vinifera ), the development of biotechnological tools to improve stress tolerance still relies on the study of the available genetic resources including interspecific hybrids, naturally occurring (or induced) polyploids and wild relatives under field conditions. (frontiersin.org)

a set of 3 nucleotides in a DNA sequence, which encodes a specific amino acid. (integratedbreeding.net)
the part of a DNA sequence which encodes a protein (usually in conjunction with other exons). (integratedbreeding.net)
The human DR3 isoform 1 cDNA encodes a 417 amino acid residue (aa) transmembrane precursor with a 24 aa signal peptide, a 175 aa extracellular domain containing four cysteine-rich repeats and two potential N-glycosylation sites, a 21 aa transmembrane region and a 195 aa cytoplasmic region with one death domain. (rndsystems.com)

refine.bio: a resource of uniformly processed publicly available gene expression datasets. (refine.bio)

A database of the assembled sequences, their putative identifications, and cellular roles is available through the World Wide Web. (jcvi.org)

NCBI's Gene resources include collections of curated nucleotide sequences used as references, sequence clusters to predict and study homologs, and various databases and tools for the study of gene expression. (nih.gov)
Expression profiles during dedifferentiation in newt lens regeneration revealed by expressed sequence tags. (nih.gov)
named this variant type II IL18r1 , with the reference sequence inheriting the nomenclature type I IL18r1 , and presented evidence for its expression in the mouse brain. (peerj.com)
We used cDNA microarrays to determine the expression profiles of five normal mammary glands, seven hyperplastic mammary glands and 23 mammary tumors from MMTV- Wnt-1 transgenic mice, and 12 mammary tumors from MMTV- Neu transgenic mice. (biomedcentral.com)
Whereas naïve B and T cells express multiple truncated DR3 isoforms but not the transmembrane isoform 1, upon T cell activation, expression of the transmembrane DR3 isoform 1 predominates. (rndsystems.com)

Even using normalized cDNA from relatively few pooled individuals it was possible to identify 1145 SNPs and 1748 microsatellites loci for genetic marker development. (marbigen.org)
The most frequent type of genetic change associated with an RFLP marker is point mutation within the recognition sequence of a restriction enzyme. (justia.com)

These represent fragments of gene sequences, and are obtained by single-pass sequencing of cDNA. (integratedbreeding.net)

Initial characterization of SARS-CoV-2 spike indicates that it binds the same receptor as SARS-CoV angiotensin-converting enzyme, which is expressed in both upper and lower human respiratory tracts ( 8 ). (cdc.gov)

The Sino-Danish pig genome sequencing project has generated a resource of 3.8 million shotgun reads 0.66 coverage and approximately 1 million EST sequences. (rth.dk)
We obtained 4,594 high quality (2,455 5 ' end and 2,139 3 ' end) sequence reads, with an average read-length of 532 bp. (biomedcentral.com)
STCs are DNA sequence reads at both ends of the BACs. (ornl.gov)
They also suggested concentrating STC production at sites that achieve the highest-quality sequence reads to allow the design of valuable STSs (see Mapping with STCs and STSs ). (ornl.gov)
Here, we report the completion of a conifer transcriptome sequencing project undertaken in collaboration with the U.S. DOE Joint Genome Institute that resulted in production of almost 12 million sequence reads. (inra.fr)

The chapter first provides an introduction to the human genome assembly and the resources such as the Basic Local Alignment Search Tool, Map Viewer, Single Nucleotide Polymorphism database, and Online Mendelian Inheritance in Man. (nih.gov)
The availability of genomic resources for sweetpotato is in striking contrast to its importance for human nutrition. (edu.pe)
A FLAG epitope-tagged human DPP4 cDNA is under the control of the human cytokeratin 18 promoter. (jax.org)
Ultimate goals of the Human Genome Project (HGP) are to determine the sequence of the 3 billion DNA bases that make up the human genome and to increase understanding of gene function. (ornl.gov)
In 1995 and 1996 investigators began to advocate that the STC concept, which had proven useful in smaller-scale sequencing projects, be applied to large-scale human genome sequencing (Venter et al. (ornl.gov)

Darren has had many years' experience of using sequence data to answer biological questions. (exeter.ac.uk)

Anatomy11

Organisms26

Chemicals and Drugs22

Analytical, Diagnostic and Therapeutic Techniques and Equipment25

Phenomena and Processes60

Disciplines and Occupations4

Anthropology, Education, Sociology and Social Phenomena3

Technology, Industry, Agriculture6

Information Science19

Health Care8

Geographicals1

ESTs25

Genes36

Clones12

Libraries9

Annotation7

GenBank4

Complementary1

Tissues5

MRNA5

Clone7

NCBI5

Nucleotide sequence1

Microarray4

Transcript sequences2

Molecules3

Protein sequences1

Arabidopsis2

Whole genome1

Primers2

Genome sequences1

Amino acid seq2

Functionally annotated2

Full-length6

Contigs1

Genetics2

Genomic resource2

Functional4

Genomics1

Organisms4

Library3

Transcriptomic1

Proteins4

Molecular3

Sanger2

Organism1

Intron1

High-throughput4

Unigene1

Chromosome1

Analysis10

Reference genome sequence1

Species2

Microsatellite1

Complete genome1

Encodes3

Datasets1

Putative1

Expression5

Genetic2

Fragments1

Characterization1

Reads5

Human5

Biological1