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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Genomic HyperBrowser Resource Report Resource Website 10+ mentions |
Genomic HyperBrowser (RRID:SCR_010909) | Genomic HyperBrowser | analysis service resource, data analysis service, production service resource, service resource | A generic web-based system, providing statistical methodology and computing power to handle a variety of biological inquires on genomic datasets. | genomic, genomic track, gene regulation, disease association, epigenetic modification, genome |
is listed by: OMICtools has parent organization: University of Oslo; Oslo; Norway |
PMID:23632163 PMID:21182759 |
OMICS_00638 | SCR_010909 | The Genomic HyperBrowser | 2026-09-03 05:03:13 | 20 | |||||||
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Fugu Genome Project Resource Report Resource Website 10+ mentions |
Fugu Genome Project (RRID:SCR_013014) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE,documented on August 16, 2019. Fugu genome is among the smallest vertebrate genomes and has proved to be a valuable reference genome for identifying genes and other functional elements such as regulatory elements in the human and other vertebrate genomes, and for understanding the structure and evolution of vertebrate genomes. This site presents version 4 of the Fugu genome, released in October 2004 by the International Fugu Genome Consortium. Fugu rubripes has a very compact genome, with less than 15 consisting of dispersed repetitive sequence, which makes it ideal for gene discovery. A draft sequence of the fugu genome was determined by the International Fugu Genome Consortium in 2002 using the ''whole-genome shotgun'' sequencing strategy. Fugu is the second vertebrate genome to be sequenced, the first being the human genome. This webpage presents the annotation made on the fourth assembly by the IMCB team using the Ensembl annotation pipeline. We are continuing with the gap filling work and linking of the scaffolds to obtain super-contigs. | element, evolution, fish, fugu, functional, gene, genome, human, pufferfish, regulatory, rubripes, structure, vertebrate, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: Institute of Molecular and Cell Biology; Singapore; Singapore |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:fugu-sg, nif-0000-20988 | https://bio.tools/fugu-sg | SCR_013014 | FGP | 2026-09-03 05:03:06 | 22 | |||||||
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UCSC Cancer Genomics Browser Resource Report Resource Website 500+ mentions |
UCSC Cancer Genomics Browser (RRID:SCR_011796) | Cancer Genomics Browser | data or information resource, database, service resource | A suite of web-based tools to visualize, integrate and analyze cancer genomics and its associated clinical data. It is possible to display your own clinical data within one of their datasets. | genome, genomics, clinical, next-generation sequencing, chromosome, gene, FASEB list |
is listed by: OMICtools has parent organization: University of California at Santa Cruz; California; USA |
Cancer | NCI ; NHGRI ; American Association for Cancer Research ; UCSF Comprehensive Cancer Center ; California Institute for Quantitative Biosciences |
PMID:23109555 PMID:21059681 PMID:19333237 |
Acknowledgement requested | OMICS_00925 | SCR_011796 | 2026-09-03 05:03:14 | 589 | |||||
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Comparative Genometrics Resource Report Resource Website |
Comparative Genometrics (RRID:SCR_012920) | data or information resource, database | The Comparative Genometrics website displays for sequenced genomes, three different genometric analyses: the DNA walk and the GC and TA skews during the initial phase. Although primarily focused on prokaryotic chromosomes, the CG website posts genometric information on paradigm plasmids, phages, viruses, and organelles. The genometric analyses are available via phylogenetic tree or alphabetical list. It also offers small genome information, for mitochondria, chloroplasts, viruses, bacteriophages, and plasmids. | genome, bacteriophages, chloroplasts, genometric analyses, mitochondria, phage, plasmids, prokaryotic chromosome, sequenced genome, viruses | has parent organization: University of Lausanne; Lausanne; Switzerland | nif-0000-02682 | SCR_012920 | Comparative Genometrics | 2026-09-03 05:03:19 | 0 | |||||||||
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Zebrafish Genome Project Resource Report Resource Website 50+ mentions |
Zebrafish Genome Project (RRID:SCR_013157) | data or information resource, database | Database of zebrafish genome. | Zebrafish, genome |
is related to: Genome Reference Consortium is related to: Zebrafish Information Network (ZFIN) has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
Free, Freely available | SCR_017503, nif-0000-31931 | https://www.sanger.ac.uk/science/data/zebrafish-genome-project | SCR_013157 | Danio rerio Sequencing Project | 2026-09-03 05:03:34 | 67 | |||||||
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Tree families database Resource Report Resource Website 50+ mentions |
Tree families database (RRID:SCR_013401) | data or information resource, database | A database of phylogenetic trees of animal genes. It aims at developing a curated resource that gives reliable information about ortholog and paralog assignments, and evolutionary history of various gene families. TreeFam defines a gene family as a group of genes that evolved after the speciation of single-metazoan animals. It also tries to include outgroup genes like yeast (S. cerevisiae and S. pombe) and plant (A. thaliana) to reveal these distant members.TreeFam is also an ortholog database. Unlike other pairwise alignment based ones, TreeFam infers orthologs by means of gene trees. It fits a gene tree into the universal species tree and finds historical duplications, speciations and losses events. TreeFam uses this information to evaluate tree building, guide manual curation, and infer complex ortholog and paralog relations.The basic elements of TreeFam are gene families that can be divided into two parts: TreeFam-A and TreeFam-B families. TreeFam-B families are automatically created. They might contain errors given complex phylogenies. TreeFam-A families are manually curated from TreeFam-B ones. Family names and node names are assigned at the same time. The ultimate goal of TreeFam is to present a curated resource for all the families. phylogenetic tree, animal, vertebrate, invertebrate, gene, ortholog, paralog, evolutionary history, gene families, single-metazoan animals, outgroup genes like yeast (S. cerevisiae and S. pombe), plant (A. thaliana), historical duplications, speciations, losses, Human, Genome, comparative genomics | evolutionary history, gene, gene families, genome, animal, comparative genomics, historical duplications, human, invertebrate, losses, ortholog, outgroup genes like yeast (s. cerevisiae and s. pombe), paralog, phylogenetic tree, plant (a. thaliana), single-metazoan animals, speciations, vertebrate, FASEB list |
is related to: FlyMine has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
nif-0000-03588 | SCR_013401 | Tree families database, TreeFam | 2026-09-03 05:03:37 | 88 | |||||||||
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Cerebellar Development Transcriptome Database Resource Report Resource Website 1+ mentions |
Cerebellar Development Transcriptome Database (RRID:SCR_013096) | CDT-DB | atlas, data or information resource, database | Transcriptomic information (spatiotemporal gene expression profile data) on the postnatal cerebellar development of mice (C57B/6J & ICR). It is a tool for mining cerebellar genes and gene expression, and provides a portal to relevant bioinformatics links. The mouse cerebellar circuit develops through a series of cellular and morphological events, including neuronal proliferation and migration, axonogenesis, dendritogenesis, and synaptogenesis, all within three weeks after birth, and each event is controlled by a specific gene group whose expression profile must be encoded in the genome. To elucidate the genetic basis of cerebellar circuit development, CDT-DB analyzes spatiotemporal gene expression by using in situ hybridization (ISH) for cellular resolution and by using fluorescence differential display and microarrays (GeneChip) for developmental time series resolution. The CDT-DB not only provides a cross-search function for large amounts of experimental data (ISH brain images, GeneChip graph, RT-PCR gel images), but also includes a portal function by which all registered genes have been provided with hyperlinks to websites of many relevant bioinformatics regarding gene ontology, genome, proteins, pathways, cell functions, and publications. Thus, the CDT-DB is a useful tool for mining potentially important genes based on characteristic expression profiles in particular cell types or during a particular time window in developing mouse brains. | gene expression, fluorescence, function, gene, gene chip, genome, bioinformatics, brain, cell, cerebellum, development, in situ hybridization, fluroescence differential display, cerebellar development, microarray, mining, mouse, mrna, ontology, pathway, protein, rt-pcr, molecular neuroanatomy resource, transcriptiome, spatiotemporal, cdna microarray, genechip, postnatal, histochemistry, image, postnatal development |
is related to: Gene Ontology is related to: RIKEN integrated database of mammals has parent organization: RIKEN Brain Science Institute |
Brain development, Brain disorder | INCF Japan Node ; Japan Society for the Promotion of Science ; Japanese Ministry of Education Culture Sports Science and Technology MEXT ; Japan Science and Technology Agency |
PMID:18603407 | To be used for research and educational purposes only. Any reproduction or use for commercial purposes is prohibited without the prior express written permission of the RIKEN. | nif-0000-00008 | SCR_013096 | 2026-09-03 05:03:25 | 1 | |||||
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doRiNA Resource Report Resource Website 10+ mentions |
doRiNA (RRID:SCR_013222) | doRiNA | data or information resource, database | In animals, RNA binding proteins (RBPs) and microRNAs (miRNAs) post-transcriptionally regulate the expression of virtually all genes by binding to RNA. Recent advances in experimental and computational methods facilitate transcriptome-wide mapping of these interactions. It is thought that the combinatorial action of RBPs and miRNAs on target mRNAs form a post-transcriptional regulatory code. We provide a database that supports the quest for deciphering this regulatory code. Within doRiNA, we are systematically curating, storing and integrating binding site data for RBPs and miRNAs. Users are free to take a target (mRNA) or regulator (RBP and/or miRNA) centric view on the data. We have implemented a database framework with short query response times for complex searches (e.g. asking for all targets of a particular combination of regulators). All search results can be browsed, inspected and analyzed in conjunction with a huge selection of other genome-wide data, because our database is directly linked to a local copy of the UCSC genome browser. At the time of writing, doRiNA encompasses RBP data for the human, mouse and worm genomes. For computational miRNA target site predictions, we provide an update of PicTar predictions. | binding site, rna binding protein, microrna, post-transcription, rna, gene, genome, mammal, population variation, gene expression, transcript, regulator, protein, binding |
is related to: UCSC Genome Browser has parent organization: Max Delbruck Center for Molecular Medicine; Berlin; Germany |
MDC Systems Biology Network ; BMBF ; Senate of Berlin; Berlin; Germany ; DFG |
PMID:22086949 | nlx_151321, r3d100011087 | SCR_013222 | 2026-09-03 05:03:26 | 15 | |||||||
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Daring Nucleic Adventures - genegeek Resource Report Resource Website |
Daring Nucleic Adventures - genegeek (RRID:SCR_005215) | DNA, DNA - genegeek | blog, data or information resource, narrative resource | Hi. I''m genegeek (aka Catherine Anderson). I realized during my PostDoc that I preferred learning and explaining new results to doing science so I started a non-traditional career of teaching and outreach. I''ll be using this space to explore public perception of genetics and other cool molecular biology stuff. I hope to add to the great discussions re: new science discoveries and general understanding of genetics. I''ve been running an outreach program and enjoy talking to non-experts about their opinions and understanding. I hope my enthusiasm for the topics can come through the screen. My posts are presented as opinion and commentary and do not represent the views of LabSpaces Productions, LLC, my employer, or my educational institution. | genetics, molecular biology, dna, science, genome, education |
is used by: NIF Data Federation is used by: Integrated Blogs has parent organization: LabSpaces |
nlx_144219 | SCR_005215 | Daring Nucleic Adventures | 2026-09-03 05:01:43 | 0 | ||||||||
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International Knockout Mouse Consortium Resource Report Resource Website 50+ mentions |
International Knockout Mouse Consortium (RRID:SCR_005574) | IKMC | data or information resource, database | Database of the international consortium working together to mutate all protein-coding genes in the mouse using a combination of gene trapping and gene targeting in C57BL/6 mouse embryonic stem (ES) cells. Detailed information on targeted genes is available. The IKMC includes the following programs: * Knockout Mouse Project (KOMP) (USA) ** CSD, a collaborative team at the Children''''s Hospital Oakland Research Institute (CHORI), the Wellcome Trust Sanger Institute and the University of California at Davis School of Veterinary Medicine , led by Pieter deJong, Ph.D., CHORI, along with K. C. Kent Lloyd, D.V.M., Ph.D., UC Davis; and Allan Bradley, Ph.D. FRS, and William Skarnes, Ph.D., at the Wellcome Trust Sanger Institute. ** Regeneron, a team at the VelociGene division of Regeneron Pharmaceuticals, Inc., led by David Valenzuela, Ph.D. and George D. Yancopoulos, M.D., Ph.D. * European Conditional Mouse Mutagenesis Program (EUCOMM) (Europe) * North American Conditional Mouse Mutagenesis Project (NorCOMM) (Canada) * Texas A&M Institute for Genomic Medicine (TIGM) (USA) Products (vectors, mice, ES cell lines) may be ordered from the above programs. | gene, knock out mouse, chromosome, allele, c57bl/6, embryonic stem cell, vector, mutant, es cell, genome, targeting, gene list, FASEB list |
is related to: Texas A and M Institute for Genomic Medicine is related to: European Mouse Mutant Archive is related to: CMMR - Canadian Mouse Mutant Repository is parent organization of: EUCOMMTOOLS is parent organization of: North American Conditional Mouse Mutagenesis Project is parent organization of: European Conditional Mouse Mutagenesis Program is parent organization of: Knockout Mouse Project |
European Union ; NHGRI HG004074 |
PMID:22968824 PMID:21677750 |
nlx_146200 | SCR_005574 | 2026-09-03 05:01:51 | 68 | |||||||
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SwissRegulon Resource Report Resource Website 10+ mentions |
SwissRegulon (RRID:SCR_005333) | SwissRegulon | data or information resource, database | A database of genome-wide annotations of regulatory sites. The predictions are based on Bayesian probabilistic analysis of a combination of input information including: * Experimentally determined binding sites reported in the literature. * Known sequence-specificities of transcription factors. * ChIP-chip and ChIP-seq data. * Alignments of orthologous non-coding regions. Predictions were made using the PhyloGibbs, MotEvo, IRUS and ISMARA algorithms developed in their group, depending on the data available for each organism. Annotations can be viewed in a Gbrowse genome browser and can also be downloaded in flat file format. | genome, binding site, transcription factor, genome-wide annotation, annotation, chip-chip, chip-seq, non-coding region, promoter, motif, transcript, regulatory motif, genome browser, FASEB list |
is listed by: OMICtools has parent organization: SIB Swiss Institute of Bioinformatics |
PMID:23180783 PMID:17130146 |
Acknowledgement requested | nif-0000-03524, OMICS_00543 | SCR_005333 | SwissRegulon Database | 2026-09-03 05:01:45 | 46 | ||||||
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TranspoGene Resource Report Resource Website 1+ mentions |
TranspoGene (RRID:SCR_005634) | data or information resource, database | A publicly available database of Transposed elements (TEs) which are located within protein-coding genes of 7 organisms: human, mouse, chicken, zebrafish, fruilt fly, nematode and sea squirt. Using TranspoGene the user can learn about the many aspects of the effect these TEs have on their hosting genes, such as: exonization events (including alternative splicing-related data), insertion of TEs into introns, exons, and promoters, specific location of the TE over the gene, evolutionary divergence of the TE from its consensus sequence and involvement in diseases. TranspoGene database is quickly searchable through its website, enables many kinds of searches and is available for download. TranspoGene contains information regarding specific type and family of the TEs, genomic and mRNA location, sequence, supporting transcript accession and alignment to the TE consensus sequence. The database also contains host gene specific data: gene name, genomic location, Swiss-Prot and RefSeq accessions, diseases associated with the gene and splicing pattern. The TranspoGene and microTranspoGene databases can be used by researchers interested in the effect of TE insertion on the eukaryotic transcriptome. | element, eukaryotic, evolutionary, exon, exonization, family, fruit fly, gene, genome, alternative, chicken, coding, disease, divergence, genomic, hosting, human, human genome databases, intron, location, map, maps, mouse, mrna, nematode, organism, pattern, promoter, protein, sea squirt, sequence, splicing, transcript, transcriptome, transposed, viewers, worm, zebrafish | has parent organization: Tel Aviv University; Ramat Aviv; Israel | nif-0000-03579 | SCR_005634 | TranspoGene | 2026-09-03 05:01:52 | 9 | |||||||||
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Systems Transcriptional Activity Reconstruction Resource Report Resource Website 5000+ mentions |
Systems Transcriptional Activity Reconstruction (RRID:SCR_005622) | STAR | data or information resource, database, service resource | A next-generation web-based application that aims to provide an integrated solution for both visualization and analysis of deep-sequencing data, along with simple access to public datasets. | genome browser, genome, next generation sequence, visualization, FASEB list |
is used by: CIRCexplorer is listed by: OMICtools is related to: star-for-criu has parent organization: University of California at San Diego; California; USA |
Account required, Or Guest login | OMICS_00895 | SCR_005622 | Systems Transcriptional Activity Reconstruction Genome Browser, Systems Transcriptional Activity Reconstruction, STAR Genome Browser | 2026-09-03 05:02:06 | 6478 | |||||||
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BiGG Database Resource Report Resource Website 100+ mentions |
BiGG Database (RRID:SCR_005809) | BiGG | data or information resource, database | A knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. BiGG integrates several published genome-scale metabolic networks into one resource with standard nomenclature which allows components to be compared across different organisms. BiGG can be used to browse model content, visualize metabolic pathway maps, and export SBML files of the models for further analysis by external software packages. Users may follow links from BiGG to several external databases to obtain additional information on genes, proteins, reactions, metabolites and citations of interest. | biochemical, genetics, genomics, genome, metabolic network, reconstruction, model, metabolic pathway, gene, protein, reaction, metabolite, metabolic reconstruction, compound, pathway, FASEB list |
uses: SBML is used by: BiGGR is listed by: 3DVC has parent organization: University of California at San Diego; California; USA |
NIH ; Ruth L. Kirschstein National Research Service Award - NIH Bioinformatics Training ; University of California at San Diego; California; USA ; Calit2 summer research scholarship ; NIGMS GM00806-06 |
PMID:20426874 | nlx_149299, r3d100011567 | https://doi.org/10.17616/R3MG9M | SCR_005809 | BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions, BiGG - a Biochemical Genetic and Genomic knowledgebase | 2026-09-03 05:02:03 | 145 | |||||
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VarySysDB Resource Report Resource Website |
VarySysDB (RRID:SCR_005880) | data or information resource, database | It consists of a Genome Browser, an LD Search System, and the VaryGene 2 system. The Generic Genome Browser is a combination of database and interactive Web page for manipulating and displaying annotations on genomes, while LDSearchSystem is a search system for linkage disequilibrium (LD) bins. VaryGene 2 is a system to search, display, and download our research results on human polymorphism based on publicly available data and annotations of transcripts presented by H-InvDB. VaryGene 2 provides information about single nucleotide polymorphisms (SNPs), deletion-insertion polymorphisms (DIPs), short tandem repeats (STRs), single amino acid repeats (SARs), structural variation (or copy number variations: CNVs), and their relations to the genome, transcripts, and functional domains. Users can search by polymorphisms, transcripts, STRs/SARs, and CNVs. | genome, human polymorphism | has parent organization: National Institute of Advanced Industrial Science and Technology | nif-0000-03621 | SCR_005880 | VarySysDB | 2026-09-03 05:01:46 | 0 | |||||||||
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Computational Biology at ORNL Resource Report Resource Website |
Computational Biology at ORNL (RRID:SCR_005710) | Computational Biology at ORNL | analysis service resource, data analysis service, production service resource, service resource | We are the Computational Biology and Bioinformatics Group of the Biosciences Division of Oak Ridge National Laboratory. We conduct genetics research and system development in genomic sequencing, computational genome analysis, and computational protein structure analysis. We provide bioinformatics and analytic services and resources to collaborators, predict prospective gene and protein models for analysis, provide user services for the general community, including computer-annotated genomes in Genome Channel. Our collaborators include the Joint Genome Institute, ORNL''s Computer Science and Mathematics Division, the Tennessee Mouse Genome Consortium, the Joint Institute for Biological Sciences, and ORNL''s Genome Science and Technology Graduate Program. | genetics, research, system development, genomic sequencing, computation, genome analysis, protein structure, analysis, gene, protein, gene annotation, annotation, genome | has parent organization: Oak Ridge National Laboratory | nlx_149161 | SCR_005710 | Computational Biology at Oak Ridge National Laboratory, Computational Biology and Bioinformatics Group at ORNL, Computational Biology Bioinformatics Group at ORNL | 2026-09-03 05:01:54 | 0 | ||||||||
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GOtcha Resource Report Resource Website 1+ mentions |
GOtcha (RRID:SCR_005790) | GOtcha | analysis service resource, data analysis service, production service resource, service resource | GOtcha provides a prediction of a set of GO terms that can be associated with a given query sequence. Each term is scored independently and the scores calibrated against reference searches to give an accurate percentage likelihood of correctness. These results can be displayed graphically. Why is GOtcha different to what is already out there and why should you be using it? * GOtcha uses a method where it combines information from many search hits, up to and including E-values that are normally discarded. This gives much better sensitivity than other methods. * GOtcha provides a score for each individual term, not just the leaf term or branch. This allows the discrimination between confident assignments that one would find at a more general level and the more specific terms that one would have lower confidence in. * The scores GOtcha provides are calibrated to give a real estimate of correctness. This is expressed as a percentage, giving a result that non-experts are comfortable in interpreting. * GOtcha provides graphical output that gives an overview of the confidence in, or potential alternatives for, particular GO term assignments. The tool is currently web-based; contact David Martin for details of the standalone version. Platform: Online tool | function, protein, prediction, genome, annotation, gene, statistical analysis |
is listed by: Gene Ontology Tools is related to: Gene Ontology has parent organization: University of Dundee; Scotland; United Kingdom |
Wellcome Trust 060269; European Union fifth framework QLRI-CT-2000-00127 |
PMID:15550167 | Free for academic use | nlx_149269 | http://www.compbio.dundee.ac.uk/Software/GOtcha/gotcha.html | SCR_005790 | 2026-09-03 05:02:01 | 3 | |||||
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YanHuang Project Resource Report Resource Website 50+ mentions |
YanHuang Project (RRID:SCR_006077) | data or information resource, database | This database presents the entire DNA sequence of the first diploid genome sequence of a Han Chinese, a representative of Asian population. The genome, named as YH, represents the start of YanHuang Project, which aims to sequence 100 Chinese individuals in 3 years. It was assembled based on 3.3 billion reads (117.7Gbp raw data) generated by Illumina Genome Analyzer. In total of 102.9Gbp nucleotides were mapped onto the NCBI human reference genome (Build 36) by self-developed software SOAP (Short Oligonucleotide Alignment Program), and 3.07 million SNPs were identified. The personal genome data is illustrated in a MapView, which is powered by GBrowse. A new module was developed to browse large-scale short reads alignment. This module enabled users track detailed divergences between consensus and sequencing reads. In total of 53,643 HGMD recorders were used to screen YH SNPs to retrieve phenotype related information, to superficially explain the donor's genome. Blast service to align query sequences against YH genome consensus was also provided. | genome, genetic, adult, chromosome, clinical, control, genomic, human, normal, FASEB list | has parent organization: BGI; Shenzhen; China | nif-0000-03654 | SCR_006077 | YH1 | 2026-09-03 05:02:13 | 53 | |||||||||
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TRIPLES- a database of TRansposon-Insertion Phenotypes Localization and Expression in Saccharomyces Resource Report Resource Website 1+ mentions |
TRIPLES- a database of TRansposon-Insertion Phenotypes Localization and Expression in Saccharomyces (RRID:SCR_005714) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 15, 2013. TRIPLES provides full public access to the data and reagents generated from ongoing functional analysis of the yeast genome. Using a novel transposon-tagging approach, we have analyzed disruption phenotypes, gene expression, and protein localization on a genome-wide scale in Saccharomyces. The data generated from this study may be accessed through our database, TRIPLES ; additionally, all reagents generated in this study are freely available from on-line order forms (linked to TRIPLES as well). multipurpose, mini-transposon, mutant alleles, phenotypes, protein localization, gene expression, Saccharomyces cerevisiae, Web-accessible database, transposon-mutagenized yeast strains, downloaded, tab-delimited, text file, protein localization data, fluorescent micrographs, staining patterns, indirect immunofluorescence analysis of indicated epitope-tagged proteins, subcellular localization of the yeast proteome, visual library, Nucleic Acid Sequence Data Library (GenBank), clone report, graphic map, transposon insertions (represented as flags) | fluorescent micrographs, fungus genome, gene expression, genome, clone report, downloaded, genomics, graphic map, indirect immunofluorescence analysis of indicated epitope-tagged proteins, microarray data, mini-transposon, multipurpose, mutant alleles, nucleic acid sequence data library (genbank), phenotypes, protein localization, protein localization data, saccharomyces cerevisiae, staining patterns, subcellular localization of the yeast proteome, tab-delimited, text file, transposon insertions (represented as flags), transposon-mutagenized yeast strains, visual library, web-accessible database, yeast | has parent organization: Yale University; Connecticut; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-03589 | SCR_005714 | TRIPLES | 2026-09-03 05:02:01 | 3 | ||||||||
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IGDB.NSCLC Resource Report Resource Website 1+ mentions |
IGDB.NSCLC (RRID:SCR_006048) | IGDB.NSCLC | data or information resource, database | IGDB.NSCLC database is aiming to facilitate and prioritize identified lung cancer genes and microRNAs for pathological and mechanistic studies of lung tumorigenesis and for developing new strategies for clinical interventions. We integrated and curated various lung cancer genomic datasets to present # lung cancer genes with somatic mutations, experimental supports and statistic significance in association with clinicopathological features; # genomic alterations with copy number alterations (CNA) detected by high density SNP arrays, gain or loss regions detected by arrayed comparative genome hybridization (aCGH), and loss of heterozygosity (LOH) detected by microsatellite markers; # aberrant expression of genes and microRNAs detected by various microarrays. IGDB.NSCLC database provides user friendly interfaces and searching functions to display multiple layers of evidence for detecting lung cancer target genes and microRNAs, especially emphasizing on concordant alterations: # genes with altered expression located in the CNA regions; # microRNAs with altered expression located in the CNA regions; # somatic mutation genes located in the CNA regions; and # genes associated with clinicopathological features located in the CNA regions. These concordant altered genes and miRNAs should be prioritized for further basic and clinical studies. | genomic database, non-small cell lung cancer, lung, pulmonary, cancer, genome, lung adenocarcinoma, squamous cell carcinoma, genomic alteration, lung tumorigenesis, copy number alteration, heterozygosity, gene, microrna, somatic mutation, clinical information, alteration, gene expression, microrna expression, somatic mutation, chromosome, lung cancer gene, aberrant expression, microarray, clinicopathology | has parent organization: Academia Sinica; Taipei; Taiwan | Non-small cell lung cancer, Lung cancer, Adenocarcinoma, Squamous Cell Carcinoma | National Research Program for Genomic Medicine NSC98-3112-B-001-004; National Research Program for Genomic Medicine NSC98-3112-B-001-031; National Science Council Taiwan NSC100-2325-B-001-012 |
PMID:22139933 | nlx_151446 | SCR_006048 | Integrated Genomic Database of Non-Small Cell Lung Cancer | 2026-09-03 05:02:04 | 5 |
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