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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
DIME Resource Report Resource Website 10+ mentions |
DIME (RRID:SCR_010874) | DIME | software resource | R-package for identifying differential ChIP-seq based on an ensemble of mixture models. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
biotools:DIME, OMICS_00473 | https://bio.tools/DIME | SCR_010874 | 2026-09-05 06:26:49 | 31 | ||||||||
|
ChIPModule Resource Report Resource Website 1+ mentions |
ChIPModule (RRID:SCR_010877) | ChIPModule | software resource | A software tool for systematic discovery of transcription factors and their cofactors from ChIP-seq data. | is listed by: OMICtools | OMICS_00477 | SCR_010877 | ChIPModule: Systematic discovery of transcription factors and their cofactors from ChIP-seq data | 2026-09-05 06:26:49 | 1 | |||||||||
|
BWA Resource Report Resource Website 1000+ mentions |
BWA (RRID:SCR_010910) | BWA | alignment software, data analysis software, data processing software, image analysis software, sequence analysis software, software application, software resource | Software for aligning sequencing reads against large reference genome. Consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. First for sequence reads up to 100bp, and other two for longer sequences ranged from 70bp to 1Mbp. | sequence, alignment, reference, genome, human, short, long, read, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is listed by: SoftCite is related to: shovill is related to: Proovread is related to: BWA-MEM2 has parent organization: SourceForge is required by: RelocaTE |
PMID:19451168 PMID:20080505 DOI:10.1093/bioinformatics/btp324 |
Free, Available for download, Freely available | SCR_015853, biotools:bwa-sw, OMICS_00654 | https://sourceforge.net/projects/bio-bwa/files/, https://bio.tools/bwa-sw, https://sources.debian.org/src/bwa/ | SCR_010910 | Burrows-Wheeler Aligner (BWA), Burrows-Wheeler Aligner | 2026-09-05 06:26:50 | 2638 | |||||
|
CloudBurst Resource Report Resource Website |
CloudBurst (RRID:SCR_010911) | CloudBurst | software resource | A new parallel read-mapping algorithm optimized for mapping next-generation sequence data to the human genome and other reference genomes, for use in a variety of biological analyses including SNP discovery, genotyping, and personal genomics. | mapreduce/hadoop, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:19357099 | Free | OMICS_00657, biotools:cloudburst | https://bio.tools/cloudburst | SCR_010911 | 2026-09-05 06:26:50 | 0 | ||||||
|
ERNE Resource Report Resource Website 10+ mentions |
ERNE (RRID:SCR_010912) | ERNE | software resource | A short string alignment package whose goal is to provide an all-inclusive set of tools to handle short (NGS-like) reads. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00662 | SCR_010912 | 2026-09-05 06:26:50 | 48 | ||||||||||
|
F-Seq Resource Report Resource Website 50+ mentions |
F-Seq (RRID:SCR_010880) | F-Seq | software resource | A software package that generates a continuous tag sequence density estimation allowing identification of biologically meaningful sites whose output can be displayed directly in the UCSC Genome Browser. |
is listed by: OMICtools has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
OMICS_00482 | SCR_010880 | 2026-09-05 06:26:49 | 84 | ||||||||||
|
HOMER Resource Report Resource Website 5000+ mentions |
HOMER (RRID:SCR_010881) | HOMER | data analysis software, data processing software, sequence analysis software, software application, software resource | Software tools for Motif Discovery and next-gen sequencing analysis. Used for analyzing ChIP-Seq, GRO-Seq, RNA-Seq, DNase-Seq, Hi-C and numerous other types of functional genomics sequencing data sets. Collection of command line programs for unix style operating systems written in Perl and C++. | motif, discovery, next, generation, sequencing, analysis, genomic, data |
is listed by: OMICtools is related to: findMotif.pl has parent organization: University of California at San Diego; California; USA |
Foundation Leducq Transatlantic Network Grant ; NCI CA52599; NIDDK DK063491; NIGMS P50 GM081892; NIH HC088093; NURSA consortium grant |
PMID:20513432 | OMICS_00483 | http://biowhat.ucsd.edu/homer/index.html | SCR_010881 | HOMER, Hypergeometric Optimization of Motif EnRichment, Homer, Homer v4.5 | 2026-09-05 06:26:49 | 5929 | |||||
|
Carleton University; Ontario; Canada Resource Report Resource Website |
Carleton University; Ontario; Canada (RRID:SCR_011136) | university | Public comprehensive university in Ottawa, Ontario, Canada. Founded in 1942 as Carleton College, a private, non-denominational evening college to serve returning World War II. |
is parent organization of: Aptamer Base is parent organization of: An Extended and Parallel version of Clustal is parent organization of: Carleton University Tissue Engineering and Applied Materials Hub Core Facility |
Crossref funder ID:100008095, grid.34428.39, Wikidata:Q1041737, nlx_45745, ISNI:0000 0004 1936 893X | https://ror.org/02qtvee93 | SCR_011136 | 2026-09-05 06:26:54 | 0 | ||||||||||
|
Aldevron Resource Report Resource Website 10+ mentions |
Aldevron (RRID:SCR_011017) | Aldevron | commercial organization | Contract manufacturing services company, specializing in plasmid DNA manufacturing, protein services and antibody development.Producesg high quality plasmid DNA, proteins, enzymes, antibodies, and other biologicals in support of clients objectives. | is listed by: ScienceExchange | SciEx_9447 | http://www.scienceexchange.com/facilities/aldevron | SCR_011017 | 2026-09-05 06:26:52 | 46 | |||||||||
|
Medical Research Council Resource Report Resource Website 50+ mentions |
Medical Research Council (RRID:SCR_011018) | MRC, UK MRC | institution | The Medical Research Council is a publicly-funded organization dedicated to improving human health. We support research across the entire spectrum of medical sciences, in universities and hospitals, in our own units, centers and institutes in the UK, and in our units in Africa. | is related to: EMIF | Wikidata: Q746879, Crossref funder ID: 501100000265, nlx_inv_1005080, ISNI: 122478951, grid.14105.31 | https://ror.org/03x94j517 | SCR_011018 | UK Medical Research Council, British Medical Research Council | 2026-09-05 06:26:52 | 55 | ||||||||
|
Catholic University of Louvain; Louvain-la-Neuve; Belgium Resource Report Resource Website 1+ mentions |
Catholic University of Louvain; Louvain-la-Neuve; Belgium (RRID:SCR_011141) | UCL | university | Belgium's largest French speaking university. |
is related to: Pharma-Planta Consortium is related to: PRECISESADS is parent organization of: Catholic University of Louvain Institute of Experimental and Clinical Research Imaging Platform Core Facility is parent organization of: Catholic University of Louvain Institute of Experimental and Clinical Research Flow Cytomerty Platform Core Facility is parent organization of: Catholic University of Louvain Genomics platform Core Facility |
grid.7942.8, Wikidata:Q378134, ISNI:0000 0001 2294 713X, nlx_143960, Crossref funder ID:501100008135 | https://ror.org/02495e989 | http://www.uclouvain.be/en-index.html | SCR_011141 | Catholic University of Louvain, Universit� catholique de Louvain, Universite catholique de Louvain | 2026-09-05 06:26:54 | 2 | |||||||
|
Mouse Clinical Institute; Alsace; France Resource Report Resource Website 10+ mentions |
Mouse Clinical Institute; Alsace; France (RRID:SCR_011021) | MCI, ICS | institution | Research infrastructure for generation of new mouse models,being therefore the most important transgenic mouse production unit in France. | is related to: AgedBrainSYSBIO | ISNI: 0000 0004 0404 8159, nlx_158126, grid.452426.3 | https://ror.org/03cjqqq10 | SCR_011021 | Mouse Clinical Institute, Institut Clinique de la Souris, Institut Clinique de la Souris; Alsace; France | 2026-09-05 06:26:52 | 12 | ||||||||
|
Cayetano Heredia University; Lima; Peru Resource Report Resource Website 10+ mentions |
Cayetano Heredia University; Lima; Peru (RRID:SCR_011142) | university | Private nonprofit university located in Lima, Peru. It was named in honor of Cayetano Heredia, one of the eminent Peruvian physicians of the 19th century. The university is overseen by a board of trustees and is not owned by any private or state entity. | is parent organization of: CELL- PREVEN Project | nlx_71545 | http://www.upch.edu.pe/ | SCR_011142 | UPCH | 2026-09-05 06:26:54 | 37 | |||||||||
|
Center for Information Technology Resource Report Resource Website |
Center for Information Technology (RRID:SCR_011143) | CIT | government granting agency | The Center for Information Technology''s (CIT) mission is to provide, coordinate, and manage information technology and to advance computational science. CIT incorporates the power of modern computers into the biomedical programs and administrative procedures of the NIH by focusing on three primary activities: conducting computational biosciences research, developing computer systems, and providing computer facilities. CIT supports NIH''s research and management programs with efficient, cost-effective administrative and high-powered scientific computing, software development, networking, and telecommunications services. CIT also provides bioinformatics support through its scientists, engineers, and mathematicians. Among its activities, the CIT: * engages in collaborative research and provides collaborative support to NIH investigators in the area of computational bioscience * provides efficient, cost-effective information systems and networking services * provides state-of-the-art scientific and administrative computing facilities * identifies new computing technologies with innovative applications to biomedical research * creates, purchases, and distributes software applications * provides NIH staff with computing information, expertise, and training * provides data-processing and high-performance computing facilities, integrated telecommunications data networks, and services to the U.S. Department of Health and Human Service (HHS) and other Federal agencies * serves as a data center to HHS and other Federal agencies * develops, administers, and manages NIH systems and provides consulting services to NIH Institutes and Centers in support of administrative and business applications |
has parent organization: National Institutes of Health is parent organization of: Federal Interagency Traumatic Brain Injury Research Informatics System is parent organization of: MIPAV: Medical Image Processing and Visualization |
nlx_inv_1005031 | SCR_011143 | 2026-09-05 06:26:54 | 0 | ||||||||||
|
Central University of the Caribbean; Puerto Rico; USA Resource Report Resource Website |
Central University of the Caribbean; Puerto Rico; USA (RRID:SCR_011145) | UCC | university | Private university in Bayamón, Puerto Rico that focuses on graduate studies and professional certifications in the health sciences. |
is parent organization of: UCC Common Instrumentation Area and Services is parent organization of: UCC Behavioral Testing Facility is parent organization of: UCC Biomedical Proteomic Facility is parent organization of: UCC Data Management and Statistical Research Support Unit is parent organization of: UCC HIV and Substance of Abuse Laboratory Core is parent organization of: UCC Immunocytochemistry Laboratory is parent organization of: UCC Neuronal Glia Culture Facility is parent organization of: UCC Optical Imaging Facility is parent organization of: UCC Protein and Nucleic Acid Core Facility is parent organization of: UCC Transmission Electron Microscopy Laboratory |
grid.253922.d, Wikidata:Q5061968, nlx_156113, ISNI:0000 0000 9699 6324 | https://ror.org/01rpmzy83 | SCR_011145 | Universidad Central del Caribe, Central University of the Caribbean | 2026-09-05 06:26:54 | 0 | ||||||||
|
Chang Gung University; Taoyuan; Taiwan Resource Report Resource Website 1+ mentions |
Chang Gung University; Taoyuan; Taiwan (RRID:SCR_011149) | CGU | university | Chang Gung University is a private university in Guishan District, Taoyuan City, Taiwan. | is parent organization of: Chang Gung University College of Medicine; Taoyuan; Taiwan | nlx_157707 | SCR_011149 | Chang Gung University | 2026-09-05 06:26:54 | 1 | |||||||||
|
Baylor University; Texas; USA Resource Report Resource Website 1+ mentions |
Baylor University; Texas; USA (RRID:SCR_011029) | university | Private Baptist research university in Waco, Texas. Baylor was chartered in 1845 by the last Congress of the Republic of Texas. |
is parent organization of: Baylor University Department of Psychology and Neuroscience is parent organization of: Baylor College of Medicine - Shaw Laboratory is parent organization of: Genboree Discovery System is parent organization of: National Center for Macromolecular Imaging is parent organization of: Sea Urchin Genome Project is parent organization of: Sea Urchin Genome Project is parent organization of: Tribolium castaneum Genome Project is parent organization of: Honey Bee Genome Project is parent organization of: EMDataResource.org is parent organization of: BCM Department of Neuroscience Andreas Tolias Lab is parent organization of: HapMap 3 and ENCODE 3 is parent organization of: SimRare is parent organization of: PhenoMan is parent organization of: Human Epigenome Atlas is parent organization of: Baylor College of Medicine; Department of Pharmacology is parent organization of: Baylor College of Medicine Department of Neuroscience is parent organization of: Mouse Mutagenesis Center for Developmental Defects is parent organization of: Gene Atlas is parent organization of: Dictyostelium discoideum genome database is parent organization of: Bovine Genome Project is parent organization of: BCM ET is parent organization of: Atlas2 is parent organization of: Genboree Workbench is parent organization of: BCM Analyte Center is parent organization of: BCM Circulating Tumor Cells Core Facility is parent organization of: Baylor College of Medicine Human Genome Sequencing Center is parent organization of: Mouse Genome Project is parent organization of: Dictyostelium discoideum genome database |
ISNI:0000 0001 2111 2894, Crossref funder ID:100007492, nlx_50627, grid.252890.4, Wikidata:Q812573 | https://ror.org/005781934 | SCR_011029 | 2026-09-05 06:26:52 | 2 | ||||||||||
|
Chang Gung University College of Medicine; Taoyuan; Taiwan Resource Report Resource Website |
Chang Gung University College of Medicine; Taoyuan; Taiwan (RRID:SCR_011150) | CGU College of Medicine | university | Private university in Guishan District, Taoyuan City, Taiwan. |
has parent organization: Chang Gung University; Taoyuan; Taiwan is parent organization of: Stroke Registry in Chang Gung Healthcare System |
nlx_157706 | SCR_011150 | Chang Gung University College of Medicine | 2026-09-05 06:26:54 | 0 | |||||||||
|
BioSciTech Resource Report Resource Website |
BioSciTech (RRID:SCR_011030) | commercial organization | Scientific research, development and consulting company. Developes noninvasive glucose detection system to be used for people with Diabetes. BioSciTech has scientific expertise in biopolymers and is developing several relationships with other companies for development of biopolymers and new magnetic resonance characterization techniques. Developes amorphous pharmaceutical materials. | is listed by: ScienceExchange | SciEx_9593 | http://www.scienceexchange.com/facilities/bioscitech | SCR_011030 | BioSciTech LLC | 2026-09-05 06:26:52 | 0 | |||||||||
|
Charite - Universitatsmedizin Berlin; Berlin; Germany Resource Report Resource Website 1+ mentions |
Charite - Universitatsmedizin Berlin; Berlin; Germany (RRID:SCR_011151) | Charite, Charité | university | One of Europe's largest university hospitals, affiliated with Humboldt University and Free University Berlin. With numerous Collaborative Research Centres of the German Research Foundation it is one of Germany's most research-intensive medical institutions. |
is related to: OncoTrack is related to: ONE Study has parent organization: Free University of Berlin; Berlin; Germany has parent organization: Humboldt University of Berlin; Berlin; Germany is parent organization of: HOMOZYGOSITYMAPPER is parent organization of: SuperPred: Drug classification and target prediction is parent organization of: SuperTarget is parent organization of: LEAD-DBS is parent organization of: SynSysNet is parent organization of: Ontologizer is parent organization of: Human Phenotype Ontology is parent organization of: Phenexplorer is parent organization of: Phenomizer is parent organization of: CellFinder is parent organization of: GraphVar: A toolbox for comprehensive graph analyses of functional brain connectivity is parent organization of: monoclonal antibody-based chemiluminescence immunoassay for 3,5-diiodothyronine (3,5-T2) is parent organization of: Trial Registration Number screener is parent organization of: International Graduate Program Medical Neurosciences is parent organization of: Charite University and Berlin Institute for Health Research Central Biobank Core Facility is parent organization of: Charité Berlin University of Medicine Transgenic Technologies Core Facility is parent organization of: Charité Berlin University of Medicine Cryo-Electron Microscopy Core Facility is parent organization of: Charité Berlin University of Medicine Virchow Clinic Campus Experimental Hybrid Operating Room Core Facility is parent organization of: Charité Berlin University of Medicine Viral Core Facility is parent organization of: Charité Berlin University of Medicine iPATH.Berlin Core Facility is parent organization of: Charité Berlin University of Medicine Animal Behavior Phenotyping Core Facility is parent organization of: Charité Berlin University Medicine Research Institutes for Experimental Medicine Core Facility is parent organization of: Charité Berlin University of Medicine Advanced Medical Bioimaging Core Facility is parent organization of: Berlin Center for Advanced Neuroimaging Core Facility is parent organization of: Charité Berlin University of Medicine Central Radionuclide Laboratory Core Facility is parent organization of: Charité Berlin University of Medicine Scientific Workshop Core Facility is parent organization of: Charité Berlin University of Medicine Electron Microscopy Core Facility is parent organization of: Charite Berlin University of Medicine Berlin Experimental Radionuclide Imaging Center BERIC Core Facility |
GRID grid.6363.0, Crossref Funder ID 501100002839, ISNI 0000 0001 2218 4662, nlx_149288, Wikidata Q162684 | https://ror.org/001w7jn25 | SCR_011151 | , Charité - University Medicine Berlin, Charite - Universitatsmedizin Berlin, Charite Universitatsmedizin Berlin, Charité University of Medicine, Charité Berlin University of Medicine, Charite - University Medicine Berlin; Berlin; Germany, Charité Universitätsmedizin Berlin, Charite - University Medicine Berlin, Charite University of Medicine, Charité - Universitätsmedizin Berlin | 2026-09-05 06:26:54 | 7 |
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