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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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GDC Resource Report Resource Website 1+ mentions |
GDC (RRID:SCR_001007) | GDC | data analysis software, data management software, data processing software, software application, software resource | A C++ application designed for compression of genome collections from the same species. | compression, genome collection, c++, genome, software |
is listed by: OMICtools is hosted by: GitHub |
DOI:10.1038/srep11565 | Source code available for download | OMICS_00958 | https://github.com/refresh-bio/GDC2 | SCR_001007 | GDC 2, Genome Differential Compressor, Genome Differential Compressor (GDC) | 2026-09-19 12:49:33 | 1 | |||||
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NewEast Biosciences Resource Report Resource Website |
NewEast Biosciences (RRID:SCR_001129) | commercial organization | Commercial supplier which provides antibodies, assay kits, biomarkers, and proteins. | antibody, pennsylvania, commercial, assay kit, oncogene | nlx_152421 | SCR_001129 | 2026-09-19 12:49:34 | 0 | |||||||||||
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AutoAssemblyD Resource Report Resource Website |
AutoAssemblyD (RRID:SCR_001087) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software which performs local and remote genome assembly by several assemblers based on an XML Template which can replace the large command lines required by most assemblers. | genome, genome assembly, xml, sequence analysis software, local genome assembly, remote genome assembly, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
PMID:24143057 | Free, Available for download, Freely available | biotools:autoassemblyd, OMICS_00874 | https://bio.tools/autoassemblyd | SCR_001087 | 2026-09-19 12:49:34 | 0 | |||||||
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Kyoto Encyclopedia of Genes and Genomes Expression Database Resource Report Resource Website 1000+ mentions |
Kyoto Encyclopedia of Genes and Genomes Expression Database (RRID:SCR_001120) | KEGG Expression Database | data or information resource, data repository, database, service resource, storage service resource | Database for mapping gene expression profiles to pathways and genomes. Repository of microarray gene expression profile data for Synechocystis PCC6803 (syn), Bacillus subtilis (bsu), Escherichia coli W3110 (ecj), Anabaena PCC7120 (ana), and other species contributed by the Japanese research community. | encyclopedia, endogenous, environment, enzyme, escherichia coli, exogenous, expression, family, functional, gene, genetic, anabaena, bacillus subtilis, biological system, biology, building block, cell, cellular, chemical, community, complex, genome, genomic, hierarchy, interaction, japanese, mapping, metabolic, metabolic pathway databases, microarray, molecular, molecular wiring, nomenclature, order, organism, ortholog, pathway, process, protein, reaction, research, sequence, specie, substance, synechocystis, FASEB list |
is listed by: LabWorm is affiliated with: KEGG has parent organization: Kyoto University; Kyoto; Japan |
PMID:9847135 PMID:10592173 |
Free, Available for download, Freely available | r3d100011570, nif-0000-21234 | https://doi.org/10.17616/R3792T | SCR_001120 | Kyoto Encyclopedia of Genes and Genomes Expression Database | 2026-09-19 12:49:34 | 1279 | |||||
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Howard University; Washington D.C. Resource Report Resource Website |
Howard University; Washington D.C. (RRID:SCR_001084) | HU | university | A federally chartered, private, coeducational, nonsectarian, historically black university in Washington, D.C. Howard University has graduate schools in many fields, including business, nursing, engineering, and medicine. | undergraduate, graduate, master's, doctoral, phD, institution, university, nonsectarian |
is related to: Clinical and Translational Science Awards Consortium is parent organization of: Howard Flow Cytometry Core is parent organization of: Howard Imaging Core Facility: Molecular Imaging Laboratory is parent organization of: Howard Biobehavioral Core Laboratory is parent organization of: Howard Biostatistics Core is parent organization of: Howard University Center for Computational Biology and Bioinformatics Core Facility is parent organization of: Howard Molecular Genetics Core is parent organization of: Howard Nanoscale Science and Engineering Facility is parent organization of: Howard RCMI Proteomics Facility |
nlx_152178 | SCR_001084 | Howard, Howard University, Howard U | 2026-09-19 12:49:34 | 0 | ||||||||
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University of Florida College of Medicine Neuroscience Resource Report Resource Website |
University of Florida College of Medicine Neuroscience (RRID:SCR_001081) | data or information resource, department portal, organization portal, portal | A department at the University of Florida's College of Medicine that offers programs of study on neural function and how it changes with injury and disease. The institution's research ranges from fundamental discovery to clinical application. These neuroscience programs are offered at the undergraduate, graduate, postdoctoral and resident level. | neuroscience, neural function, undergraduate, graduate, postdoctoral, resident, clinical, injury, disease | nif-0000-02172 | SCR_001081 | UFL | 2026-09-19 12:49:34 | 0 | ||||||||||
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jmzML Resource Report Resource Website 1+ mentions |
jmzML (RRID:SCR_001119) | software resource | A Java application programming interface (API) for the Proteomics Standards Initiative mzML data standard. | standalone software, mac os x, unix/linux, windows, java, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Google Code |
PMID:20127693 | Free, Available for download, Freely available | biotools:jmzml, OMICS_03340 | https://bio.tools/jmzml | SCR_001119 | 2026-09-19 12:49:35 | 1 | |||||||
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CISCRP- The Center for Information and Study on Clinical Research Participation Resource Report Resource Website |
CISCRP- The Center for Information and Study on Clinical Research Participation (RRID:SCR_001152) | data or information resource, portal, topical portal | CISCRP is a resource for information on participation in, understanding of, and resources for clinical research participants and scientists. The mission of the Center is to educate, inform and empower patients, the public, medical and research professionals, the media and policymakers about clinical research participation and what it means to be an active participant in the clinical research process, promote greater awareness and understanding of clinical research participation and the role that it plays in public health, facilitate more effective collaboration among all members of the clinical research enterprise, and provide resources for the research community to better understand the study volunteer. To that end, the Center has developed a broad national awareness and education initiative in order to better inform the public at large about clinical study information. Furthermore, on its website, the Center offers program and event information related to clinical trials, an information center with facts, figures, informational resources, and FAQs for both patients and researchers, and a mailing list of clinical trial information. :The Center also maintains its own search engine website, : :searchclinicaltrials.org : : :, for those looking for further clinical trial information. The Center for Information and Study on Clinical Research Participation is located in Dedham, MA. :NIF thanks the : :Parkinson's Disease Foundation : : :for their referral of this resource to us. | clinical research, clinical study | nif-0000-11642 | SCR_001152 | CISCRP | 2026-09-19 12:49:36 | 0 | ||||||||||
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massiR Resource Report Resource Website |
massiR (RRID:SCR_001157) | software resource | Software that predicts the sex of samples in gene expression microarray datasets. | standalone software, mac os x, unix/linux, windows, r, classification, clustering, gene expression, microarray, quality control, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Bioconductor |
PMID:24659105 | Free, Available for download, Freely available | biotools:massir, OMICS_03638 | https://bio.tools/massir | SCR_001157 | massiR: MicroArray Sample Sex Identifier, MicroArray Sample Sex Identifier | 2026-09-19 12:49:35 | 0 | ||||||
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CenterWatch Resource Report Resource Website 1+ mentions |
CenterWatch (RRID:SCR_001158) | data or information resource, portal, topical portal | CenterWatch is an online resource for news, directories, analysis, and proprietary market research for clinical research professionals and patients. For patients, CenterWatch is committed to providing information on clinical trials, specific drugs, as well as other essential health and educational resources. On this website, patients can search clinical trials, receive e-mail notifications about specific clinical trials, review results from completed clinical trials, search drug information, learn about volunteering for a clinical trial, read an overview of the clinical trials process and find other health and educational resources. For researchers, CenterWatch offers a wide range of tools and resources to improve patient and investigator recruitment, remain current with industry trends and business practices, and strengthen organizational procedures. CenterWatch also offers information on grant opportunities, and a variety of educational books and publications. Researchers can provide the public with information about their clinical trials by using the Clinical Trials Listing Serviceprovided through CenterWatch, or look up more specific information on medicines and equipment using Drug and Device Pipeline News. Overall, the mission of CenterWatch is to be the leading source of news, directories, analysis, and proprietary market research for clinical research professionals and patients. It is located in Boston, MA. :NIF thanks the :Parkinson's Disease Foundation : :for their referral of this resource to us. | drug information, drug study, clinical research, clinical study, clinical trial, medicine, patient, health, medical | nif-0000-11641 | SCR_001158 | CenterWatch | 2026-09-19 12:49:35 | 9 | ||||||||||
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Intramodal Registration Software Resource Report Resource Website |
Intramodal Registration Software (RRID:SCR_001148) | data analysis software, data processing software, software application, software resource | Software that implements a set of C routines for robust, high-quality registration of two volumes, aligning according to a least-squares criterion which is well-suited to intramodal registration tasks. Programming skills are required to attach the ANSI-C routine to whichever system users have. It is available on Unix, Macintosh, and PC. | intramodal registration, unix, pc, macintosh, programming, c | has parent organization: Ecole Polytechnique Federale de Lausanne; Lausanne; Switzerland | Free, Available for download, Freely available | nif-0000-00318 | SCR_001148 | 2026-09-19 12:49:35 | 0 | |||||||||
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NeuroMouse Database Resource Report Resource Website |
NeuroMouse Database (RRID:SCR_001143) | NeuroMouse | atlas, data or information resource, data repository, database, service resource, storage service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 17, 2023.Toolbook(tm) based, interactive graphical database which provides structural, molecular, and genetic information on the adult murine nervous system; and its relevance to human neurobiology. This resource is primarily designed as a platform for users to interact, each sharing knowledge on their own area of expertise, which is compiled to a master database. This hypertext atlas presently comprises more than 1000 pages and is designed to provide a flexible integrated resource for the description and discussion of all forms mammalian neurologic data. Version 4.0 of the NeuroMouse program extends the program's basic framework to include a number of areas in modern molecular neurobiology. This system provides an integrated resource for the characterization and description of mammalian neurological data. Major divisions include: Neural Atlas, Molecular Atlas, Genetics/Surgical Lesion Atlas. Neuromouse has been integrated into our strain-specific three dimensional MRI and surgical atlases of the murine CNS. Database contents: Neural Atlas: - Rotational representation of the murine brain. - Neural structures: visual and alphabetic point and click index of neural structures, pathways and systems. - Brain atlas:photographic serial sections in the coronal, sagittal, and horizontal planes (average plate distance - 300 um). Physical brain distances are also provided as are meta-index grids to allow rapid movement between different planes and regions. # Catalog of primary and immortalized neural cells indexed to relevant neural structures. Molecular Atlas: - Index of neurotransmitters: Acetylcholine, GABA, Glutamate, Aspartate, Glycine, Dopamine, Norepinephrine, Epinephrine, Serotonin (synthesis, distribution, degradation, molecular modules, receptors, subunits, agonists, antagonists, gene structure, localization, physical properties and transgenics are indicated for each item). - Index of neurotrophins / neurokines: NGF, BDNF, NT-3, NT-4/5, CNTF, LIF, Onostain M, IL-6, GDNF, FGF's, S100b (ligand, receptors, expression pattern, physical properties, homologous factors, transgenics/knockouts, chromosomal location, effects of agent, and effects of factors on agent are indicated for each item). - Index of additional neural agents: Bcl-2, TNF/Fas, TGF-beta, P53/Rb, PDGF, EGF family (ligand, receptor, expression patterns, physical properties, homologous factors, transgenics/ knockouts, chromosomal location, effects of agent, effects of factors on agent are indicated for each item). - Molecular biology: Molecular biology of important neural genes with integrated l links, plus selected neural topics (ex. programmed cell death, inducible gene systems, protein motifs, neural gene elements, and selected signal transduction pathways). Genetics Atlas: - Lesion paradigms: Index of common neuronal structural and chemical lesion paradigms. - Selected procedures: description of common neurosurgical, cell tracing, culturing and laboratory procedures. - Neurologic syndromes: Index of important human neurologic syndromes and appropriate animals models. - Neural mutant database: Index and description of naturally occurring and genetically modified murine neurologic mutations; including pages on double knockout animals. Interactive maps of each murine chromosome and human syntenic maps. | epinephrine, gaba, acetylcholine, agonist, antagonist, aspartate, dopamine, glutamate, glycine, human, molecular biology, murine chromosome, mutant, neural, neural factor, neurokine, neurological, neurotransmitter, n eurotrophin, norepinephrine, serotonin, molecular neuroanatomy resource, nervous system, adult, murine | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-11000 | SCR_001143 | 2026-09-19 12:49:35 | 0 | |||||||||
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Phoenix Pharmaceuticals Resource Report Resource Website 1000+ mentions |
Phoenix Pharmaceuticals (RRID:SCR_001141) | commercial organization | Commercial antibody supplier that specializes in peptide-related products for research in obesity, cardiovascular disease, and diabetes. | antibody, peptide, obesity, cardiovascular, diabetes, commercial, biomaterial supply resource | nlx_152429 | SCR_001141 | Phoenix Pharmaceuticals Inc. | 2026-09-19 12:49:36 | 1136 | ||||||||||
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Translational Research Laboratory Resource Report Resource Website |
Translational Research Laboratory (RRID:SCR_001023) | data or information resource, portal, topical portal | Cancer research laboratory at the Peter MacCallum Cancer Centre which investigates biomarkers identification, compounds for activity as anti-cancer drugs, and small molecule targeted therapies. | translational research, cancer, therapeutics, biomarker, small molecule |
is listed by: ScienceExchange is related to: Peter Mac Translational Research Laboratory |
SciEx_10351 | https://www.scienceexchange.com/labs/translational-research-laboratory | http://www.scienceexchange.com/facilities/peter-maccallum-cancer-centre | SCR_001023 | Peter MacCallum Cancer Centre - Cancer Therapeutics Program | 2026-09-19 12:49:34 | 0 | |||||||
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Reaper - Demultiplexing trimming and filtering sequencing data Resource Report Resource Website 1+ mentions |
Reaper - Demultiplexing trimming and filtering sequencing data (RRID:SCR_001144) | Reaper | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23, 2022. Software program for demultiplexing, trimming and filtering short read sequencing data. | c, alignment, sequence, demultiplex, trim, filter, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: European Bioinformatics Institute |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:reaper, OMICS_02157 | https://bio.tools/reaper | SCR_001144 | 2026-09-19 12:49:35 | 1 | |||||||
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Phred Resource Report Resource Website 10+ mentions |
Phred (RRID:SCR_001017) | Phred | data analysis software, data processing software, sequence analysis software, software application, software resource | A base calling program for DNA sequence traces. | base calling, sequence analysis software, dna, trace | is listed by: OMICtools | PMID:9521922 | Restricted | OMICS_01809 | SCR_001017 | 2026-09-19 12:49:33 | 13 | |||||||
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MIALAB - Medical Image Analysis Lab Resource Report Resource Website 10+ mentions |
MIALAB - Medical Image Analysis Lab (RRID:SCR_006089) | MIALAB | data or information resource, laboratory portal, organization portal, portal | MIALAB, headed by Dr. Vince Calhoun, focuses on developing and optimizing methods and software for quantitative analysis of structure and function in medical images with particular focus on the study of psychiatric illness. We work with many types of data, including functional magnetic resonance imaging (fMRI), diffusion tensor imaging (DTI), electroencephalography (EEG), structural imaging and genetic data. Much of our time is spent working on new methods for flexible analysis of brain imaging data. The use of data driven approaches is very useful for extracting potentially unpredictable patterns within these data. However such methods can be further improved by incorporating additional prior information as constraints, in order to benefit from what we know. To this end, we draw heavily from the areas of image processing, adaptive signal processing, estimation theory, neural networks, statistical signal processing, and pattern recognition. | software, data, data visualization, medical image, image, neuroimaging, fmri, diffusion tensor imaging, electroencephalography, structural imaging, genetic data, brain, image processing, adaptive signal processing, estimation theory, neural network, statistical signal processing, pattern recognition, mri |
has parent organization: Mind Research Network is parent organization of: Group ICA of fMRI Toolbox is parent organization of: Group ICA Of EEG Toolbox is parent organization of: MIALAB - Resting State Data |
Mental disease | nlx_151551 | SCR_006089 | Medical Image Analysis Lab, Medical Image Analysis Laboratory, MIA Laboratory, Medical Image Analysis (MIA) Laboratory | 2026-09-19 12:51:04 | 27 | |||||||
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Scholarly Electronic Publishing Bibliography Resource Report Resource Website |
Scholarly Electronic Publishing Bibliography (RRID:SCR_005949) | SEPB | bibliography, book, data or information resource, narrative resource | Bibliography with over 3,800 selected English-language articles, books, and other printed and electronic sources that are useful in understanding scholarly electronic publishing efforts on the Internet. It covers a wide range of topics, such as digital copyright, digital libraries, digital preservation, digital repositories, e-books, e-journals, license agreements, metadata, and open access. It includes Scholarly Electronic Publishing Resources, a selective directory of related Web sites, and the Scholarly Electronic Publishing Weblog, a frequently updated list of new publications and other resources that may be of interest to bibliography readers. Most sources have been published from January 1, 1990 through October 30, 2011; however, a limited number of earlier key sources are also included. The bibliography includes links to freely available versions of included works. It does not include digital media works (such as MP3 files), editorials, e mail messages, letters to the editor, daily newspaper articles, presentation slides or transcripts, or weblog postings. An archive of prior versions of SEPB is available as a downloadable compressed file (.zip) that includes all versions of the bibliography. The Scholarly Electronic Publishing Bibliography 2010 is available as a paperback (466 pages, $18.95, ISBN-10: 1456453289 and ISBN-13: 9781456453282) and an open access PDF file. | digital copyright, digital library, digital preservation, digital repository, e-book, e-journal, license agreement, metadata, open access, digital publication, digital publication, scholarly, publishing | is listed by: FORCE11 | Creative Commons Attribution-NonCommercial License, v3 United States | nlx_151306 | SCR_005949 | 2026-09-19 12:51:02 | 0 | ||||||||
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Automated Image Registration Resource Report Resource Website 10+ mentions |
Automated Image Registration (RRID:SCR_005944) | AIR | alignment software, data processing software, image analysis software, registration software, software application, software library, software resource, software toolkit | A tool for automated registration of 3D (and 2D) images within and across subjects and within and sometimes across imaging modalities. The AIR library can easily incorporate automated image registration into site specific programs adapted to your particular needs. | registration, alignment |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps |
GNU General Public License | nif-0000-00260 | http://www.nitrc.org/projects/air | SCR_005944 | 2026-09-19 12:51:02 | 29 | |||||||
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Quantum Dot Corporation Resource Report Resource Website |
Quantum Dot Corporation (RRID:SCR_005941) | commercial organization |
THIS RESOURCE IS NO LONGER IN SERVICE. Documented September 15, 2017.\\\\\\ \\\\\\ An Antibody supplier |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152443 | SCR_005941 | 2026-09-19 12:51:02 | 0 |
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