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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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PyMINEr Resource Report Resource Website 1+ mentions |
PyMINEr (RRID:SCR_016990) | data analysis software, data processing software, software application, software resource | Software tool to automate cell type identification, cell type-specific pathway analyses, graph theory-based analysis of gene regulation, and detection of autocrine-paracrine signaling networks. Finds Gene and Autocrine-Paracrine Networks from Human Islet scRNA-Seq. | automate, cell, type, identification, pathway, analysis, gene, regulation, autocrine, paracrine, signaling, network, human, islet, scRNA-seq, dataset | Carver Chair in Molecular Medicine ; Fraternal Order of Eagles Diabetes Research Center ; NHLBI R24 HL123482; NIDDK R01 DK115791; NIDDK R24 DK096518; NIGMS T32 GM082729; University of Iowa Center for Gene Therapy |
PMID:30759402 | Free, Available for download, Freely available, Tutorial available | SCR_016990 | 2026-09-03 04:54:11 | 5 | |||||||||
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PathwayNet Resource Report Resource Website 1+ mentions |
PathwayNet (RRID:SCR_017353) | analysis service resource, data access protocol, data analysis service, production service resource, service resource, software resource, web service | Web user interface for interaction predictions of human gene networks and integrative analysis of user data types that takes advantage of data from diverse tissue and cell-lineage origins. Predicts presence of functional association and interaction type among human genes or its protein products on whole genome scale. Used to analyze experimetnal gene in context of interaction networks. | Interface, interaction, predict, human, gene, network, integrative, analysis, user, data, tissue, cell, functional, protein, genome |
is listed by: OMICtools has parent organization: Princeton University; New Jersey; USA |
NHGRI HG005998; NIGMS P50 GM071508; NIGMS R01 GM071966 |
PMID:25431329 | Free, Freely available | SCR_017353 | 2026-09-03 04:54:33 | 8 | ||||||||
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TissueAtlas Resource Report Resource Website 10+ mentions |
TissueAtlas (RRID:SCR_017352) | atlas, data access protocol, data or information resource, database, software resource, web service | Human miRNA tissue atlas. Database showing distribution of miRNA expression across human tissues. | Human, miRNA, tissue, atlas, data, distribution, expression | has parent organization: Saarland University; Saarbrucken; Germany | FP7 project BestAgeing ; Saarland University ; Germany ; Siemens Healthcare |
PMID:26921406 | Free, Freely available | SCR_017352 | 2026-09-03 04:54:23 | 37 | ||||||||
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Science of Behavior Change (SOBC) Research Network Resource Report Resource Website |
Science of Behavior Change (SOBC) Research Network (RRID:SCR_017388) | portal, data or information resource, project portal | Project for understanding of underlying mechanisms of human behavior change by promoting basic research on the initiation, personalization, and maintenance of behavior change. | Mechanism, human, behavioral, change | NIH | Restricted | SCR_017388 | 2026-09-03 04:54:25 | 0 | ||||||||||
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Human Neocortical Neurosolver Resource Report Resource Website 10+ mentions |
Human Neocortical Neurosolver (RRID:SCR_017437) | HNN | data analysis software, data processing software, simulation software, software application, software resource | Open source software package for circuit level interpretation of human EEG/MEG data. Software tool for interpreting cellular and network origin of human MEG/EEG data. Simulates electrical activity of neocortical cells and circuits that generate primary electrical currents underlying EEG/MEG recordings. Designed for researchers and clinicians, without computational neural modeling experience, to develop and test hypothesis on circuit origin of their data. | Neural, modeling, human, imaging, data, EEG, MEG, electrical, neocortical, cell, circuit, BRAIN Initiative, bio.tools |
is recommended by: BRAIN Initiative is listed by: Debian is listed by: bio.tools has parent organization: Brown University; Rhode Island; USA has parent organization: Yale University; Connecticut; USA has parent organization: Massachusetts General Hospital |
NIBIB R01 EB022889; NIDCD R01 DC012947 |
DOI:10.1101/740597 | Free, Available for download, Freely available | SCR_017678, biotools:HNN | https://github.com/jonescompneurolab/hnn, https://github.com/jonescompneurolab/hnn/tree/0.0.5, https://github.com/jonescompneurolab/hnn/tree/0.1.2, https://zenodo.org/record/2394296#.Xg4rCEdKiM9, https://bio.tools/HNN | SCR_017437 | 2026-09-03 04:54:24 | 13 | |||||
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Mouse Models of Human Cancer Resource Report Resource Website 1+ mentions |
Mouse Models of Human Cancer (RRID:SCR_017516) | MTB | database, data or information resource | Mouse Tumor Biology Database supports use of mouse as model system of human cancers by providing access to data and information on various resources dedicated to cancer. | Mouse, model, system, human, cancer, data |
is related to: Mouse Genome Informatics (MGI) was submitted by: Resource Identification Portal |
Free, Freely available | SCR_017516 | Mouse Tumor Biology (MTB) Database, Mouse Tumor Biology Database | 2026-09-03 04:54:27 | 2 | ||||||||
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Accessible Resource for Integrated Epigenomics Studies Resource Report Resource Website 50+ mentions |
Accessible Resource for Integrated Epigenomics Studies (RRID:SCR_017492) | data access protocol, data or information resource, portal, software resource, topical portal, web service | Portal for epigenomic information on range of human tissues, including DNA methylation data on peripheral blood at multiple time points across lifecourse. Provides web interface to browse methylation variation between groups of individuals and across time. | Epigenomic, human, tissue, DNA, methylation, data, peripheral, blood | BBSRC ; Medical Research Council ; University of Bristol ; Wellcome Trust |
PMID:25991711 | Free, Freely available | http://www.bristol.ac.uk/alspac/ | SCR_017492 | ARIES | 2026-09-03 04:54:26 | 50 | |||||||
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Canadian Epigenetics, Environment and Health Research Consortium Network Resource Report Resource Website |
Canadian Epigenetics, Environment and Health Research Consortium Network (RRID:SCR_017491) | consortium, data or information resource, organization portal, portal | Network to connect Canadian epigenetics researchers and expand their reach to broader health research community in Canada and beyond. Curated epigenomics sequence focused on common human diseases. | Curated, epigenomic, sequence, human, disease | is related to: International Human Epigenome Consortium | Canadian Institutes of Health Research (CIHR) ; Genome Canada |
Free, Freely available | SCR_017491 | CEEHRC Network | 2026-09-03 04:54:35 | 0 | ||||||||
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HIRN Human Pancreas Analysis Consortium Resource Report Resource Website |
HIRN Human Pancreas Analysis Consortium (RRID:SCR_017583) | HIRN HPAC | consortium, data or information resource, organization portal, portal | Consortium is investigating physical and functional organization of human islet tissue environment, cell-cell relationships within pancreatic tissue ecosystem, and contributions of non endocrine components (acinar, ductal, vascular, perivascular, neuronal, lymphatic, immune) to islet cell function and dysfunction. HPAC consists of research grants as well as the Human Pancreas Analysis Program (HPAP). | Physical, functional, organization, human, islet, tissue, environment, cell, relationship, pancreatic, tissue, ecosystem, non, endocrine, HPAP, grant |
is parent organization of: HIRN Human Pancreas Analysis Program is organization facet of: Human Islet Research Network (HIRN) |
SCR_017583 | Human Pancreas Analysis Consortium | 2026-09-03 04:54:42 | 0 | |||||||||
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JWatcher Resource Report Resource Website 50+ mentions |
JWatcher (RRID:SCR_017595) | data acquisition software, data analysis software, data analytics software, data processing software, software application, software resource | Software Java tool for quantitative analysis of behavior. Used to address any theoretical problem that requires complex sequence of actions to be scored by human observer. Runs on microcomputer providing Java Virtual Machine[TM] and has been tested on Windows[TM] and Macintosh[TM] systems. Legacy version (version 0.9) works on older systems (Macintosh OS-9 and Windows-98), while Version 1.0 works well on Macintosh OS-X and Windows XP systems. JWatcher Video works best on Windows XP systems and has reduced functionality running in Macintosh OS-X. JWatcher-Palm can be used to acquire data on Palm OS[TM] equipped device and analyze it on your main computer. | Quantitative, analysis, behavior, theoretical, problem, action, scored, human, observer |
has parent organization: University of California at Los Angeles; California; USA has parent organization: Macquarie University; Sydney; Australia |
Australian Research Council ; Macquarie University ; NIMH R21 MH065226 |
Free, Available for download, Freely available | SCR_017595 | 2026-09-03 04:54:29 | 53 | |||||||||
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MoTrPAC Data Hub Resource Report Resource Website 10+ mentions |
MoTrPAC Data Hub (RRID:SCR_017611) | MoTrPAC Data Hub | consortium, data or information resource, database, organization portal, portal | National research consortium designed to discover and perform preliminary characterization of range of molecular transducers that underlie effects of physical activity in humans. Used to study molecular changes that occur during and after exercise and to advance understanding of how physical activity improves and preserves health. Six year program into mechanisms of how physical activity improves health and prevents disease led by NIH Office of Strategic Coordination, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institute of Diabetes and Digestive and Kidney Diseases, National Institute on Aging, and National Institute of Biomedical Imaging and Bioengineering. | Discover, premilinary, characterization, range, molecular, transducer, physical, activity, human, changes, health, prevent, disease | is listed by: NIDDK Information Network (dkNET) | NIH Common Fund | Restricted | SCR_017611 | Molecular Transducers of Physical Activity Consortium Data Hub | 2026-09-03 04:54:34 | 20 | |||||||
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BrainImmune Resource Report Resource Website |
BrainImmune (RRID:SCR_005418) | BrainImmune | blog, data or information resource, narrative resource | BrainImmune is a free web-based reference that provides comprehensive and up-to-date information on the broad spectrum of medical research related to brain-immune interactions and their impact on health and disease. BrainImmune is written collaboratively by experts in the field from all around the world. Here, concise summaries of basic and clinical research describe how the brain and the immune system ''talk'' to each other in order to maintain homeostasis. BrainImmune is continually updated, with articles and opinions on history, the present state of the art, and new ideas and conceptual frameworks for the neurohormonal- and stress-immune interactions and their implications for common human diseases. Our goal in developing BrainImmune is to facilitate and advance neuroendocrine-immunology research, and the communication and collaborations in this vast interdisciplinary area. | brain, immune system, history, regulatory pathway, stress, basic research, clinical research, history, article, opinion, human, disease, neuroendocrine, immunology, research, cytokine, image | nlx_144514 | SCR_005418 | BrainImmune - Reference Source for Bridging Neurosciences and Immunology, Brain Immune | 2026-09-03 05:01:38 | 0 | |||||||||
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NeuroPsyDoctor8 Resource Report Resource Website |
NeuroPsyDoctor8 (RRID:SCR_005471) | NeuroPsyDoctor8 | blog, data or information resource, narrative resource | Called The Marquis de fMRI by Dr. Anon, NeuroPsyDoctor8 is about neurolaw and related moral cognition research, by someone who has a forensic psych type biz in NYC & then decided to pursue a neuropsych PhD. Now she uses fMRI and a side of bourbon to figure it all out. | neurolaw, cognition, neuropsychiatry, fmri, forensic, human, research, neuroscience, psychiatry, neuroethics | nlx_144588 | SCR_005471 | 2026-09-03 05:02:04 | 0 | ||||||||||
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NIMH Video Resource Report Resource Website |
NIMH Video (RRID:SCR_005594) | NIMH Video | data or information resource, video resource | A provider for videos available from the National Institute of Mental Health (NIMH). Visitors may sort by topic and/or subscribe to RSS feeds. | mental health, research, multimedia, trauma, diversity, ethnicity, imaging, medication, suicide, treatment, human | has parent organization: National Institute of Mental Health | NIMH | nlx_146218 | http://www.nimh.nih.gov/news/media/video/index.shtml | SCR_005594 | National Institute of Mental Health Video | 2026-09-03 05:02:00 | 0 | ||||||
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BrainBlogger - YouTube Resource Report Resource Website |
BrainBlogger - YouTube (RRID:SCR_005469) | BrainBlogger - YouTube | data or information resource, video resource | BrainBlogger - YouTube are videos uploaded to YouTube by Brain Blogger. Brain Blogger covers topics from multidimensional biopsychosocial perspectives. It reviews the latest news and stories related to neuroscience, psychiatry, and neurology. It serves as a focal point for attracting new minds beyond the science of the mind-and-brain and into the biopsychosocial model. | brain, human, neuroscience, psychiatry, neurology, biopsychosocial | has parent organization: Brain Blogger | Global Neuroscience Initiative Foundation | nlx_144586 | SCR_005469 | Brain Blogger - YouTube | 2026-09-03 05:01:39 | 0 | |||||||
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PDGene - A database for Parkinsons disease genetic association studies Resource Report Resource Website 50+ mentions |
PDGene - A database for Parkinsons disease genetic association studies (RRID:SCR_006666) | data or information resource, database | The PDGene database aims to provide a comprehensive, unbiased and regularly updated collection of genetic association studies performed on Parkinson's disease (PD) phenotypes. Eligible publications are identified following systematic searches of scientific literature databases, as well as the table of contents of journals in genetics, neurology, and psychiatry. The database can be searched either by a variety of dropdown menus or by specific keywords. For each gene, summary overviews are provided displaying key characteristics for each publication, including links to genotype distributions of the polymorphisms studied, random-effects allelic meta-analyses, and funnel plots for an assessment of publication bias. The PDGene database, developed by Massachusetts General Hospital/Harvard Medical School, The Michael J. Fox Foundation and the Alzheimer Research Forum, is supported by a grant from The Michael J. Fox Foundation in partnership with the Alzheimer Research Forum. | gene, genetic association studies, allelic meta-analyses, genotype, human, literature, parkinson&apos, phenotypes, polymorphisms, s disease, FASEB list | nif-0000-00572 | SCR_006666 | PDGene | 2026-09-03 05:02:10 | 94 | ||||||||||
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Tetraodon nigroviridis Database Resource Report Resource Website |
Tetraodon nigroviridis Database (RRID:SCR_007123) | data or information resource, database | This database have been funded by the National Human Genome Research Institute (NHGRI) to produce shotgun sequence of the Tetraodon nigriviridis genome. The strategy involves Whole Genome Shotgun (WGS) sequencing, in which sequence from the entire genome is generated. Whole genome shotgun libraries were prepared from Tetraodon genomic DNA obtained from the laboratory of Jean Weissenbach at Genoscope. Additional sequence data of approximately 2.5X coverage of Tetraodon has also been generated by Genoscope in plasmid and BAC end reads. Broad and Genoscope intend to pool their data and generate whole genome assemblies. Tetraodon nigroviridis is a freshwater pufferfish of the order Tetraodontiformes and lives in the rivers and estuaries of Indonesia, Malaysia and India. This species is 20-30 million years distant from Fugu rubripes, a marine pufferfish from the same family. The gene repertoire of T. nigroviridis is very similar to that of other vertebrates. However, its relatively small genome of 385 Mb is eight times more compact than that of human, mostly because intergenic and intronic sequences are reduced in size compared to other vertebrate genomes. These genome characteristics along with the large evolutionary distance between bony fish and mammals make Tetraodon a compact vertebrate reference genome - a powerful tool for comparative genetics and for quick and reliable identification of human genes. | estruary, evolutionary, fish, freshwater, fugu rubripes, gene, genetic, bac, bony, distance, dna, genome, genomic, human, intergenic, intronic, nigriviridis, plasmid, pufferfish, river, sequence, sequencing, shotgun, specie, tetraodon, tetraodontiformes, vertebrate | nif-0000-20998 | SCR_007123 | TND | 2026-09-03 05:02:21 | 0 | ||||||||||
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Structure modeling of 907 G protein coupled receptors in the human genome Resource Report Resource Website 1+ mentions |
Structure modeling of 907 G protein coupled receptors in the human genome (RRID:SCR_008351) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 19,2019.Database of tertiary structural modeling results of threading assembly refinement (TASSER) method for all 907 G protein-coupled receptors (GPCRs) in human genome. All sequences were collected from GPCR database http://www.gpcr.org/7tm/ and http://www.expasy.org/cgi-bin/lists?7tmrlist.txt. Unlike traditional homology modeling approaches, TASSER modeling does not require solved homologous template structures; moreover, it often refines the structures closer to native. G protein-coupled receptors (GPCRs), encoded by about 5% of human genes, comprise the largest family of integral membrane proteins and act as cell surface receptors responsible for the transduction of endogenous signal into a cellular response. Although tertiary structural information is crucial for function annotation and drug design, there are few experimentally determined GPCR structures. To address this issue, we employ the recently developed threading assembly refinement (TASSER) method to generate structure predictions for all 907 putative GPCRs in the human genome. Unlike traditional homology modeling approaches, TASSER modeling does not require solved homologous template structures; moreover, it often refines the structures closer to native. These features are essential for the comprehensive modeling of all human GPCRs when close homologous templates are absent. Based on a benchmarked confidence score, approximately 820 predicted models should have the correct folds. The majority of GPCR models share the characteristic seven-transmembrane helix topology, but 45 ORFs are predicted to have different structures. This is due to GPCR fragments that are predominantly from extracellular or intracellular domains as well as database annotation errors. Our preliminary validation includes the automated modeling of bovine rhodopsin, the only solved GPCR in the Protein Data Bank. With homologous templates excluded, the final model built by TASSER has a global C(alpha) root-mean-squared deviation from native of 4.6 angstroms, with a root-mean-squared deviation in the transmembrane helix region of 2.1 angstroms. Models of several representative GPCRs are compared with mutagenesis and affinity labeling data, and consistent agreement is demonstrated. Structure clustering of the predicted models shows that GPCRs with similar structures tend to belong to a similar functional class even when their sequences are diverse. These results demonstrate the usefulness and robustness of the in silico models for GPCR functional analysis. Sponsors: GPCR is funded by the University at Buffalo, Buffalo, New York. | endogenous, extracellular, family, functional, gene, cellular, couple, genome, gpcr, g protein, helix, homology, human, membrane, model, modeling, orf, protein, receptor, response, signal, structural, structural model, structure, template, tertiary, topology, transduction, transmembrane | has parent organization: Georgia Institute of Technology; Georgia; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-25215 | SCR_008351 | GPCR | 2026-09-03 05:02:46 | 3 | ||||||||
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National Institute on Aging, Database of Longitudinal Studies Resource Report Resource Website |
National Institute on Aging, Database of Longitudinal Studies (RRID:SCR_008259) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 11, 2015. A searchable database for epidemiologic research on aging changes across the lifespan. In 2003, the National Institute on Aging (NIA) established the Longitudinal Data on Aging (LDA) working group to assist with the development of research initiatives for identifying the physiologic and other types of factors across the lifespan, affecting onset and progression of disease with advancing age, as well as elucidation of protective factors contributing to exceptionally healthy aging. This database was developed based on input from the LDA working group which indicated that establishing a database of existing sources of longitudinal data on aging (e.g., ongoing longitudinal cohorts, longitudinal data sets, biospecimen repositories) would be a valuable resource for facilitating future research on aging changes across the lifespan. The longitudinal studies, data sets and repositories included in this database encompass a wide range of age groups (childhood to old age), studies in minority populations, as well as sources of longitudinal data existing in the United States and abroad. Our primary purpose for establishing this database is to provide a resource for potential applicants for grants to the NIA. No part of this database can be used for commercial purposes. | epidemiologic, healthy aging, human, lifespan, longitudinal, onset, progression of disease, protective factors | Aging | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-22594 | SCR_008259 | Database of Longitudinal Studies | 2026-09-03 05:02:57 | 0 | ||||||||
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Pennsylvania University Perelman School of Medicine Stem Cell and Xenograft Core Facility Resource Report Resource Website 10+ mentions |
Pennsylvania University Perelman School of Medicine Stem Cell and Xenograft Core Facility (RRID:SCR_010035) | Pennsylvania University Perelman School of Medicine SCXC | access service resource, biomaterial supply resource, core facility, material resource, organism supplier, service resource, tissue bank, training service resource | Offers in vivo services specializing in immunodeficient and xenograft models (PDX, humanized immune system). Facility has dedicated BSL2 barrier space equipped with optical imaging, for applications ranging from immunotherapy, cancer biology, infectious diseases and regenerative medicine. Offers services centered around repository of live and fully annotated cells from adult patients with hematologic malignancies (AML, ALL, MPN, MDS), and hematopoietic stem/progenitor cells from healthy donors (BM, CB, and FL). | xenograft, ABRF, USEDit, healthy donor, umbilical, cord, tissue, bank, human, hematopoietic, malignancy, service, whole, bone, marrow, blood, sorter, leukemia, imaging |
is listed by: Eagle I is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of Pennsylvania; Philadelphia; USA |
nlx_156506, ARBF_1384 | https://coremarketplace.org?citation=1&FacilityID=1384 | http://eagle-i.itmat.upenn.edu/i/0000013b-afd0-cc4c-83a0-df0880000000 | SCR_010035 | Penn Stem Cell and Xenograft Core (SCXC), Penn Stem Cell and Xenograft Core, Penn Stem Cell & Xenograft Core | 2026-09-03 05:03:21 | 42 |
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