Searching the RRID Resource Information Network

Our searching services are busy right now. Please try again later

  • Register
X
Forgot Password

If you have forgotten your password you can enter your email here and get a temporary password sent to your email.

X

Leaving Community

Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.

No
Yes

Preparing word cloud

×

SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.

Search

Type in a keyword to search

Filter by records added date
See new records

Options


Current Facets and Filters

  • Keywords:bio.tools (facet)

Facets


Recent searches

Snippet view Table view
Click the to add this resource to a Collection

1,647 Results - per page

Show More Columns | Download Top 1000 Results

Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Specification URL Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
Cell Image Library (CIL)
 
Resource Report
Resource Website
10+ mentions
Cell Image Library (CIL) (RRID:SCR_003510) CIL data or information resource, data repository, database, image repository, service resource, storage service resource Freely accessible, public repository of vetted and annotated microscopic images, videos, and animations of cells from a variety of organisms, showcasing cell architecture, intracellular functionalities, and both normal and abnormal processes. Explore by Cell Process, Cell Component, Cell Type or Organism. The Cell includes images acquired from historical and modern collections, publications, and by recruitment. microscopic image repository, microscopic video repository, cell animation repository, bio.tools is used by: NIF Data Federation
is recommended by: National Library of Medicine
is recommended by: NIDDK Information Network (dkNET)
is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases
is listed by: re3data.org
is listed by: bio.tools
is listed by: Debian
is related to: Cell Centered Database
is related to: Cell Centered Database
is related to: OME-TIFF Format
is related to: Integrated Manually Extracted Annotation
has parent organization: American Society for Cell Biology
has parent organization: University of California; San Diego;National Center for Microscopy and Imaging Research - NCMIR
has parent organization: University of California at San Diego; California; USA
is parent organization of: Biological Imaging Methods Ontology
NIGMS RC2 GM092708 PMID:34218671
PMID:34218673
Free, Freely available biotools:cellimagelibrary, nif-0000-37639, r3d100011601 http://www.cellimagelibrary.org/pages/about, https://bio.tools/cellimagelibrary, https://doi.org/10.17616/R3N92J SCR_003510 Cell Image Library. CIL, Cell Image Library (CIL) 2026-08-29 11:21:34 22
Bpipe
 
Resource Report
Resource Website
10+ mentions
Bpipe (RRID:SCR_003471) Bpipe software resource Software tool for running and managing bioinformatics pipelines. It specializes in enabling users to turn existing pipelines based on shell scripts or command line tools into highly flexible, adaptable and maintainable workflows with a minimum of effort. Bpipe ensures that pipelines execute in a controlled and repeatable fashion and keeps audit trails and logs to ensure that experimental results are reproducible. Requiring only Java as a dependency, it is fully self-contained and cross-platform, making it very easy to adopt and deploy into existing environments. genetics, dna, analysis, cluster, workflow, bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
has parent organization: Google Code
PMID:22500002 Free, Available for download, Freely available biotools:bpipe, OMICS_02301 https://github.com/ssadedin/bpipe SCR_003471 bpipe - A tool for running and managing bioinformatics pipelines 2026-08-29 11:21:34 13
Parseq
 
Resource Report
Resource Website
1+ mentions
Parseq (RRID:SCR_003464) Parseq software resource Statistical software for transcription landscape reconstruction at a basepair resolution from RNA Seq read counts. It is based on a state-space model which describes, in terms of abrupt shifts and more progressive drifts, the transcription level dynamics along the genome. Alongside variations of transcription level, it incorporates a component of short-range variation to pull apart local artifacts causing correlated dispersion. Reconstruction of the transcription level relies on a conditional sequential Monte Carlo approach that is combined with parameter estimation in a Markov chain Monte Carlo algorithm known as particle Gibbs. The method allows to estimate the local transcription level, to call transcribed regions, and to identify the transcript borders. rna-seq, genome, transcription, bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
has parent organization: Sorbonne University; Paris; France
PMID:24470570 Free, Available for download, Freely available biotools:parseq, OMICS_02302 https://bio.tools/parseq SCR_003464 2026-08-29 11:21:33 2
Proteomics Identifications (PRIDE)
 
Resource Report
Resource Website
500+ mentions
Proteomics Identifications (PRIDE) (RRID:SCR_003411) PRIDE data or information resource, data repository, database, service resource, storage service resource Centralized, standards compliant, public data repository for proteomics data, including protein and peptide identifications, post-translational modifications and supporting spectral evidence. Originally it was developed to provide a common data exchange format and repository to support proteomics literature publications. This remit has grown with PRIDE, with the hope that PRIDE will provide a reference set of tissue-based identifications for use by the community. The future development of PRIDE has become closely linked to HUPO PSI. PRIDE encourages and welcomes direct user submissions of protein and peptide identification data to be published in peer-reviewed publications. Users may Browse public datasets, use PRIDE BioMart for custom queries, or download the data directly from the FTP site. PRIDE has been developed through a collaboration of the EMBL-EBI, Ghent University in Belgium, and the University of Manchester. proteomics, protein, peptide, mass spectrometry, annotation, standard, spectra, protein-protein interaction, amino acid, amino acid sequence, post-translational modification, biomart, bio.tools is used by: ProteomeXchange
is used by: BioSample Database at EBI
is recommended by: NIDDK Information Network (dkNET)
is listed by: Biositemaps
is listed by: re3data.org
is listed by: bio.tools
is listed by: Debian
is related to: HUPO Proteomics Standards Initiative
is related to: ProteomeXchange
has parent organization: European Bioinformatics Institute
Wellcome Trust WT085949MA;
European Union FP7 LSHG-CT-2006-036814;
European Union FP7 260558;
European Union FP7 262067;
European Union FP7 202272;
BBSRC BB/I024204/1
PMID:23203882
PMID:19662629
Free, Available for download, Freely available nif-0000-03336, biotools:pride, r3d100011515 https://www.ebi.ac.uk/pride/archive/, https://bio.tools/pride, https://doi.org/10.17616/R3F330 SCR_003411 PRoteomics IDEntifications database, PRIDE Archive - proteomics data repository, PRIDE Archive, PRIDE, Proteomics Identifications, Proteomics Identifications (PRIDE), PRoteomics IDEntifications database (PRIDE) 2026-08-29 11:21:32 811
MultiPhen
 
Resource Report
Resource Website
10+ mentions
MultiPhen (RRID:SCR_003498) software resource Software package that performs genetic association tests between SNPs (one-at-a-time) and multiple phenotypes (separately or in joint model). standalone software, r, bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
has parent organization: CRAN
PMID:22567092 GNU General Public License, v2 biotools:multiphen, OMICS_04397 https://bio.tools/multiphen SCR_003498 MultiPhen: a package for the genetic association testing of multiple phenotypes 2026-08-29 11:21:58 31
EBSeq
 
Resource Report
Resource Website
500+ mentions
EBSeq (RRID:SCR_003526) EBSeq software resource Software R package for RNA-Seq Differential Expression Analysis. bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
has parent organization: University of Wisconsin-Madison; Wisconsin; USA
PMID:23428641
DOI:10.1093/bioinformatics/btt087
biotools:ebseq, OMICS_01307 https://bio.tools/ebseq, https://sources.debian.org/src/r-bioc-ebseq/ SCR_003526 2026-08-29 11:21:34 590
Reactome
 
Resource Report
Resource Website
1000+ mentions
Reactome (RRID:SCR_003485) analysis service resource, data analysis service, data or information resource, database, production service resource, service resource Collection of pathways and pathway annotations. The core unit of the Reactome data model is the reaction. Entities (nucleic acids, proteins, complexes and small molecules) participating in reactions form a network of biological interactions and are grouped into pathways (signaling, innate and acquired immune function, transcriptional regulation, translation, apoptosis and classical intermediary metabolism) . Provides website to navigate pathway knowledge and a suite of data analysis tools to support the pathway-based analysis of complex experimental and computational data sets. pathway, interaction, reaction, nucleic acid, protein, complex, small molecule, signaling pathway, immune function, transcriptional regulation, translation, apoptosis, metabolism, ortholog, visualization, protein-protein interaction, web service, book, biomart, gold standard, bio.tools, FASEB list is used by: NIF Data Federation
is used by: DisGeNET
is used by: Pathway Analysis Tool for Integration and Knowledge Acquisition
is listed by: re3data.org
is listed by: bio.tools
is listed by: Debian
is related to: WikiPathways
is related to: Pathway Commons
is related to: ConsensusPathDB
is related to: FlyMine
is related to: AmiGO
is related to: PSICQUIC Registry
is related to: Integrated Molecular Interaction Database
is related to: NCBI BioSystems Database
is related to: MOPED - Model Organism Protein Expression Database
is related to: KOBAS
is related to: PSICQUIC Registry
is related to: Pathway Interaction Database
is related to: hiPathDB - human integrated Pathway DB with facile visualization
is related to: Algal Functional Annotation Tool
has parent organization: Ontario Institute for Cancer Research
has parent organization: Cold Spring Harbor Laboratory
has parent organization: European Bioinformatics Institute
has parent organization: New York University School of Medicine; New York; USA
works with: PathwayMatcher
European Molecular Biology Laboratory ;
European Union FP6 ENFIN LSHG-CT-2005-518254;
NHGRI P41 HG003751;
NIGMS GM080223;
NIGMS R01 GM100039;
Ontario Research Fund
PMID:21082427
PMID:21067998
Open source, Public, Freely available r3d100010285, nif-0000-03390, biotools:reactome https://bio.tools/reactome, https://doi.org/10.17616/R3V59P SCR_003485 Reactome Functional Interaction Network 2026-08-29 11:21:33 4810
L-Measure
 
Resource Report
Resource Website
10+ mentions
L-Measure (RRID:SCR_003487) LM data processing software, image analysis software, image processing software, service resource, software application, software resource A freely available software tool available for the Windows and Linux platform, as well as the Online version Applet, for the analysis, comparison and search of digital reconstructions of neuronal morphologies. For the quantitative characterization of neuronal morphology, LM computes a large number of neuroanatomical parameters from 3D digital reconstruction files starting from and combining a set of core metrics. After more than six years of development and use in the neuroscience community, LM enables the execution of commonly adopted analyses as well as of more advanced functions, including: (i) extraction of basic morphological parameters, (ii) computation of frequency distributions, (iii) measurements from user-specified subregions of the neuronal arbors, (iv) statistical comparison between two groups of cells and (v) filtered selections and searches from collections of neurons based on any Boolean combination of the available morphometric measures. These functionalities are easily accessed and deployed through a user-friendly graphical interface and typically execute within few minutes on a set of 20 neurons. The tool is available for either online use on any Java-enabled browser and platform or may be downloaded for local execution under Windows and Linux. neuronal morphology, neuroinformatics, branching analysis, digital reconstruction, analysis, comparison, bio.tools is listed by: 3DVC
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is listed by: Debian
is listed by: bio.tools
has parent organization: Computational Neuroanatomy Group
Human Brain Project ;
NINDS R01 NS39600
PMID:18451794 Public nif-0000-00003, biotools:l-measure http://www.nitrc.org/projects/lmeasure, https://bio.tools/l-measure SCR_003487 2026-08-29 11:21:57 30
jmzTab
 
Resource Report
Resource Website
1+ mentions
jmzTab (RRID:SCR_003481) software resource A Java interface to the mzTab data exchange format for reporting a summary of proteomics results. standalone software, mac os x, unix/linux, java, bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
has parent organization: Google Code
PMID:24659499 Apache License, v2 OMICS_04542, biotools:jmztab https://bio.tools/jmztab SCR_003481 2026-08-29 11:21:57 1
metagen
 
Resource Report
Resource Website
10+ mentions
metagen (RRID:SCR_003443) metagen software resource Software program providing a method for meta-analysis of case-control genetic association studies using random-effects logistic regression. bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
PMID:17605724 Free, Available for download, Freely available OMICS_00238, biotools:metagen https://www.rdocumentation.org/packages/meta/versions/4.9-6/topics/metagen SCR_003443 2026-08-29 11:21:33 21
eTRIKS
 
Resource Report
Resource Website
10+ mentions
eTRIKS (RRID:SCR_003765) eTRIKS consortium, data or information resource, organization portal, portal, service resource Research informatics and analytics platform for the IMI OncoTrack consortium. data sharing, drug discovery, translational research, informatics, knowledge management, metadata standard, platform, analytics, tool development, bio.tools uses: tranSMART
is used by: U-BIOPRED
is used by: Predict-TB
is used by: OncoTrack
is used by: ABIRISK
is used by: RA MAP
is listed by: Consortia-pedia
is listed by: Debian
is listed by: bio.tools
is related to: Roche
is related to: Janssen Research and Development
is related to: Merck
is related to: Pfizer Animal Genetics
is related to: Imperial College London; London; United Kingdom
is related to: French National Center for Scientific Research
is related to: Clinical Data Interchange Standards Consortium
is related to: University of Luxembourg; Luxembourg; Luxembourg
is related to: IDBS
is related to: BioSci Consulting
is related to: TraIT
is related to: EMIF
is related to: Open PHACTS
has parent organization: Imperial College London; London; United Kingdom
Innovative Medicines Initiative ;
EFPIA
PMID:29482119 biotools:eTRIKS, nlx_158034 https://bio.tools/eTRIKS SCR_003765 European Translational Information and Knowledge Management Services, European Translational Information & Knowledge Management Services 2026-08-29 11:21:59 11
RAREMETAL
 
Resource Report
Resource Website
10+ mentions
RAREMETAL (RRID:SCR_003573) RAREMETAL software resource A software program that facilitates the meta-analysis of rare variants from genotype arrays or sequencing. bio.tools is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
has parent organization: University of Michigan; Ann Arbor; USA
PMID:24894501 biotools:raremetal, OMICS_00243 https://bio.tools/raremetal SCR_003573 2026-08-29 11:21:35 22
BEETL-fastq
 
Resource Report
Resource Website
BEETL-fastq (RRID:SCR_002341) software resource Software tool that not only compresses FASTQ-formatted DNA reads more compactly than gzip but also permits rapid search for k-mer queries within the archived sequences. The full FASTQ record of each matching read or read pair is returned, allowing the search results to be piped directly to any of the many standard tools that accept FASTQ data as input. Searchable compressed archive for DNA reads. Searchable compressed archive, DNA reads, compresses FASTQ-formatted DNA reads, bio.tools, is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
is related to: Burrows-Wheeler transform
PMID:24950811 Free, Available for download, Freely available OMICS_04900, biotools:beetl https://bio.tools/beetl SCR_002341 2026-08-29 11:21:03 0
Blood Group Antigen Gene Mutation Database
 
Resource Report
Resource Website
Blood Group Antigen Gene Mutation Database (RRID:SCR_002297) BGMUT data or information resource, data repository, database, service resource, storage service resource THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 23, 2019.BGMUT was database that provided publicly accessible platform for DNA sequences and curated set of blood mutation information. Data Archive are available at ftp://ftp.ncbi.nlm.nih.gov/pub/mhc/rbc/Final Archive. blood, gene, genetic, allele, allelic, alteration, antigen, blood group, human, mutation, genetic variation, non-human animal, orthologous gene, orthologue, phenotype, bio.tools is listed by: bio.tools
is listed by: Debian
has parent organization: NCBI dbRBC
has parent organization: Albert Einstein College of Medicine; New York; USA
has parent organization: Roswell Park Comprehensive Cancer Center
has parent organization: Medical University of Graz; Graz; Austria
has parent organization: Human Genome Variation Society
Albert Einstein College of Medicine; New York; USA ;
David Opochinsky/Blumenfeld Family Fund ;
NIH
PMID:22084196 THIS RESOURCE IS NO LONGER IN SERVICE. nif-0000-21064, biotools:bgmut https://bio.tools/bgmut http://www.bioc.aecom.yu.edu/bgmut/index.htm, http://www.ncbi.nlm.nih.gov/projects/gv/rbc/xslcgi.fcgi?cmd=bgmut SCR_002297 Blood Group Antigen Gene Mutation Database (BGMUT), BGMUT - Blood Group Antigen Gene Mutation Database 2026-08-29 11:21:02 0
DNA DataBank of Japan (DDBJ)
 
Resource Report
Resource Website
500+ mentions
DNA DataBank of Japan (DDBJ) (RRID:SCR_002359) DDBJ data or information resource, data repository, database, service resource, storage service resource Maintains and provides archival, retrieval and analytical resources for biological information. Central DDBJ resource consists of public, open-access nucleotide sequence databases including raw sequence reads, assembly information and functional annotation. Database content is exchanged with EBI and NCBI within the framework of the International Nucleotide Sequence Database Collaboration (INSDC). In 2011, DDBJ launched two new resources: DDBJ Omics Archive and BioProject. DOR is archival database of functional genomics data generated by microarray and highly parallel new generation sequencers. Data are exchanged between the ArrayExpress at EBI and DOR in the common MAGE-TAB format. BioProject provides organizational framework to access metadata about research projects and data from projects that are deposited into different databases. nucleotide sequence, genome, dna, dna database, dna research, nucleotide, phylogenetics, protein, sequence, protein binding, gene expression, gene, genetics, nucleoid, genomics, protein binding, gold standard, bio.tools, FASEB list is recommended by: NIDDK Information Network (dkNET)
is recommended by: National Library of Medicine
is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases
is listed by: OMICtools
is listed by: re3data.org
is listed by: Debian
is listed by: bio.tools
is related to: INSDC
is related to: GenBank
is related to: INSDC
is related to: European Nucleotide Archive (ENA)
is related to: GenBank
is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB)
is related to: Worldwide Protein Data Bank (wwPDB)
is related to: Biological Magnetic Resonance Data Bank (BMRB)
is related to: PDBe - Protein Data Bank in Europe
is related to: PDBe - Protein Data Bank in Europe
is related to: European Nucleotide Archive (ENA)
is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB)
is related to: NCBI Assembly Archive Viewer
has parent organization: National Institute of Genetics; Shizuoka; Japan
is parent organization of: DDBJ Omics Archive
is parent organization of: BodyMap-Xs
is parent organization of: DDBJ Sequence Read Archive
is parent organization of: CIBEX: Center for Information Biology gene EXpression database
is parent organization of: Japanese Genotype-phenotype Archive (JGA)
Japanese Ministry of Education Culture Sports Science and Technology MEXT PMID:26578571
PMID:25477381
Free, Freely available, OMICS_01644, biotools:ddbj, nif-0000-02740, r3d100010218 https://bio.tools/ddbj, https://doi.org/10.17616/R3M01R SCR_002359 DNA DataBank of Japan (DDBJ), DNA DataBank of Japan, DDBJ, DNA Data Bank of Japan, DDBJ - DNA Data Bank of Japan 2026-08-29 11:21:13 709
ShotGun
 
Resource Report
Resource Website
10+ mentions
ShotGun (RRID:SCR_002529) data analysis software, data processing software, sequence analysis software, simulation software, software application, software resource Software for short read simulating in order to facilitate sequencing-based study designs. sequence based study design, short read stimulation, bio.tools is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA
PMID:23357921 Free, Available for download, Freely available biotools:abcd, OMICS_00255 https://bio.tools/abcd SCR_002529 ShotGun: a Flexible Short Read Simulator to Facilitate Sequencing-based Study Designs 2026-08-29 11:21:16 35
Gibbs Motif Sampler
 
Resource Report
Resource Website
1+ mentions
Gibbs Motif Sampler (RRID:SCR_002550) Gibbs Motif Sampler analysis service resource, data analysis service, production service resource, service resource, software resource Software to identify motifs, conserved regions, in DNA or protein sequences. dna, protein, motif, bio.tools is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
Free, Available for download, Freely available biotools:gibbs_motif_sampler, OMICS_00496 https://bio.tools/gibbs_motif_sampler SCR_002550 The Gibbs Motif Sampler 2026-08-29 11:21:24 2
pymzML
 
Resource Report
Resource Website
10+ mentions
pymzML (RRID:SCR_002500) software resource Python module to parse mzML data in Python based on cElementTree. It is an extension to Python that offers (i) an easy access to mass spectrometry (MS) data that allows the rapid development of tools, (ii) a very fast parser for mzML data and (iii) a set of functions to compare or handle spectra., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. standalone software, python, bio.tools is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
is related to: mzML
has parent organization: University of Munster; North Rhine-Westphalia; Germany
PMID:22302572 Free, Available for download, Freely available biotools:pymzml, OMICS_03355 https://bio.tools/pymzml SCR_002500 2026-08-29 11:21:15 18
discoSnp
 
Resource Report
Resource Website
1+ mentions
discoSnp (RRID:SCR_002612) data analysis software, data processing software, sequence analysis software, software application, software resource Software designed for discovering Single Nucleotide Polymorphism (SNP) from raw sets of reads obtained with Next Generation Sequencers (NGS). single nucleotide polymorphism, snp discovery, discover snp, bio.tools is listed by: OMICtools
is listed by: Debian
is listed by: bio.tools
SOFIPROTEOL under the FASO project PEAPOL ;
INRIA ANR-12-BS02-0008
PMID:25404127 Free, Freely available biotools:discosnp, OMICS_00267 https://bio.tools/discosnp, https://sources.debian.org/src/discosnp/ SCR_002612 DiscoSnp++, discovering Single Nucleotide Polymorphism, discovering Single Nucleotide Polymorphism (discoSNP) 2026-08-29 11:21:17 9
IMEx - The International Molecular Exchange Consortium
 
Resource Report
Resource Website
100+ mentions
IMEx - The International Molecular Exchange Consortium (RRID:SCR_002805) IMEx community building portal, consortium, data or information resource, data repository, database, organization portal, portal, service resource, storage service resource Interaction database from international collaboration between major public interaction data providers who share curation effort and develop set of curation rules when capturing data from both directly deposited interaction data or from publications in peer reviewed journals. Performs complete curation of all protein-protein interactions experimentally demonstrated within publication and makes them available in single search interface on common website. Provides data in standards compliant download formats. IMEx partners produce their own separate resources, which range from all encompassing molecular interaction databases, such as are maintained by IntAct, MINT and DIP, organism-centric resources such as BioGrid or MPIDB or biological domain centric, such as MatrixDB. They have committed to making records available, via PSICQUIC webservice, which have been curated to IMEx rules and are available to users as single, non-redundant set of curated publications which can be searched at the IMEx website. Data is made available in standards-compliant tab-deliminated and XML formats, enabling to visualize data using wide range of tools. Consortium is open to participation of additional partners and encourages deposition of data, prior to publication, and will supply unique accession numbers which may be referenced within final article. Submitters may send their data directly to any of member databases using variety of formats, but should conform to guidelines as to minimum information required to describe data. protein-protein interaction, nonredundant, protein interaction, interaction, proteomics, metadata standard, short course, molecular interaction, bio.tools, FASEB list is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
is affiliated with: MINT
is related to: MatrixDB
is related to: MPIDB
is related to: Database of Interacting Proteins (DIP)
is related to: Database of Interacting Proteins (DIP)
is related to: InnateDB
is related to: IntAct
is related to: Interaction Reference Index
is related to: MPIDB
is related to: UniProt
is related to: InnateDB
is related to: MatrixDB
is related to: Biological General Repository for Interaction Datasets (BioGRID)
is related to: I2D
is related to: Molecular Connections NetPro
is related to: SIB Swiss Institute of Bioinformatics
is related to: IntAct
is related to: PSI-MI
is related to: PSICQUIC Registry
is related to: mentha
is related to: Bioconductor
has parent organization: European Bioinformatics Institute
works with: CellPhoneDB
works with: Cytoscape
works with: IntAct
works with: MINT
works with: MPact: Representation of Interaction Data at MIPS
works with: Molecular Connections NetPro
works with: Biological General Repository for Interaction Datasets (BioGRID)
works with: InnateDB
works with: BIND
European Union PMID:22453911
PMID:17893861
Free, Freely available, Available for download nif-0000-00447, OMICS_01545, r3d100010669, biotools:imex http://imex.sourceforge.net/, https://bio.tools/imex, https://doi.org/10.17616/R3090W SCR_002805 The International Molecular Exchange Consortium, International Molecular Exchange Consortium 2026-08-29 11:21:14 161

Can't find your Tool?

We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.

Can't find the RRID you're searching for? X
X
  1. Neuroscience Information Framework Resources

    Welcome to the NIF Resources search. From here you can search through a compilation of resources used by NIF and see how data is organized within our community.

  2. Navigation

    You are currently on the Community Resources tab looking through categories and sources that NIF has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.

  3. Logging in and Registering

    If you have an account on NIF then you can log in from here to get additional features in NIF such as Collections, Saved Searches, and managing Resources.

  4. Searching

    Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:

    1. Use quotes around phrases you want to match exactly
    2. You can manually AND and OR terms to change how we search between words
    3. You can add "-" to terms to make sure no results return with that term in them (ex. Cerebellum -CA1)
    4. You can add "+" to terms to require they be in the data
    5. Using autocomplete specifies which branch of our semantics you with to search and can help refine your search
  5. Collections

    If you are logged into NIF you can add data records to your collections to create custom spreadsheets across multiple sources of data.

  6. Facets

    Here are the facets that you can filter the data by.

  7. Further Questions

    If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.