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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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pFind Studio: pLink Resource Report Resource Website 10+ mentions |
pFind Studio: pLink (RRID:SCR_000084) | pLink | software resource | Software dedicated for the analysis of chemically cross-linked proteins or protein complexes using mass spectrometry., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | mass spectrometry, proteomics, pFind Studio, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Chinese Academy of Sciences; Beijing; China |
PMID:22772728 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02404, biotools:pLink-2 | https://github.com/pFindStudio/pLink3/releases | http://pfind.ict.ac.cn/software/pLink/index.html | SCR_000084 | , pLink, pLink (pFind Studio), pLink2 | 2026-02-14 01:59:37 | 15 | ||||
|
Spotfinder Resource Report Resource Website 1+ mentions |
Spotfinder (RRID:SCR_000085) | Spotfinder | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Software designed for the rapid, reproducible and computer-aided analysis of microarray images and the quantification of gene expression. | c++ |
is listed by: OMICtools has parent organization: Dana-Farber Cancer Institute |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00848 | SCR_000085 | TIGR Spotfinder | 2026-02-14 01:59:36 | 8 | |||||||
|
Sarah Cannon Research Institute; Tennessee; USA Resource Report Resource Website |
Sarah Cannon Research Institute; Tennessee; USA (RRID:SCR_000003) | SCRI | institution | A global cancer institute of the Hospital Corporation of America which offers integrated cancer services with access to current therapies. | cancer institute, cancer service, cancer therapy | nlx_158000 | SCR_000003 | Sarah Cannon Research Institute | 2026-02-14 01:59:34 | 0 | |||||||||
|
Faceted Search Based Ontology Visualizer Resource Report Resource Website |
Faceted Search Based Ontology Visualizer (RRID:SCR_000124) | ontologyviz | software resource | Software that allows user to do faceted search on an ontology and enables visualization of the search results on the 3D digital atlas. Currently supports faceted search of functional neuroanatomy. | computational neuroscience, magnetic resonance, ontology, functional neuroanatomy, facet, visualization | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Free, Freely available | nlx_155874 | SCR_000124 | 2026-02-14 01:59:37 | 0 | ||||||||
|
GOALIE Resource Report Resource Website |
GOALIE (RRID:SCR_000088) | GOALIE | software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. Generalized Ontological Algorithmic Logical Invariants Extractor (GOALIE) is a tool for the construction of time-course dependent enrichments. Requires an ODBC connection to an instance of the GO database. Platform: Windows compatible, Mac OS X compatible, Linux compatible | gene ontology, statistical analysis, time-course |
is listed by: Gene Ontology Tools has parent organization: NYU Bioinformatics Group |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_149255 | SCR_000088 | Generalized Ontological Algorithmic Logical Invariants Extractor, Generalized Ontological Algorithmic Logical Invariants Extractor (GOALIE) | 2026-02-14 01:59:36 | 0 | |||||||
|
BioLemmatizer Resource Report Resource Website 1+ mentions |
BioLemmatizer (RRID:SCR_000117) | software resource | A domain-specific lemmatization software tool for the morphological analysis of biomedical literature. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:22464129 | Free, Available for download, Freely available | OMICS_04827 | https://sourceforge.net/projects/biolemmatizer/ | SCR_000117 | 2026-02-14 01:59:37 | 2 | |||||||
|
ReQON Resource Report Resource Website |
ReQON (RRID:SCR_000075) | ReQON | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Algorithm for recalibrating the base quality scores for aligned sequencing data in BAM format. | preprocessing, quality control, sequencing |
is listed by: OMICtools has parent organization: Bioconductor |
PMID:22946927 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02033 | SCR_000075 | Recalibrating Quality Of Nucleotides | 2026-02-14 01:59:36 | 0 | ||||||
|
QuadGT Resource Report Resource Website 1+ mentions |
QuadGT (RRID:SCR_000073) | QuadGT | software resource | Software package for calling single-nucleotide variants in four sequenced genomes comprising a normal-tumor pair and the two parents. Genotypes are inferred using a joint model of parental variant frequencies, de novo germline mutations, and somatic mutations. The model quantifies the descent-by-modification relationships between the unknown genotypes by using a set of parameters in a Bayesian inference setting. Note that you can use it on any subset of the four related genomes, including parent-offspring trios, and normal-tumor pairs without parental samples. | single-nucleotide variant, sequenced genome, genotype, genome |
is listed by: OMICtools has parent organization: University of Montreal; Quebec; Canada |
Normal, Tumor, Cancer | Terry Fox Research Institute ; Canadian Institutes for Health Research ; Canada National Sciences and Engineering Research Council |
PMID:23734724 | Free, Available for download, Freely available | OMICS_02108 | SCR_000073 | 2026-02-14 01:59:36 | 1 | |||||
|
Google Sites Resource Report Resource Website 1+ mentions |
Google Sites (RRID:SCR_000112) | Sites | service resource | A free online service to easily create and share webpages. | website, sharing, authoring tool |
is parent organization of: PELICAN is parent organization of: dbNSFP |
Free | nlx_157257 | SCR_000112 | 2026-02-14 01:59:37 | 2 | ||||||||
|
SOAPfuse Resource Report Resource Website 1+ mentions |
SOAPfuse (RRID:SCR_000078) | SOAPfuse | software resource | THIS RESOURCE IS NO LONGER IN SERVICE.Documented on August 23,2022. An open source tool developed for genome-wide detection of fusion transcripts from human being paired-end RNA-Seq data. This tool is a part of a larger set of tools to efficiently align oligonucleotides onto reference sequences . | software, resource, open license, DNA sequencing, genome, transcripts, RNA, oligonucleotide |
is listed by: OMICtools is listed by: SourceForge is listed by: SOAP |
PMID:23409703 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01357 | SCR_000078 | 2026-02-14 01:59:36 | 7 | |||||||
|
Genemed Resource Report Resource Website 1+ mentions |
Genemed (RRID:SCR_000070) | commercial organization | A supplier of cancer and infectious disease diagnostic reagents. The company also provides services such as tissue-based and molecular diagnostics to their partners to accelerate their in vitro diagnostic device (IVD) product development and commercialization. | antibody, diagnostic, research, development, commercialization, in vitro diagnostic device, IVD, cancer, infectious diseases | Commercial | nlx_152371 | SCR_000070 | 2026-02-14 01:59:36 | 1 | ||||||||||
|
University of California at San Diego Cognitive Science Graduate Student Fellowship Opportunities Resource Report Resource Website |
University of California at San Diego Cognitive Science Graduate Student Fellowship Opportunities (RRID:SCR_000105) | funding resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. This resource is a frequently updated listing of graduate student in cognitive science fellowship opportunities. For current opportunities, please see the PDF document. | psychology | has parent organization: University of California at San Diego; California; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10500 | SCR_000105 | UCSD Cognitive Science Fellowships | 2026-02-14 01:59:37 | 0 | ||||||||
|
Treephyler Resource Report Resource Website 1+ mentions |
Treephyler (RRID:SCR_000109) | Treephyler | software resource | A software tool for fast taxonomic profiling of metagenomes. | metagenome, perl, nucleotide, protein, next-generation sequencing | is listed by: OMICtools | PMID:20172941 | Free, Available for download, Freely available | OMICS_01469 | SCR_000109 | Treephyler: fast taxonomic profiling of metagenomes | 2026-02-14 01:59:37 | 1 | ||||||
|
GenomicRanges Resource Report Resource Website 50+ mentions |
GenomicRanges (RRID:SCR_000025) | GenomicRanges | software resource | Software package that defines general purpose containers for storing genomic intervals as well as more specialized containers for storing alignments against a reference genome. | genomic interval |
is used by: riboWaltz is listed by: OMICtools has parent organization: Bioconductor |
Free, Available for download, Freely available | SCR_018096, OMICS_01161 | SCR_000025 | GenomicRanges - Representation and manipulation of genomic intervals | 2026-02-14 01:59:35 | 50 | |||||||
|
JChemPaint Resource Report Resource Website 1+ mentions |
JChemPaint (RRID:SCR_000095) | JCP | software resource | Chemical 2D structure editor and viewer application/applet based on the Chemistry Development Kit (CDK). | applet, mac os x, unix/linux, windows, java | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_04959 | https://github.com/JChemPaint/jchempaint | SCR_000095 | 2026-02-14 01:59:37 | 1 | |||||||
|
Leica DMRE Fluorescence Microscope Resource Report Resource Website 1+ mentions |
Leica DMRE Fluorescence Microscope (RRID:SCR_000011) | Leica DMRE microscope | instrument resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Microscope that enables bright field and fluorescence imaging options. | microscope, fluorescence, imaging, hardware, instrument, equipment, USEDit | has parent organization: Leica Microsystems | THIS RESOURCE IS NO LONGER IN SERVICE | SciRes_000155 | SCR_000011 | Fluorescence Leica DMRE microscope | 2026-02-14 01:59:35 | 9 | |||||||
|
University of Algarve; Faro; Portugal Resource Report Resource Website |
University of Algarve; Faro; Portugal (RRID:SCR_000006) | UAlg | university | A young state university located in the southern part of Portugal. | university, portugal, topical portal | is parent organization of: Unified Human Interactome | nlx_157657 | SCR_000006 | University of the Algarve, Universidade do Algarve, Universidade Algarve, University of Algarve | 2026-02-14 01:59:34 | 0 | ||||||||
|
G Biosciences Resource Report Resource Website |
G Biosciences (RRID:SCR_000007) | commercial organization | Commercial antibody supplier that provides research materials for projects such as: protein purification, protein analysis, protein estimation assays, DNA purification, plasmid DNA isolation and transformation, protein quantification assays, and coupled assays for methylation. This supplier also provides buffers, reagents, education programs, and training programs. | antibody vendor, buffer vendor, education programs, training programs, reagent | nlx_152367 | SCR_000007 | 2026-02-14 01:59:34 | 0 | |||||||||||
|
DOCK Resource Report Resource Website 10+ mentions |
DOCK (RRID:SCR_000128) | DOCK | software resource | An algorithm used to predict and analyse binding modes of docking molecules. Users can search ligand databases for compounds that inhibit enzymatic activity and bind to particular molecules and nucleic acid targets. Molecular docking is used to predict a predominant binding mode(s) of a ligand in three-dimensional structure. This method can be used for molecular biology and computer-assisted drug design. | molecule docking, ligand model, drug design, molecular biology |
is listed by: OMICtools has parent organization: University of California at San Francisco; California; USA |
Available to the research community, Free for the academic community, License fee for industrial organizations, Available for download | OMICS_01598 | SCR_000128 | UCSF DOCK | 2026-02-14 01:59:37 | 16 | |||||||
|
GE Healthcare Resource Report Resource Website 10000+ mentions |
GE Healthcare (RRID:SCR_000004) | commercial organization | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 10,2024. A commercial antibody supplier and provider of various services., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | antibody supplier, service provider, commercial |
lists: Amersham Biosciences is related to: Cytiva is parent organization of: ImageQuant |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152368 | SCR_000004 | GE Healthcare Life Sciences, Amersham Biosciences | 2026-02-14 01:59:34 | 18877 |
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