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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Sequencing Analysis Software Resource Report Resource Website 1+ mentions |
Sequencing Analysis Software (RRID:SCR_000718) | Sequencing Analysis Software | software resource | A software that gives the user the ability to basecall, trim, display, edit, and print data for the entire line of capillary DNA sequencing instruments for data analysis and quality control. This software benefits from being able to obtain longer read lengths, greater accuracy on the 5' end, and the ability to filter out low-quality sequence ends. | basecall, capillary dna, quality control, low-quality sequence ends | is listed by: OMICtools | Restricted | OMICS_01814 | SCR_000718 | 2026-02-07 02:05:26 | 1 | ||||||||
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Stanford University Psychiatry and Behavioral Sciences Resource Report Resource Website |
Stanford University Psychiatry and Behavioral Sciences (RRID:SCR_000719) | university | A Stanford-affiliated organization which is primarily concerned with the study and treatment of sleep disorders, the treatment of psychological illnesses, and the training of medical students, residents and research fellows in psychiatry and sleep medicine. | stanford, sleep disorder, psychiatry, medical, psychological illness, research, medicine | nif-0000-02073 | SCR_000719 | Stanford | 2026-02-07 02:05:23 | 0 | ||||||||||
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Scripps Women's College, Neuroscience Department Resource Report Resource Website |
Scripps Women's College, Neuroscience Department (RRID:SCR_000717) | university | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 14,2025. A neuroscience program that prepares the student for graduate work in biology, psychology, neuroscience, or preparation for medical school or a career in the health services. | neuroscience, psychology, biology, health sciences, medical, services, graduate | has parent organization: Scripps College; California; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02059 | SCR_000717 | Scripps College Neuroscience | 2026-02-07 02:05:24 | 0 | ||||||||
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clipcrop Resource Report Resource Website |
clipcrop (RRID:SCR_000678) | software resource | Software tool for detecting structural variations with single-base resolution using soft-clipping information from SAM files. | structural variation, detecting structural variations, soft-clipping information, SAM files, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:22373054 | Free, Available for download, Freely available | biotools:clipcrop, OMICS_00310 | https://bio.tools/clipcrop | SCR_000678 | ClipCrop | 2026-02-07 02:05:25 | 0 | ||||||
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Americans for Medical Progress Resource Report Resource Website |
Americans for Medical Progress (RRID:SCR_000711) | AMP | nonprofit organization | A non-profit charity dedicated to providing education about animal research for the purpose of protecting medical and scientific progress. The organization seeks to provide accurate and incisive information to foster a balanced public debate on animal research issues. They work to do outreach by distributing timely and relevant news, information and analysis about animal rights extremism to the research community. | animal, research, issue, extremism, education, progress, debate | Crossref funder ID: 100005411, grid.468272.d, nif-0000-00456, Wikidata: Q4745618, ISNI: 0000 0004 4659 713X | https://ror.org/05xxn0r26 | SCR_000711 | 2026-02-07 02:05:24 | 0 | |||||||||
|
TriageTools Resource Report Resource Website |
TriageTools (RRID:SCR_000675) | TriageTools | software resource | A collection of tools for partitioning raw data (fastq reads) from high-throughput sequencing projects. The tools are designed for basic data management as well for prioritizing analysis of certain subsets. | matlab, java, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
PMID:23408855 | Free, Available for download, Freely available | biotools:triagetools, nlx_156740 | https://bio.tools/triagetools | SCR_000675 | 2026-02-07 02:05:22 | 0 | ||||||
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Oregon State University College of Pharmacy Resource Report Resource Website |
Oregon State University College of Pharmacy (RRID:SCR_000715) | university | The college of pharmacy at Oregon State University that offers professional education in pharmacy. The foundational goals are to provide professional education, foster research to contribute to public health initiatives and promote safe and affordable medication access. | pharmacy, pharmaceutical, professional, education, public health, access, medication, drugs | nif-0000-02038 | SCR_000715 | Oregon State | 2026-02-07 02:05:26 | 0 | ||||||||||
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VarB Resource Report Resource Website |
VarB (RRID:SCR_000671) | VarB | software resource | A variation browsing and analysis tool for variants derived from next-generation sequencing data. | variant, next-generation sequencing, polymorphism, c++ | is listed by: OMICtools | PMID:22976080 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00898 | SCR_000671 | 2026-02-07 02:05:22 | 0 | |||||||
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Virginia Commonwealth University, Department of Pharmacology Resource Report Resource Website |
Virginia Commonwealth University, Department of Pharmacology (RRID:SCR_000666) | university | A graduate program for pharmacology and toxicology that is a component of the Virginia Commonwealth University. This organization also performs studies on medical disorders, and new pharmacology agents and their effects on human health. | pharmacology, toxicology, virginia commonwealth, medical disorders, graduate program, pharmacology agents | has parent organization: Virginia Commonwealth University; Virginia; USA | nif-0000-02004 | http://views.vcu.edu/pharmtox/ | SCR_000666 | VCU SOM Pharmacology and Toxicology, VCU Department of Pharmacology and Toxicology, VCU Pharmacology and Toxicology, VCU Department of Pharmacology Toxicology, VCU School of Medicine; Department of Pharmacology and Toxicology | 2026-02-07 02:05:25 | 0 | ||||||||
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NGS tools for the novice Resource Report Resource Website 1+ mentions |
NGS tools for the novice (RRID:SCR_000664) | NGS tools for the novice | software resource | A collection of simple Perl scripts adressed to scientists doing research that bases on high throughput genomic/transcriptomic data. It does not require any bioinformatic expertise. The scripts perform fundamental processing steps like sorting sequences by TAGs, FASTQ to FASTA conversion, filtering and counting of redundant sequences, individually adjustable FASTQ quality filtering or basic analyses like base count and analysis of sequence length distribution. | next generation sequencing, perl |
is listed by: OMICtools has parent organization: SourceForge |
Free, Available for download, Freely available | OMICS_01063 | SCR_000664 | NGS tools for the novice - Handy tools for processing of next generation sequencing (NGS) data | 2026-02-07 02:05:22 | 3 | |||||||
|
Opera Resource Report Resource Website 1+ mentions |
Opera (RRID:SCR_000665) | software resource | A sequence assembly software program that uses information from paired-end reads to optimally order and orient contigs assembled from shotgun-sequencing reads. | sequence assembly, paired-end, orient contigs, shotgun-sequencing, shotgun, software program, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
PMID:27169502 PMID:21929371 |
Free, Available for download, Freely available | biotools:opera, OMICS_00045 | https://bio.tools/opera | SCR_000665 | OPERA-LG, Optimal Paired-End Read Assembler | 2026-02-07 02:05:24 | 3 | ||||||
|
PiNGO Resource Report Resource Website |
PiNGO (RRID:SCR_000692) | PiNGO | software resource | A Java-based tool to easily find unknown genes in a network that are significantly associated with user-defined target Gene Ontology (GO) categories. PiNGO is implemented as a plugin for Cytoscape, a popular open source software platform for visualizing and integrating molecular interaction networks. PiNGO predicts the categorization of a gene based on the annotations of its neighbors, using the enrichment statistics of its sister tool BiNGO. Networks can either be selected from the Cytoscape interface or uploaded from file. Platform: Windows compatible, Mac OS X compatible, Linux compatible, Unix compatible | gene, annotation, network, candidate gene, biological network, ontology or annotation search engine, statistical analysis, term enrichment, functional similarity, functional prediction, search engine, windows, mac os x, linux, unix |
is listed by: Gene Ontology Tools is listed by: OMICtools is related to: Gene Ontology is related to: Cytoscape has parent organization: Ghent University; Ghent; Belgium |
PMID:21278188 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_149330, OMICS_02281 | SCR_000692 | 2026-02-07 02:05:22 | 0 | |||||||
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RMAP Resource Report Resource Website 1+ mentions |
RMAP (RRID:SCR_000695) | RMAP | software resource | Software for short-read mapping to accurately map reads from the next-generation sequencing technology. It can map reads with or without error probability information (quality scores) and supports paired-end reads or bisulfite-treated reads mapping. There is no limitaions on read widths or number of mismatches. RMAP can now map more than 8 million reads in an hour at full sensitivity to 2 mismatches. | next-generation sequencing, solexa |
is listed by: OMICtools has parent organization: Cold Spring Harbor Laboratory |
PMID:19736251 | OMICS_00681 | SCR_000695 | 2026-02-07 02:05:26 | 2 | ||||||||
|
TMAP Resource Report Resource Website 10+ mentions |
TMAP (RRID:SCR_000687) | TMAP | software resource | Alignment software for short and long nucleotide sequences produced by next-generation sequencing technologies. | next-generation sequencing | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_00694 | SCR_000687 | TMAP - torrent mapping alignment program, Torrent Mapping Alignment Program | 2026-02-07 02:05:22 | 22 | |||||||
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Temple University School of Medicine, Department of Neuroscience Resource Report Resource Website |
Temple University School of Medicine, Department of Neuroscience (RRID:SCR_000720) | university | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 14,2025. A department within the Temple University School of Medicine, which focuses on the education and research. This organization also hosts seminar series in neuroscience, sponsors annual lectures in neuroscience, and organizes bi-annual one-day workshops. This department has collaborative projects with researchers from the microbiology, immunology, pharmacology, radiology and the center for substance abuse research departments. | neuroscience, annual lecture, workshops, seminar, education, research | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02090 | SCR_000720 | 2026-02-07 02:05:25 | 0 | ||||||||||
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University of Miami, Department of Neuroscience Resource Report Resource Website |
University of Miami, Department of Neuroscience (RRID:SCR_000723) | university | A department within the University of Miami which offers both undergraduate and postgraduate programs in neuroscience. The graduate program provides neuroscience research training in biological, behavioral, and physical sciences. This organization also conducts research through 55 active laboratories. | undergraduate, postgraduate, biological, behavioral, physical, research, educations | nif-0000-02209 | SCR_000723 | 2026-02-07 02:05:25 | 0 | |||||||||||
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Makray Family Foundation Resource Report Resource Website |
Makray Family Foundation (RRID:SCR_000916) | funding resource | Non-profit charitable organization that benefits philanthropy, voluntarism and grantmaking foundations, focusing specifically on private independent foundations programs. (http://non-profit-organizations.findthebest.com/l/558154/Makray-Family-Foundation) | foundation, grant, philanthropy, voluntarism, grantmaking | is related to: International Genomics of Alzheimers Project | nlx_158459 | http://non-profit-organizations.findthebest.com/l/558154/Makray-Family-Foundation | SCR_000916 | 2026-02-07 02:05:28 | 0 | |||||||||
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Frontier Scientific Chemical Supplier Resource Report Resource Website 10+ mentions |
Frontier Scientific Chemical Supplier (RRID:SCR_000914) | commercial organization | A commercial vendor of chemicals that provides custom synthesis of a wide variety of organic compounds. Frontier Scientific has capabilities for custom work in organoborons, organotins, porphyrins, silanes, halogenations, catalysts and cross couplings using Suzuki, Stille, and Kumada processes. | organoborons, organotins, porphyrins, silanes, halogenations, catalysts, cross couplings, chemical, organic, compound, custom, synthesize | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_157824, grid.504592.f | https://ror.org/00d403277 | http://frontiersci.com/ | SCR_000914 | 2026-02-07 02:05:26 | 24 | ||||||||
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University of Dundee; Scotland; United Kingdom Resource Report Resource Website 1+ mentions |
University of Dundee; Scotland; United Kingdom (RRID:SCR_000997) | university | University in Scotland, UK that provides undergraduate and doctoral degree programs. | university, undergraduate, doctoral, phd, graduate |
is related to: Kinetics for Drug Discovery is related to: Aline is parent organization of: Phospho.ELM is parent organization of: MARCAR is parent organization of: OXBench is parent organization of: GOtcha is parent organization of: Jalview is parent organization of: Kinomer is parent organization of: Human Intermediate Filament Database is parent organization of: SNAPPI is parent organization of: OME - Open Microscopy Environment is parent organization of: University of Dundee College of Life Sciences; Scotland; United Kingdom is parent organization of: University of Dundee School of Medicine; Scotland; United Kingdom is parent organization of: NoPdb: Nucleolar Proteome Database is parent organization of: Research Data Management Platform |
Crossref funder ID:100008890, ISNI:0000 0004 0397 2876, grid.8241.f, Wikidata:Q1249005, nlx_76402 | https://ror.org/03h2bxq36 | SCR_000997 | University of Dundee | 2026-02-07 02:05:26 | 2 | ||||||||
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Tufts University; Massachusetts; USA Resource Report Resource Website 1+ mentions |
Tufts University; Massachusetts; USA (RRID:SCR_000994) | university | Private research university in Medford and Somerville, Massachusetts, United States, with additional facilities in Boston and Grafton, as well as Talloires, France. Provides undergraduate, graduate, and professional degree programs. | tufts, university, undergraduate, graduate, professional |
uses: LabArchives is related to: Clinical and Translational Science Awards Consortium is related to: LabArchives is parent organization of: Tissue Engineering Resource Center is parent organization of: Tufts University School of Medicine; Massachusetts; USA is parent organization of: Tufts University Graduate School of Biomedical Sciences Graduate Programs is parent organization of: DFLAT is parent organization of: Tufts University Labs and Facilities is parent organization of: Tufts University Core Facilities is parent organization of: FluCalc is parent organization of: Tufts University Genomics Core Facility is parent organization of: Tufts University Laser Cytometry Core Facility |
Crossref funder ID:100008090, ISNI:0000 0004 1936 7531, Wikidata:Q49120, nlx_38314, grid.429997.8 | https://ror.org/05wvpxv85 | SCR_000994 | Tufts University, Tufts | 2026-02-07 02:05:26 | 9 |
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