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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Creative Biogene Mitochondrial Biomarkers and Therapeutic Targets Service Resource Resource Report Resource Website 1+ mentions |
Creative Biogene Mitochondrial Biomarkers and Therapeutic Targets Service Resource (RRID:SCR_022240) | service resource | Creative Biogene service for discovery of disease specific proteins associated with mitochondrial epigenetic products, which can be used as molecular targets for new drug design and provide molecular markers for early diagnosis of diseases. | Creative Biogene, biomedical service, disease specific proteins discovery, mitochondrial epigenetic product, molecular targets, new drug design, molecular markers | has parent organization: Creative Biogene | Restricted | SCR_022240 | Mitochondrial Biomarkers and Therapeutic Targets | 2026-08-29 11:28:18 | 6 | |||||||||
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triku Resource Report Resource Website 1+ mentions |
triku (RRID:SCR_020977) | data analysis software, data processing software, software application, software resource | Software tool as feature selection method based on nearest neighbors for single-cell data. | Selection method, nearest neighbors, single cell data, data analysis | uses: scanpy | Free, Available for download, Freely available | https://triku.readthedocs.io/en/latest/ | SCR_020977 | 2026-08-29 11:27:43 | 2 | |||||||||
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3DOC Resource Report Resource Website |
3DOC (RRID:SCR_021547) | data or information resource, instrument resource, portal, project portal | Project related to animals learned perform action in order to achieve reward. Fully 3D printable chamber able to perform operant conditioning using off-the-shelf, low-cost optical and electronic components, that can be reproduced rigorously in any laboratory equipped with 3D printer. | Instrument, operant conditioning, 3D printable chamber, OpenBehavior | is listed by: OpenBehavior | DOI:10.1523/eneuro.0502-19.2020 | Commercially available | SCR_021547 | 2026-08-29 11:27:50 | 0 | |||||||||
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Creative Biogene Mitochondrial Physiological and Pathological Modifications Service Resource Resource Report Resource Website |
Creative Biogene Mitochondrial Physiological and Pathological Modifications Service Resource (RRID:SCR_022239) | service resource | Provides multi species mitochondrial epigenetic analysis and customizes appropriate research route. Providies services on epigenetic characteristics of mitochondria under different physiological and pathological conditions. | Creative Biogene, biomedical service, multi species mitochondrial epigenetic analysis, epigenetic characteristics, different physiological and pathological conditions | has parent organization: Creative Biogene | Restricted | SCR_022239 | Mitochondrial Physiological and Pathological Modifications | 2026-08-29 11:27:53 | 0 | |||||||||
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Drop-seq tools Resource Report Resource Website 100+ mentions |
Drop-seq tools (RRID:SCR_018142) | data analysis software, data processing software, software application, software resource | Software Java tools for analyzing Drop-seq data. Used to analyze gene expression from thousands of individual cells simultaneously. Analyzes mRNA transcripts while remembering origin cell transcript. | Simultaneous analysis, Drop-seq data, gene expression, thousands individual cells |
is listed by: Debian has parent organization: Broad Institute |
Klarman Cell Observatory ; MGH Psychiatry Residency Research Program ; NHGRI P50 HG006193; NICHD F32 HD075541; NIMH R25 MH094612; NIMH U01 MH105960; NSF DMR 1310266; NSF DMR 1420570; NSF ECS 0335765; Simons Foundation ; Stanley Center for Psychiatric Research ; Stanley-MGH Fellowship in Psychiatric Neuroscience ; Stewart Trust Fellows Award |
PMID:26000488 | https://sources.debian.org/src/drop-seq-tools/ | SCR_018142 | Droplet sequencing tools, Droplet sequencing data analysis software tools | 2026-08-29 11:27:46 | 112 | |||||||
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DrivAER Resource Report Resource Website 1+ mentions |
DrivAER (RRID:SCR_019076) | data analysis software, data processing software, software application, software resource | Software tool as method for identification of driving transcriptional programs based on AutoEncoder derived Relevance scores. Infers relevance scores for transcriptional programs with respect to specified outcomes of interest in single-cell RNA sequencing data, such as psuedotemporal ordering or disease status.Used for manifold interpretation in scRNA-seq data. | Manifold interpretation, scRNAseq data, relevance scores infering, transcriptional program, psuedotemporal ordering, disease status, data, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Available for download, Freely available | biotools:drivaer | https://bio.tools/drivaer | SCR_019076 | Driving transcriptional programs using AutoEncoder based Relevance scores | 2026-08-29 11:27:48 | 1 | |||||||
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STENCIL Resource Report Resource Website 1+ mentions |
STENCIL (RRID:SCR_021878) | data processing software, data visualization software, software application, software resource | Web engine for visualizing and sharing life science datasets.Designed to organize, visualize, and enable sharing of interactive genomic data visualizations. Provides ability to inspect and interpret sequencing data, without requiring programming expertise. | Visualizing genomic data, sharing genomic data, interactive genomic data visualizations, interpret sequencing data | NIEHS ES013768; NIGMS GM125722 |
DOI:10.1101/2021.06.04.447108 | Free, Available for download, Freely available | SCR_021878 | 2026-08-29 11:28:16 | 4 | |||||||||
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IMGT HighV-QUEST Resource Report Resource Website 10+ mentions |
IMGT HighV-QUEST (RRID:SCR_018196) | alignment software, analysis service resource, data or information resource, data processing software, image analysis software, portal, production service resource, service resource, software application, software resource | Next generation B and T cell sequence alignment and characterization online surface by IMGT. Web portal for immunoglobulin (IG) or antibody and T cell receptor (TR) analysis from NGS high throughput and deep sequencing. | Next generation sequencing, B cell, T cell, sequence alignment, immunoglobulin, antibody, T cell receptor, analysis, sequence, bio.tools |
is listed by: bio.tools is listed by: Debian |
CNRS ; GENCI ; MESR ; NHMRC ; Université Montpellier 2 ; France |
PMID:22647994 PMID:23995877 PMID:22665256 |
Restricted | biotools:IMGt_HighV-QUESt | https://bio.tools/IMGT_HighV-QUEST | SCR_018196 | IMGT/HighV QUEST, IMGT/HighV-QUEST, IMGT web portal | 2026-08-29 11:27:46 | 15 | |||||
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Genomic Association Tester Resource Report Resource Website 10+ mentions |
Genomic Association Tester (RRID:SCR_020949) | GAT | data analysis software, data processing software, simulation software, software application, software resource | Software tool as simulation framework for testing association of genomic intervals. Used for estimating significance of overlap between multiple sets of genomic intervals. Estimates statistical significance based on simulation and controls for multiple tests using false discovery rate. | Genomic intervals, genomic intervals association testing, overlap significance estimation, genomic intervals sets, segment length distribution, chromosomal location, isochores | UK Medical Research Council | PMID:23782611 | Free, Available for download, Freely available | https://github.com/AndreasHeger/gat | http://code.google.com/p/genomic-association-tester | SCR_020949 | 2026-08-29 11:27:49 | 31 | ||||||
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PM4NGS Resource Report Resource Website 1+ mentions |
PM4NGS (RRID:SCR_019164) | data analysis software, data management software, data processing software, software application, software resource, software toolkit, workflow software | Software tool to generate standard organizational structure for Next Generation Sequencing data analysis. Includes directory structure for project, several Jupyter notebooks for data management and CWL workflows for pipeline execution. | NGS workflow, standard organizational structure generation, Next Generation Sequencing data, NGS data analysis, NGS data analysis workflow, data integration, Jupyter notebook, CWL format, bio.tools |
is listed by: bio.tools is listed by: Debian |
Intramural Research Program of the National Library of Medicine NIH | DOI:10.7490/f1000research.1117155.1 | Free, Freely available | biotools:pm4ngs | https://bio.tools/pm4ngs | SCR_019164 | Project Manager for Next Generation Sequencing | 2026-08-29 11:27:48 | 1 | |||||
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Panaroo Resource Report Resource Website 10+ mentions |
Panaroo (RRID:SCR_021090) | data analysis software, data processing software, software application, software resource | Software pipeline for pangenome investigation. Shares information between genomes to correct errors. Can call large structural variants.Fast and scalable to over 10k bacterial genomes. | pangenome investigation, correct errors, genomes, large structural variants, bacterial genomes | Free, Available for download, Freely available | https://gtonkinhill.github.io/panaroo/#/gettingstarted/quickstart | SCR_021090 | Bacterial Pangenome Analysis Pipeline | 2026-08-29 11:28:15 | 32 | |||||||||
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Creative Peptides: Formulation Development Service Resource Resource Report Resource Website |
Creative Peptides: Formulation Development Service Resource (RRID:SCR_022223) | instrument resource | Service to determine optimal dosage form, composition and manufacturing route for pharmaceutical products. | Creative Peptides, biomedical resource, optimal dosage form, pharmaceutical products | has parent organization: Creative Peptides | Restricted | SCR_022223 | Formulation Development | 2026-08-29 11:27:44 | 0 | |||||||||
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Creative Peptides: Peptide Lead Optimization Service Resource Resource Report Resource Website |
Creative Peptides: Peptide Lead Optimization Service Resource (RRID:SCR_022222) | instrument resource | Provides optimized one stop solution for peptide lead drugs. Used to improve upon lead molecule that demonstrates activity at target of interest by optimizing its potency or selectivity at target and its absorption, distribution, metabolism and elimination properties. | Creative Peptides, biomedical service, peptide lead drugs, lead molecule improvement, optimizing potency, optimizing selectivity at target | has parent organization: Creative Peptides | Restricted | SCR_022222 | Peptide Lead Optimization | 2026-08-29 11:27:52 | 0 | |||||||||
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Creative Peptides Peptide Drug Bioconjugations Service Resource Resource Report Resource Website |
Creative Peptides Peptide Drug Bioconjugations Service Resource (RRID:SCR_022221) | service resource | Custom peptide synthesis, modification, and conjugation services involve chemical modification of peptide at highly specific sites. This allows for attachment of drugs or bioactive molecules though variety of coupling techniques. | Creative Peptides, conjugation services, peptide, drugs or bioactive molecules attachment, biomedical service | has parent organization: Creative Peptides | Restricted | SCR_022221 | Peptide Drug Bioconjugations | 2026-08-29 11:28:17 | 0 | |||||||||
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Tandem Repeats Finder Resource Report Resource Website 100+ mentions |
Tandem Repeats Finder (RRID:SCR_022065) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software tool to locate and display tandem repeats in DNA sequences. Used to analyze DNA sequences. | locate and display tandem repeats, analyze DNA sequences, tandem repeat, DNA sequence | PMID:9862982 | Free, Available for download, Freely available | SCR_022065 | 2026-08-29 11:28:16 | 443 | ||||||||||
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Brain Cell Methylation Viewer Resource Report Resource Website 1+ mentions |
Brain Cell Methylation Viewer (RRID:SCR_020954) | mC Viewer | analysis service resource, data access protocol, data or information resource, production service resource, service resource, software resource, web service | Viewer for DNA Methylation Atlas of Mouse Brain at Single Cell Resolution. Browser to interactively explore single cell methylome dataset including exploration of methylation diversity of one gene at single-cell or cell-type level, exploration of cell type composition of adult mouse brain dissection regions and anatomical structures, explorartion of spatial distribution and methylation signature genes of one cell type. | BRAIN Initiative Cell Census Network, mouse brain, cell types, epigenomes, single cell exploration, methylome dataset | has parent organization: Salk Institute for Biological Studies | DOI:10.1101/2020.04.30.069377 | Free, Freely available | SCR_020954 | Neomorph: Brain Cell Methylation Viewer | 2026-08-29 11:28:15 | 2 | |||||||
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Creative Peptides Total Peptide Library Construction Service Resource Resource Report Resource Website |
Creative Peptides Total Peptide Library Construction Service Resource (RRID:SCR_022219) | service resource | Service uses bioinformatics methods to compress peptide information, which can integrate information of multiple peptide into one peptide. Provides collection of small peptide of specific length and different sequences, which includes permutation and combination of various amino acid sequences in short peptide of this length.Total peptide library for new drug research and development. | Creative Peptides, biomedical service, peptide information, amino acid sequences, short peptide, peptide library | has parent organization: Creative Peptides | Restricted | SCR_022219 | Total Peptide Library Construction Technology | 2026-08-29 11:27:52 | 0 | |||||||||
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Waters: SQD2 LC/MS system Resource Report Resource Website 10+ mentions |
Waters: SQD2 LC/MS system (RRID:SCR_022217) | instrument resource | System includes SQD2 as single quadrupole MS with Waters H-Class Acquity UPLC, operated as open access platform for trained users. SQ Detector2 is single quadrupole mass detector for chromatography compatible with range of chromatography platforms and ionization sources. | SQ Detector2, instrument, equipment, USEDit, single quadrupole MS, mass spectrometer, liquid chromatography, Waters H-Class Acquity UPLC, chromatography platform, chromatography quadrupole mass detector |
uses: Waters SQ Detector 2 Mass Spectrometer is used by: Stanford University Vincent Coates Foundation Mass Spectrometry Laboratory Core Facility |
SCR_022217 | Stanford Waters SQD2 LC/MS system | 2026-08-29 11:27:52 | 12 | ||||||||||
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CSpritz Resource Report Resource Website 1+ mentions |
CSpritz (RRID:SCR_021884) | data access protocol, software resource, web service | Web tool for prediction of intrinsic protein disorder segments with annotation for homology, secondary structure and linear motifs. | Intrinsic protein disorder segments prediction, homology, secondary structure, linear motifs, annotation | Italian Ministry of Education ; University of Padova |
DOI:10.1093/nar/gkr411 | Free, Freely available | SCR_021884 | 2026-08-29 11:27:51 | 2 | |||||||||
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Deltagraph Resource Report Resource Website |
Deltagraph (RRID:SCR_018084) | data analysis software, data analytics software, data processing software, data visualization software, software application, software resource | Software tool for statistics and data visualization by Red Rock Software, Inc. Provides unparalleled chart selection, data analysis and graph customization capabilities. | Data, statistic, visualization, chart selection, graph, analysis, Red Rock Software Inc. | Restricted | SCR_018084 | 2026-08-29 11:28:12 | 0 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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