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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Arkansas University College of Medicine Flow Cytometry Core Facility Resource Report Resource Website |
Arkansas University College of Medicine Flow Cytometry Core Facility (RRID:SCR_017741) | service resource, core facility, access service resource | Core provides flow cytometry instrumentation and analysis. Instruments include Fortessa, FacsAria and Image Stream. | Flow, cytometry, biopolymer, proteomics, data, analysis, service, core | NIGMS P20 GM103625 | ABRF_215 | SCR_017741 | Biopolymers and Proteomics Core Facility | 2026-02-16 09:49:18 | 0 | |||||||||
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South Dakota University SD BRIN Proteomics Core Facility Resource Report Resource Website |
South Dakota University SD BRIN Proteomics Core Facility (RRID:SCR_017743) | service resource, core facility, access service resource | Core provides proteomics services to researchers from South Dakota and the surrounding region to rapidly analyze and identify protein expression patterns in their experimental systems.Develops experimental design, protocols, data analysis and interpretation.Provides consulting and advice in grant proposal, as well as data preparation to be submitted to proteomics journal according to requirements.Offers training in use of common equipment such as scanner, spot cutter, imaging software, technique and protocol issues, and sample preparation. | Proteomics, protein, expression, analysis, data, experimental, design, training, service, core | NIGMS ; Sanford School of Medicine and South Dakota Biomedical Research Infrastructure Network |
Open | ABRF_224 | SCR_017743 | Proteomics Core | 2026-02-16 09:49:18 | 0 | ||||||||
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Kansas University at Lawrence High Throughput Screening Laboratory Core Facility Resource Report Resource Website 1+ mentions |
Kansas University at Lawrence High Throughput Screening Laboratory Core Facility (RRID:SCR_017752) | KU-HTSL | service resource, core facility, access service resource | Core offers high throughput screening of large chemical libraries of compounds to identify novel chemical entities that target biological system of interest.Provides target identification and validation, assay development, high throughput screening, hit confirmation, data mining and medicinal chemistry to facilitate hit to lead development. | Screening, large, chemical, library, compound, novel, entity, target, identification, validation, assay, development, data, mining, medicinal, chemistry, service, core | NIGMS P30 GM103495; State of Kansas ; University of Kansas |
Open | ABRF_254 | SCR_017752 | High Throughput Screening Laboratory at KU | 2026-02-16 09:49:19 | 1 | |||||||
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Brown University Transgenic and Gene Targeting Core Facility Resource Report Resource Website |
Brown University Transgenic and Gene Targeting Core Facility (RRID:SCR_017690) | MTGTF | service resource, core facility, access service resource | MTGTF is to support the investigators in using genetically modified mouse models in Brown University, affiliated hospitals and academic institutions in Rhode Island and other states. Provides services of molecular design and generation of transgenic and knock-out mouse models as well as general advice on use and management of such models. Conventional ES cell gene-targeting system is employed to serve as alternative or to fill the limitations of CRISPR/Cas9 system. Routine services include genotype analysis, sperm or embryo cryopreservation and storage, rederivation, in vitro fertilization (IVF). Other services, such as mouse vasectomy, embryo transfer, colony scale-up, intracytoplasmic sperm injection (ICSI) are also available. New services requiring MTGTF resources can be created through request. | Genetically, modified, mouse, model, support, molecular, design, transgenic, knock-out, ES, cell, targeting, system, CRISPR/Cas9, genotype, analysis, sperm, embryo, cryopreservation, storage, fertilization, vasectomy, service, core | NIGMS P30 GM103410 | Open | ABRF_79, SCR_017708 | SCR_017690 | Mouse Transgenic and Gene Targeting Facility | 2026-02-16 09:49:17 | 0 | |||||||
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Nemours/A.I.duPont Hospital for Children Cell Science Core Facility Resource Report Resource Website |
Nemours/A.I.duPont Hospital for Children Cell Science Core Facility (RRID:SCR_017854) | CSC | service resource, core facility, access service resource | Core specializes in cell, protein, and small molecules analysis as well as cell culture techniques. Services include:2-D gel electrophoresis, 2-D DIGE, LC-MS/MS, HPLC, flow cytometry, fluorescence-activated cell sorting (FACS), cell and tissue culture, and immortalization of cell lines. Our staff works closely with investigators to help design, perform, and analyze experiments.Offers training and assistance in flow cytometry, tissue culture, and operation many of our walk-up instruments.Instruments:Cell Sorter: FACS Aria III, BD Biosciences;Flow Cytometers, analyzers:C6, Accuri/BD Biosciences;Novocyte 3000, ACEA Biosciences;software for analysis: FSC Express, DeNovo software;LC-MS/MS: 6460 Triple Quadrupole, Agilent;Typhoon Trio Scanner, GE Lifesciences;Blood Analyzer: Hemavet 950, Drew Scientific.Plate Readers:;Victor Nivo 5F, Perkin Elmer;Luminometer: Centro XS, Berthold.Services:Cell Sorting (FACS);2-D gel electrophoresis/2D-DIGE;LC-MS/MS analysis of compounds; Cell immortilization. | Cell, protein, small, molecules, analysis, culture, electrophoresis, 2D DIGE, LC-MS/MS, HPLC, FACS, immortalization, flow, cytometry, sorting, training, service, core, | NIGMS P30 GM114736 | Open | ABRF_662 | SCR_017854 | Cell Science Core | 2026-02-16 09:49:22 | 0 | |||||||
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South Carolina Medical University Mass Spectrometry Core Facility Resource Report Resource Website 1+ mentions |
South Carolina Medical University Mass Spectrometry Core Facility (RRID:SCR_017959) | service resource, core facility, access service resource | Core provides expertise, services, education, and instrumentation to enhance biomedical research through LC-MS/MS-based proteomics. Services are offered for protein identification; characterization of post-translational modifications; and quantitative proteomics to identify differentially expressed/degraded proteins, regulated sites of post-translational modification, protein-protein interactions, and protein targets of drugs identified in phenotypic screens. Analyses include sample preparation, LC-MS/MS, database searching, generation of reports, and assistance with data interpretation. Faculty and staff assist with experimental design and development/optimization of customized methodology for analysis of post-translationally modified peptides (e.g. phosphorylation and O-GlcNAc modification, N- and O-linked glycosylation, Cys modifications including S-glutathionylation, and glycation of Lys and Arg). Quantitative approaches including metabolic labeling (SILAC), isobaric tagging (iTRAQ/TMT), and label free proteomics (LFQ) are performed on Orbitrap Elite or Orbitrap Fusion Lumos Mass Spectrometers. Developes methodology to identify alterations in post-translational modifications that impact signal transduction, transcription, translation, and response to therapeutics with goal of enabling investigators to discover molecular mechanisms underlying disease progression and therapeutic response. | Mass, spectrometry, expertise, service, education, instrumentation, proteomics, protein, identification, characterization, post translational, modification, target, drug, identification, phenotypic, screen, analysis, disease, service, core, ABRF | is listed by: ABRF CoreMarketplace | NIH Office of the Director S10 OD010731; NIGMS P20 GM103542 |
ABRF_985 | SCR_017959 | MUSC Mass Spectrometry Facility | 2026-02-16 09:49:24 | 1 | ||||||||
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University of Nebraska Medical Center Animal Behavior Core Facility Resource Report Resource Website 1+ mentions |
University of Nebraska Medical Center Animal Behavior Core Facility (RRID:SCR_018830) | service resource, core facility, access service resource | Provides investigators with expertise, equipment, and space that is required to conduct innovative acoustic, behavioral, and cognitive research with focus on rigor, reproducibility, and maintaining the highest standards of animal welfare. | USEDit, acoustic, behavioral, cognitive, expertise, equipment, space service, ABRF, ABRF |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of Nebraska; Nebraska; USA |
NIGMS 1P20GM130447 | Restricted | ABRF_1021 | https://coremarketplace.org/?FacilityID=1021 | SCR_018830 | UNMC Animal Behavior Core, University of Nebraska Medical Center UNMC Animal Behavior Core, Animal Behavior Core | 2026-02-16 09:49:35 | 4 | ||||||
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Louisiana State University Pennington Biomedical Research Center Genomics Core Facility Resource Report Resource Website |
Louisiana State University Pennington Biomedical Research Center Genomics Core Facility (RRID:SCR_018675) | GCF | service resource, core facility, access service resource | Provides services which include Sanger and next-generation DNA sequencing,DNA fragment analysis,qualitative and quantitative analysis of DNA, protein, and RNA samples, quantitative PCR, microarray RNA labeling, hybridization, and scanning robotics,bioinformatics.Individual and small group training and consultation services are offered for sequence analysis, real-time PCR, next-generation sequencing and microarray analysis. | USEDit, Sanger sequencing, next generation DNA sequencing, DNA fragment analysis, quality, quantity, analysis, DNA, protein, RAN, qPCR, microarray RNA labeling, hybridization, scanning robotics, training, ABRF | is listed by: ABRF CoreMarketplace | NIGMS 1P30GM118430; NIDDK 2P30DK072476 |
Open | ABRF_434 | https://coremarketplace.org/?FacilityID=434 | SCR_018675 | Pennington Genomics Core, Pennington Biomedical Research Center Genomics Core | 2026-02-16 09:49:30 | 0 | |||||
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Vermont University Proteomics Core Facility Resource Report Resource Website 10+ mentions |
Vermont University Proteomics Core Facility (RRID:SCR_018667) | service resource, core facility, access service resource | Provides central resource of mass spectrometry based proteomics technologies to identify, characterize and quantify target proteins in various biological and biomedical samples. Provides mass spectrometry expertise for analyzing proteins and peptides for proteomics studies, support for data analysis from proteomics measurements, training in proteomics methods, and experimental design. | USEDit, mass spectrometry, proteomics technology, protein, biomedical sample, protein analysis, peptide, measurement, experimental design, ABRF | is listed by: ABRF CoreMarketplace | NIGMS P20 GM103449 | Open | ABRF_44 | https://coremarketplace.org/?FacilityID=44 | https://vgn.uvm.edu/proteomics/ | SCR_018667 | UVM-Proteomics Facility, University of Vermont Proteomics Facility | 2026-02-16 09:49:30 | 11 | |||||
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University of New Hampshire University Instrumentation Center Core Facility Resource Report Resource Website |
University of New Hampshire University Instrumentation Center Core Facility (RRID:SCR_021101) | UIC | service resource, core facility, access service resource | University wide core facility offers NMR,SEM including FIB, EBS, EBSD, Tensile Stage,Confocal,X-Ray Photoelectron Spectroscopy,X-Ray Microscope aka Micro CT, Expert analysis of research and industrial samples,Training in scientific instrument operation and data analysis, Maintenance, repair, and calibration of instruments,Specialty instrument engineering design and application services,Facilitation of access to scientific instruments throughout the university. | USEDit, ABRF, ABRF | is listed by: ABRF CoreMarketplace | NIGMS GM113131; NSF 1429282; NSF 1828319; NSF 1337897; NSF OIA 1757371 |
open | ABRF_640 | https://coremarketplace.org/?FacilityID=640 | SCR_021101 | University Instrumentation Center, University of New Hampshire University Instrumentation Center | 2026-02-16 09:49:57 | 0 | |||||
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LABRAT Resource Report Resource Website 1+ mentions |
LABRAT (RRID:SCR_025006) | software application, software resource, source code | Software application to quantify usage of alternative polyadenylation and cleavage sites in RNAseq data and identify genes whose usage of these sites varies across experimental conditions. | quantify usage, alternative polyadenylation, cleavage sites, RNAseq data, identify genes, | NIGMS R35 GM133885; NIGMS R35 GM118051; RNA Bioscience Initiative at the University of Colorado Anschutz Medical Campus ; NIGMS T32 GM008730 |
DOI:10.1186/s12864-021-07781-1 | Free, Available for download, Freely available | SCR_025006 | Lightweight Alignment Based Resolution of Alternative Three prime ends | 2026-02-16 09:50:51 | 1 | ||||||||
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CRAPome Resource Report Resource Website 10+ mentions |
CRAPome (RRID:SCR_025008) | web service, data access protocol, database, software resource, data or information resource | Database of Mass Spectrometry contaminants and pipeline for Affinity Purification coupled with Mass Spectrometry analysis. Contaminant repository for affinity purification mass spectrometry data. Database of standardized negative controls. Used to identify protein-protein interactions. | Mass Spectrometry contaminants, standardized negative controls, contaminant repository, AP-MS analysis, affinity purification, mass spectrometry data, | NIGMS 5R01GM94231; NIDA DP1DA026192; NHLBI HL112618-01; Canadian Institutes of Health Research ; government of Ontario ; Austrian Academy of Sciences ; Austrian Federal Ministry for Science and Research ; European Research Council ; Austrian Science Fund ; European Molecular Biology Organisation ; Netherlands Proteomics Center ; European Union 7th Framework Program ; Stowers Institute for Medical Research ; Human Frontier Science Program ; NCI R21 CA16006001A1 |
PMID:23921808 | Free, Freely available, | https://reprint-apms.org/ | SCR_025008 | CRAPome:Contaminant Repository for Affinity Purification | 2026-02-16 09:50:57 | 16 | |||||||
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Cytoscape StringApp Resource Report Resource Website 10+ mentions |
Cytoscape StringApp (RRID:SCR_025009) | software application, software resource, source code | Software application for network analysis and visualization of proteomics data. Cytoscape app that makes it easy to import STRING networks into Cytoscape, retains appearance and many of features of STRING, and integrates data from associated databases. | protein networks, network analysis and visualization, proteomics data, | is a plug in for: STRING | Novo Nordisk Foundation ; Danish Council for Independent Research ; NIGMS P41 GM103504; Chan Zuckerberg Initiative ; Silicon Valley Community Foundation |
PMID:30450911 | Free, Available for download, Freely available | https://github.com/RBVI/StringApp | SCR_025009 | stringApp | 2026-02-16 09:50:50 | 28 | ||||||
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ReDU Resource Report Resource Website 1+ mentions |
ReDU (RRID:SCR_025105) | data access protocol, software resource, web service | Software framework to find and re-analyze public Mass Spectrometry data. Used to find uniformly formatted public MS/MS data in the Global Natural Product Social Molecular Networking Platform (GNPS) via formatted metadata. New or previously collected data can be added provided they adhere to the ReDU metadata standards (the implemented drag-and-drop validator is applicable to any scientific data) and data are available in GNPS/MassIVE. | Mass Spectrometry data, find uniformly formatted public MS/MS data, formatted metadata, Global Natural Product Social Molecular Networking Platform, GNPS, find and re-analyze public Mass Spectrometry data, ReDU metadata standards, data validator, | has parent organization: University of California at San Diego; California; USA | NIGMS P41 GM103484; NCI R03 CA211211; NIGMS R01 GM107550; Sloan Foundation ; Gordon and Betty Moore Foundation ; American Society for Mass Spectrometry ; NSF ; Netherlands eScience Center ; FAPESP ; Krupp Endowed Fund ; US Office of Naval Research ; University of California ; San Diego Center for Microbiome Innovation SEED grants |
PMID:32807955 | Free, Freely available | SCR_025105 | Reanalysis of Data User | 2026-02-16 09:50:52 | 1 | |||||||
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glmpca Resource Report Resource Website 1+ mentions |
glmpca (RRID:SCR_025517) | software toolkit, source code, software resource | Software R package for dimension reduction of non-normally distributed data. Generalized PCA for non-normally distributed data. | dimension reduction, non-normally distributed data, principal components analysis, | NCI T32CA009337; NHGRI R00HG009007; Chan-Zuckerberg Initiative ; NHGRI R01HG005220; NIGMS R01GM083084; NHGRI P41HG004059 |
PMID:31870412 | Free, Available for download, Freely available, | https://CRAN.R-project.org/package=glmpca | SCR_025517 | generalized version of principal components analysis | 2026-02-16 09:51:06 | 1 | |||||||
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Intercellular Junction Organization Quantification Resource Report Resource Website 1+ mentions |
Intercellular Junction Organization Quantification (RRID:SCR_026026) | IJOQ | software application, data processing software, data analysis software, source code, software resource | Software Python tool for fully automated analysis of cell-cell junction integrity. Used for fluorescence microscopy analysis. | automated analysis, cell-cell junction integrity, fluorescence microscopy analysis, | NIGMS 1SC2GM141988; California State University Program for Education and Research in Biotechnology Graduate Student COVID-19 Research Restart Program |
PMID:35755841 | Free, Available for download, Freely available | SCR_026026 | 2026-02-16 09:51:04 | 1 | ||||||||
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Mustache Resource Report Resource Website 1+ mentions |
Mustache (RRID:SCR_026110) | software application, software resource, source code | Software tool for multi-scale detection of chromatin loops from Hi-C and Micro-C contact maps in high resolutions (10kbp all the way to 500bp and even more). Used to detect chromatin loops caused by interaction of DNA segments with variable size. | detect chromatin loops, interaction of DNA segments, Hi-C, Micro-C, contact maps, | NIGMS R35 GM128938 | PMID:32998764 | Free, Available for download, Freely available | SCR_026110 | Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation | 2026-02-16 09:51:05 | 5 | ||||||||
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cooltools Resource Report Resource Website 10+ mentions |
cooltools (RRID:SCR_026118) | software toolkit, source code, software resource | Software suite of computational tools that enables flexible, scalable, and reproducible analysis of high-resolution contact frequency data. Provides suite of computational tools with paired python API and command line access, which facilitates workflows either on high-performance computing clusters or via custom analysis notebooks. As part of the Open2C ecosystem, cooltools also provides detailed introductions to key concepts in Hi-C-data analysis with interactive notebook documentation. | enables reproducible analysis, high-resolution contact frequency data, paired python API, | NIGMS R35 GM143116; NHGRI UM1 HG011536; NHGRI R01 HG003143 |
PMID:38709825 | Free, Available for download, Freely available | SCR_026118 | 2026-02-16 09:51:05 | 25 | |||||||||
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LongReadSum Resource Report Resource Website 1+ mentions |
LongReadSum (RRID:SCR_026408) | software application, software resource, source code | Software fast and flexible QC and signal summarization tool for long read sequencing data. | signal summarization, quality control, long read sequencing data, | NHGRI F31HG013259; NHGRI HG013359; NIGMS GM132713 |
PMID:39211184 | Free, Available for download, Freely available, | SCR_026408 | 2026-02-16 09:51:09 | 1 | |||||||||
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scvi-tools Resource Report Resource Website 10+ mentions |
scvi-tools (RRID:SCR_026673) | software application, data processing software, software toolkit, data analysis software, software library, source code, software resource | Software Python library for deep probabilistic analysis of single-cell and spatial omics data. Used for probabilistic modeling and analysis of single-cell omics data, built on top of PyTorch and AnnData. | probabilistic analysis, single-cell omics data, spatial omics data, | NIGMS R35GM124916; Chan-Zuckerberg Foundation ; NHGRI T32HG000047 |
PMID:35132262 | Free, Available for download, Freely available | https://github.com/scverse/scvi-tools | SCR_026673 | single-cell variational inference tools | 2026-02-16 09:51:12 | 31 |
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