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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.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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bam readcount Resource Report Resource Website 10+ mentions |
bam readcount (RRID:SCR_023653) | software application, software resource | Software tool that runs on BAM or CRAM file and generates low level information about sequencing data at specific nucleotide positions. Its outputs include observed bases, readcounts, summarized mapping and base qualities, strandedness information, mismatch counts, and position within the reads. | BAM file, CRAM file, sequencing data, nucleotide positions, | Edward P. Evans Foundation ; NCI 1U01CA209936; NCI K22CA188163; NCI P01CA101937; NCI R50CA211782; NCI U24CA237719; NHGRI R00 HG007940 |
PMID:34341766 | Free, Available for download, Freely available | SCR_023653 | bam-readcount | 2026-09-05 06:33:15 | 38 | ||||||||
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DeepNeuro Resource Report Resource Website 1+ mentions |
DeepNeuro (RRID:SCR_016911) | software resource, software toolkit | Software Python package for neuroimaging data. Framework to design and train neural network architectures. Used in medical imaging community to ensure consistent performance of networks across variable users, institutions, and scanners. | Design and train neural network architectures, medical imaging, neuroimaging data, neuroimaging |
uses: Python Programming Language is related to: Massachusetts General Hospital has parent organization: Harvard University; Cambridge; United States |
NCI U01 CA154601; NCI U24 CA180918; NCI U24 CA180927; NIBIB P41 EB015896; NIBIB T32 EB1680; NIBI ; NIDA R90 DA023427; NIDA T90 DA022759; NIH Blueprint for Neuroscience Research |
PMID:32578020 | Free, Available for download, Freely available | SCR_016911 | 2026-09-05 06:33:02 | 2 | ||||||||
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SYGNAL Resource Report Resource Website 1+ mentions |
SYGNAL (RRID:SCR_023080) | software resource, software toolkit | Software pipeline to integrate correlative, causal and mechanistic inference approaches into unified framework that systematically infers causal flow of information from mutations to TFs and miRNAs to perturbed gene expression patterns across patients. Used to decipher transcriptional regulatory networks from multi-omic and clinical patient data. Applicable for integrating genomic and transcriptomic measurements from human cohorts. | Integrating genomic and transcriptomic measurements, human cohorts, transcriptional regulatory networks, integrate correlative, causal and mechanistic inference, unified framework, infers causal flow of information, mutations to TFs, miRNAs to perturbed gene expression patterns across patients, | American Cancer Society Research Scholar Grant ; NCI U24CA143835; NIGMS P50GM076547; NIGMS R01GM077398; NSF ABI NSF-1262637; NSF DBI-0640950 |
PMID:27426982 | Free, Available for download, Freely available | SCR_023080 | SYstems Genetic Network AnaLysis | 2026-09-05 06:33:13 | 1 | ||||||||
|
Sanford Burnham Prebys Medical Discovery Institute Cancer Metabolism Core Facility Resource Report Resource Website |
Sanford Burnham Prebys Medical Discovery Institute Cancer Metabolism Core Facility (RRID:SCR_014873) | access service resource, core facility, service resource | Facility that aims to investigate role of metabolism in cancer on cellular and organismal level, combining in vitro and in vivo analysis. Comprehensive metabolic facility, including stable isotope tracing and flux analysis. Provides analysis of metabolism using specialist instruments and methodologies, together with advice on planning experiments and analyzing data. All instruments and approaches are available on fee-for-service basis to Cancer Center scientists, but alsoto outside users. Samples for most services can be shipped, but Seahorse analyzer users need to be local so they can bring live cells for analysis. | Cancer metabolism, cellular metabolism, metabolism analysis, ABRF |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: Sanford Burnham Prebys Medical Discovery Institute |
NCI P30CA030199 | Open | ABRF_565 | https://coremarketplace.org/?FacilityID=565 | http://www.sbpdiscovery.org/technology/sr/Pages/LaJolla_CancerMetabolism.aspx | SCR_014873 | SBP Cancer Metabolism Core, Sanford Burnham Prebys Medical Discovery Institute Cancer Metabolism Core, SBP Medical Discovery Institute Cancer Metabolism Core | 2026-09-05 06:34:00 | 0 | |||||
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Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) Resource Report Resource Website 10+ mentions |
Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) (RRID:SCR_014842) | SALK IGC, IGC | access service resource, core facility, service resource | Core facility established to assist the Salk community with integrating genomics data into their research. The primary focus of the core is to provide analysis support for next-generation sequencing applications. | core facility, gene, genomic, genomic data, analysis, consultation, applications | Helmsley Trust ; NCI CA014195; Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility |
Open | SCR_014842 | , Integrative Genomics, Salk, Core Facility, Institute, Razavi Newman, UCSD, Bioinformatics | 2026-09-05 06:34:00 | 38 | ||||||||
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RPPA Core Facility Resource Report Resource Website 10+ mentions |
RPPA Core Facility (RRID:SCR_016649) | RPPA | access service resource, core facility, service resource | Core provides technology for functional proteomics studies and centralized, standardized and quality controlled services locally and globally. | technology, functional, proteomics, studies, centralized, standardized, quality, controlled, service | has parent organization: University of Texas MD Anderson Cancer Center | NCI CA16672 | Commercially available, Registration required | SCR_016649 | MD Anderson RPPA Core, RPPA, Reverse Phase Protein Array Core, Reverse Phase Protein Array (RPPA) Core | 2026-09-05 06:34:09 | 45 | |||||||
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University of Texas MD Anderson Cancer Center Proteomics Core Facility Resource Report Resource Website |
University of Texas MD Anderson Cancer Center Proteomics Core Facility (RRID:SCR_017731) | access service resource, core facility, service resource | Facility provides mass spectrometry analysis of proteins. Provides access to mass spectrometry based proteomics technologies and services including Protein Identification, Molecular Weight Determination, Quantitative Protein Analysis, Post-translational Modification Analysis, LC or LC-MS Analysis, Equipment Usage, Additional Data Analysis:Bioinformatics, statistics, pathway analysis and Assistance preparing materials for manuscripts or grants.Consultations for custom assays for other MS Services are also available. | Mass, spectrometry, analysis, protein, proteomics, service | NCI P30 CA016672; NIH Office of the Director S10 OD012304 |
Open | ABRF_186 | SCR_017731 | Proteomics Facility | 2026-09-05 06:34:11 | 0 | ||||||||
|
Chicago University Cytometry and Antibody Technology Core Facility Resource Report Resource Website 50+ mentions |
Chicago University Cytometry and Antibody Technology Core Facility (RRID:SCR_017760) | CAT Facility | access service resource, core facility, service resource | Core offers services in cytometry and antibody technology, helps to design projects, data acquisition, analysis and/or interpretation beyond routine practices,critical drafting and/or revision of manuscript for intellectual content purposes. | Cytometry, antibody, technology, project, design, data, acquisition, analysis, service, core | NCI P30 CA014599 | Open | ABRF_293 | SCR_017760 | Cytometry and Antibody Technology Core Facility | 2026-09-05 06:34:11 | 72 | |||||||
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North Carolina University at Chapel Hill School of Medicine High Throughput Peptide Synthesis and Array Core Facility Resource Report Resource Website 1+ mentions |
North Carolina University at Chapel Hill School of Medicine High Throughput Peptide Synthesis and Array Core Facility (RRID:SCR_017837) | access service resource, core facility, service resource | Core offers services for: High quality synthetic peptides, stable isotope labeled peptides, peptides with PTM and fluorescent and affinity tags, synthesis of peptide libraries. Analysis of synthetic peptides. Purification, lyophilization and aliquoting of synthetic peptides. | Synthetic, peptide, stable, isotope, labeled, library, analysis, purification, lyophilization, aliquoting, service, core, ABRF | is listed by: ABRF CoreMarketplace | NCI P30 CA016086 | Open | ABRF_626 | SCR_017837 | UNC High-Throughput Peptide Synthesis and Array Facility | 2026-09-05 06:34:13 | 8 | |||||||
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North Carolina University at Chapel Hill School of Medicine Macromolecular X-Ray Crystallography Core Facility Resource Report Resource Website |
North Carolina University at Chapel Hill School of Medicine Macromolecular X-Ray Crystallography Core Facility (RRID:SCR_017839) | MX Facility | access service resource, core facility, service resource | Core provides support and infrastructure necessary to initiate and successfully complete structural biology or structural chemistry project. Offers services in Crystallization,X-Ray DiffractionData Collection,Structure Determination and Refinement. | Structural, biology, chemistry, X-ray, crystallography, diffraction, data, collection, refinement, service, core, ABRF | is listed by: ABRF CoreMarketplace | NCI P30 CA016086 | Open | ABRF_629 | SCR_017839 | Macromolecular X-Ray Crystallography | 2026-09-05 06:34:13 | 0 | ||||||
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University of North Carolina at Chapel Hill Microscopy Services Laboratory Core Facility Resource Report Resource Website 1+ mentions |
University of North Carolina at Chapel Hill Microscopy Services Laboratory Core Facility (RRID:SCR_017913) | MSL | access service resource, core facility, service resource | Core provides training, assistance and services in light microscopy, electron microscopy and image analysis. UNC core facility that is part of Department of Pathology and Laboratory Medicine, and are light microscopy core for Lineberger Comprehensive Cancer Center. | Light, microscopy, electron, image, analysis, instrument, service, core, ABRF | is listed by: ABRF CoreMarketplace | NCI P30 CA016086; North Carolina Biotech Center Institutional Support Grant |
Open | ABRF_790 | SCR_017913 | Microscopy Services Laboratory | 2026-09-05 06:34:15 | 2 | ||||||
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Northwestern University Developmental Therapeutics Core Facility Resource Report Resource Website 1+ mentions |
Northwestern University Developmental Therapeutics Core Facility (RRID:SCR_017948) | DTC | access service resource, core facility, service resource | Core evaluates therapeutic agents and diagnostics, as well as existing therapeutics being considered for novel uses, through continued development and deployment of relevant animal models and in vitro cell lines and tissue models. Provides services to investigators to suit many needs, including those who may lack laboratory facilities and/or expertise for conducting experiments associated with preclinical therapeutic hypothesis testing.Services include Proliferation and Apoptosis Assays, Therapy-Response Experiments, Exploratory PK and Tox, Device Implantation and Monitoring,PDX Models,Immunization. | Evaluate, therapeutic, agent, diagnostic, novel, animal, model, development, in vitro, cell, line, tissue, testing, proliferation, apoptosis, assay, therapy, response, immunization, service, core, ABRF |
is listed by: ABRF CoreMarketplace has parent organization: Northwestern University; Illinois; USA |
NCI CA060553 | Open | ABRF_947 | https://coremarketplace.org/?FacilityID=947&citation=1 | https://cdt.northwestern.edu/core-services/ | SCR_017948 | Developmental Therapeutics Core | 2026-09-05 06:34:16 | 3 | ||||
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Northwestern University Proteomics Core Facility Resource Report Resource Website 10+ mentions |
Northwestern University Proteomics Core Facility (RRID:SCR_017945) | access service resource, core facility, service resource | Core offers multiple types of experiments from simple protein identification to protein quantitation. Performs traditional bottom-up proteomics, where proteins are digested with enzyme prior to analysis and intact, top-down proteomics analyses. Services include proteins identification after in-gel or in-solution digestion, top-down mass spectrometry to preserve post-translationally modified forms of proteins present in vivo by measuring them intact, IP-MS Pulldown,BioID service to identify target of biotin ligase that has been tagged onto their protein via traditional cloning methods,Untargeted Quantitative Peptide Proteomics,Targeted Quantitative Peptide Proteomics,Epiproteomic Histone Modification Panel A,Epiproteomic Histone Modification Panel B,Untargeted Metabolomics,Phosphoproteomics,PTM Scan,ChIP-MS. | Protein, indentification, quantitation, proteomics, analysis, enzyme, digestion, mass, spectrometry, peptide, targeted, epiproteomic, histone, modification, untargeted, phosphoproteomics, PTM Scan, ChIP-MS, service, core, ABRF |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: Northwestern University; Illinois; USA |
NCI P30 CA060553; NIGMS P41 GM108569; NIH Office of the Director S10 OD025194 |
Open | SCR_017880, ABRF_944 | https://coremarketplace.org/?FacilityID=944 | https://coremarketplace.org/?FacilityID=738 | SCR_017945 | Northwestern Proteomics, Northwestern University Proteomics Center of Excellence Core Facility | 2026-09-05 06:34:16 | 10 | |||||
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Nationwide Children’s Hospital Abigail Wexner Research Institute Biopathology Center Core Facility Resource Report Resource Website |
Nationwide Children’s Hospital Abigail Wexner Research Institute Biopathology Center Core Facility (RRID:SCR_023260) | CHTN | access service resource, core facility, service resource | Provides services related to biospecimen procurement, banking, processing, and distribution. Housed biospecimen collections are from biorepositories of National Cancer Institute funded Children’s Oncology Group, NRG Oncology-Columbus (formerly the GOG Tissue Bank), SWOG, Pediatric Division of Cooperative Human Tissue Network, and Biospecimen Core Resource of Center for Cancer Genomics, as well as numerous biospecimen collections sponsored by funded NCH investigators. Cooperative Human Tissue Network is one of six institutions funded by National Cancer Institutes to access to remnant human tissues for biomedical researchers throughout the United States and Canada. Offers expertise in tissue preparation and preservation to meet the research needs of basic and applied scientists. | Cooperative Human Tissue Network, biospecimen procurement, biospecimen banking, biospecimen processing, biospecimen distribution. | NCI UM1CA239754 | Open | SCR_023260 | 2026-09-05 06:34:33 | 0 | |||||||||
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University of California Davis Health Biostatistics Shared Resource Core Facility Resource Report Resource Website |
University of California Davis Health Biostatistics Shared Resource Core Facility (RRID:SCR_023585) | BSR | access service resource, core facility, service resource | Provides expertise in design, analysis and reporting of cancer related studies, including basic, translational, clinical and population based research. BSR affiliated faculty and staff work with investigators from the earliest stages of study planning. The shared resource is especially committed to mentoring early career cancer researchers. | USEDit, ABRF, cancer related studies, biostatistics |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of California at Davis; California; USA |
NCI P30CA093373 | ABRF_1766 | https://coremarketplace.org/?FacilityID=1766&citation=1 | SCR_023585 | University of California, Davis UC Davis Biostatistics Shared Resource, UC Davis Biostatistics Shared Resource | 2026-09-05 06:34:36 | 0 | ||||||
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University of California Davis Health Combinatorial Chemistry and Chemical Biology Shared Resource Core Facility Resource Report Resource Website |
University of California Davis Health Combinatorial Chemistry and Chemical Biology Shared Resource Core Facility (RRID:SCR_023584) | CCCBSR | access service resource, core facility, service resource | Provides high throughput screening platform to discover unique chemical probes against biological targets using various one bead one compound and one bead two compound combinatorial libraries.Interacts closely with resource users on optimization of the lead compounds via focused libraries and standard medicinal chemistry techniques. Provides custom synthesis of telodendrimer based micellar nanoparticle platform for efficient drug delivery. | USEDit, ABRF, high throughput screening, discover unique chemical probes against biological targets, custom synthesis of telodendrimer based micellar nanoparticle, drug delivery, |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of California at Davis; California; USA |
NCI P30CA093373 | ABRF_1767 | https://coremarketplace.org/?FacilityID=1767&citation=1 | SCR_023584 | Davis UC Davis Combinatorial Chemistry & Chemical Biology Shared Resource, UC Davis Combinatorial Chemistry & Chemical Biology Shared Resource, University of California | 2026-09-05 06:34:36 | 0 | ||||||
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University of California Davis Health Molecular Pharmacology Shared Resource Core Facility Resource Report Resource Website |
University of California Davis Health Molecular Pharmacology Shared Resource Core Facility (RRID:SCR_023588) | MPSR | access service resource, core facility, service resource | Provides services to support the development and implementation of clinical trials at UC Davis Comprehensive Cancer Center. Oversees high quality collection, processing, and analysis of clinical specimens,typically but not exclusively blood specimens, for pharmacokinetic and pharmacodynamics studies. Conducts preclinical modeling of novel anti cancer agents to test hypotheses and develop scientific rationale required for translation of laboratory concepts into clinical trials, including assessment of DM/PK/PD properties. | USEDit, ABRF, development and implementation of clinical trials, clinical specimens, blood specimens, preclinical modeling of novel anti cancer agents, |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of California at Davis; California; USA |
NCI P30CA093373 | Restricted | ABRF_1771 | https://coremarketplace.org/?FacilityID=1771&citation=1 | SCR_023588 | UC Davis Molecular Pharmacology Shared Resource, Davis UC Davis Molecular Pharmacology Shared Resource, University of California | 2026-09-05 06:34:36 | 0 | |||||
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Stanford University School of Medicine Cancer Institute Biostatistics Shared Resource Core Facility Resource Report Resource Website 1+ mentions |
Stanford University School of Medicine Cancer Institute Biostatistics Shared Resource Core Facility (RRID:SCR_023696) | BSR | access service resource, core facility, service resource | Core provides statistical support to SCI members by engages them on their data related needs. Specifically, BSR members assist researchers at each stage of study’s lifecycle, including project design, mid study evaluation and interpretation and reporting of results. In addition, BSR members mentor SCI investigators in research methods. BSR assists with development and review of proposed studies and planning of research related data management systems. | ABRF, USEDit, statistical support, project design, mid study evaluation and interpretation, results reporting, |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: Stanford University; Stanford; California |
NCI | Restricted | ABRF_2509 | https://coremarketplace.org/?FacilityID=2509&citation=1, https://coremarketplace.org/RRID:SCR_023696?citation=1 | SCR_023696 | , Stanford Cancer Institute Biostatistics Shared Resource, Stanford Biostatistics Shared Resource | 2026-09-05 06:34:36 | 1 | |||||
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ichorCNA Resource Report Resource Website 10+ mentions |
ichorCNA (RRID:SCR_024768) | simulation software, software application, software resource | Software tool that quantifies tumor content in cfDNA from 0.1× coverage whole-genome sequencing data without prior knowledge of tumor mutations. Used to simultaneously segment genome, predict large scale copy number alterations, and estimate tumor fraction of ultra low pass whole genome sequencing sample. | quantify tumor content, simultaneously segment genome, predict large scale copy number alterations, estimate tumor fraction, ultra low pass whole genome sequencing sample, | has parent organization: Broad Institute | Canadian Institutes for Health Research Postdoctoral Fellowship ; Gerstner Family Foundation ; NCI P30 CA14051 |
PMID:29109393 | Free, Available for download, Freely available | SCR_024768 | 2026-09-05 06:34:41 | 32 | ||||||||
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University of Nebraska Medical Center Advanced Microscopy Core Facility Resource Report Resource Website 10+ mentions |
University of Nebraska Medical Center Advanced Microscopy Core Facility (RRID:SCR_022467) | access service resource, core facility, service resource | Facility houses imaging technologies ranging from super resolution (~ 0.120 um to 0.020 um) to microscopic (~ 0.300 um) to mesoscopic (~ 1 um) biomedical imaging. Imaging specialists provide training and/or actively assist researchers collecting images across imaging instrumentation. Instrumentation includes Zeiss ELYRA PS.1 is inverted microscope for super resolution (SR) structured illumination microscopy (SIM) and single molecule localization microscopy (SMLM) including, PhotoActivated Localization Microscopy (PALM) using photo switchable/convertible fluorescent proteins, Total Internal Reflection Fluorescence (TIRF) and STochastic Optical Reconstruction Microscopy (STORM);Zeiss 800 CLSM with Airyscan is an inverted microscope dramatically increasing conventional confocal image resolution to ~180 nm using Airyscan technology; Zeiss 710 LSM is inverted microscope supporting most basic imaging applications, multi channel and spectral, co localization, live cell, 3D, and time series imaging; Zeiss Celldiscoverer 7 is widefield imaging system for automated, time lapse imaging of live samples; Zeiss Axioscan 7 is high performance whole slide scanning system for fluorescence, brightfield, and polarization imaging;Miltenyi Biotec Ultramicroscope II Light Sheet fluorescence microscope (LSFM) extends fluorescent imaging into true 3D, large scale volumetric imaging of intact tissues, organs, and small organisms. AMCF also houses several high-end data analysis workstations with premier image analysis software including HALO (Indica Labs) and IMARIS (Oxford Instruments) facilitating data rendering, analyses, and presentation options. | USEDit, ABRF, biomedical imaging, microscopy |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of Nebraska; Nebraska; USA |
NCI CA036727; NCRR RR027301; NIGMS GM103427; NIGMS GM106397; NIH Office of the Director OD030486 |
open | ABRF_1375 | https://coremarketplace.org/?FacilityID=1375&citation=1 | SCR_022467 | UNMC Advanced Microscopy Core Facility | 2026-09-05 06:34:27 | 23 |
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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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