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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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GTestimate Resource Report Resource Website 1+ mentions |
GTestimate (RRID:SCR_026562) | data processing software, software application, software resource | Software R package for scRNA-seq normalization. Uses Simple Good-Turing estimator for the per cell relative gene expression estimation. | scRNA-seq, normalization, Good-Turing estimation, scRNA-seq normalization, gene expression estimation, | European Commission ; Austrian Science Fund |
DOI:10.1101/2024.07.02.601501 | Free, Available for download, Freely available | SCR_026562 | 2026-08-14 09:29:28 | 2 | |||||||||
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phenoimager2mc Resource Report Resource Website 1+ mentions |
phenoimager2mc (RRID:SCR_026561) | software application, software resource, source code | Software tool for formatting PhenoImager TIFF/OME-TIFF metadata for compatibility with MCMICRO workflow. | formatting PhenoImager TIFF/OME-TIFF metadata, compatibility with MCMICRO workflow, | Free, Available for download, Freely available | SCR_026561 | 2026-08-14 09:29:48 | 1 | |||||||||||
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HiGlass Resource Report Resource Website 10+ mentions |
HiGlass (RRID:SCR_026687) | software resource, web application, source code | Web-based visual exploration and analysis of genome interaction maps. | visual exploration and analysis, genome interaction maps, | NCI U01CA200059; NHGRI R00 HG007583; NHGRI U54 HG007963 |
PMID:30143029 | Free, Available for download, Freely available | SCR_026687 | 2026-08-14 09:29:20 | 45 | |||||||||
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University of Michigan Medical School BRCF Microscopy Core Facility Resource Report Resource Website 1+ mentions |
University of Michigan Medical School BRCF Microscopy Core Facility (RRID:SCR_026722) | service resource, access service resource, core facility | Offers microscopy instrumentation and services. Offers support and training on variety of high-end instrumentation and advanced methodologies for both light and electron microscopy, sample preparation services for electron microscopy, training and assistance with image analysis. Provides support across variety of open-source and commercial image analysis software packages. | ABRF, microscopy instrumentation and services, light and electron microscopy, sample preparation, training and assistance with image analysis, |
is listed by: ABRF CoreMarketplace has parent organization: University of Michigan; Ann Arbor; USA |
ABRF_3194 | https://coremarketplace.org/RRID:SCR_026722/?citation=1 | SCR_026722 | , University of Michigan Medical School BRCF Microscopy Core, University of Michigan BRCF Microscopy Core | 2026-08-14 09:29:49 | 4 | ||||||||
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University of Michigan Medical School BRCF Metabolomics Core Facility Resource Report Resource Website 1+ mentions |
University of Michigan Medical School BRCF Metabolomics Core Facility (RRID:SCR_026721) | service resource, access service resource, core facility | Offers full-service sample analysis to measure concentrations of small molecules in biological samples. Services include targeted and untargeted metabolomic screening, method development to explore novel metabolic pathways and systems. Staff helps with interpretation and visualization of your data, and the preparation of grants, proposals, and manuscripts. | ABRF, concentrations of small molecules measurement, targeted and untargeted metabolomic screening, metabolomic screening, |
is listed by: ABRF CoreMarketplace has parent organization: University of Michigan; Ann Arbor; USA |
ABRF_3193 | https://coremarketplace.org/RRID:SCR_026721/?citation=1 | SCR_026721 | , University of Michigan BRCF Metabolomics Core, University of Michigan BRCF Metabolomics Core Facility | 2026-08-14 09:29:21 | 1 | ||||||||
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Automated Projection Pursuit Resource Report Resource Website 1+ mentions |
Automated Projection Pursuit (RRID:SCR_026560) | APP | software application, software resource, source code | Software tool for automated projection pursuit clustering. Alternative clustering approach that alleviates the curse of dimensionality by sequentially projecting high-dimensional data into a low-dimensional representation. | automated projection pursuit clustering, projecting high-dimensional data, low-dimensional representation, | Free, Available for download, Freely available | SCR_026560 | 2026-08-14 09:29:18 | 1 | ||||||||||
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Benaroya Research Institute Genomics Core Facility Resource Report Resource Website 1+ mentions |
Benaroya Research Institute Genomics Core Facility (RRID:SCR_026658) | service resource, access service resource, core facility | Core provides services for genomics analysis, from sample processing through data generation. Available technologies focus on Illumina RNA and DNA sequencing. RNA-seq can be performed from a variety of sample types, including purified total RNA, cell populations (including low input samples of 50-1000 cells), or single cells (either plate-sorted rare populations or high-throughput 10x single-cell analyses). DNA-seq pipelines can also be performed, including bulk CUT and Tag/CUT and RUN, and ATAC-seq and single cell ATACseq and multiome capture. Custom prepared libraries can also be submitted for sequencing. Core laboratory houses Illumina sequencers, NextSeq2000 instruments and Miseq, plus 10x Chromium X and 10x CytAssist. Additional equipment includes ThermoFisher Kingfisher Flex, for extracting nucleic acid from variety of sample types using magnetic bead technology with throughput of up to 96 samples. Qiagen QIAcube Connect instruments automate extraction of nucleic acid using spin column technology. Ancillary equipment for sample processing includes Formulatrix Mantis Liquid Handler, Agilent TapeStation 4200 and Tecan NanoQuant. | ABRF, genomics analysis, sample processing, data generation, |
is listed by: ABRF CoreMarketplace has parent organization: Benaroya Research Institute |
ABRF_3104 | https://coremarketplace.org/?FacilityID=3104&citation=1 | SCR_026658 | , BRI Genomics Core, Benaroya Research Institute BRI Genomics Core | 2026-08-14 09:29:49 | 7 | ||||||||
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Cancer Research Institute IFOM ALM Advanced Light Microscopy Core Facility Resource Report Resource Website 1+ mentions |
Cancer Research Institute IFOM ALM Advanced Light Microscopy Core Facility (RRID:SCR_026866) | service resource, access service resource, core facility | Core Facility provides technological platforms in the field of light microscopy. A team of highly qualified and experienced professionals supports IFOM's research activities, assisting in sample preparation and acquisition, data post-processing and image analysis. | ABRF, light microscopy, sample preparation and acquisition, data post-processing, image analysis, |
is listed by: ABRF CoreMarketplace has parent organization: IFOM ETS - The AIRC Institute of Molecular Oncology; Milan; Italy |
ABRF_3226 | https://coremarketplace.org/?FacilityID=3226&citation=1 | SCR_026866 | IFOM ALM - Advanced Light Microscopy Core Facility | 2026-08-14 09:29:50 | 3 | ||||||||
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IPUMS Health Surveys Resource Report Resource Website 1+ mentions |
IPUMS Health Surveys (RRID:SCR_026762) | data or information resource, portal, organization portal | Integrated Public Use Microdata Series Health Surveys provide free individual-level survey data for research purposes from two leading sources of self-reported health and health care access information: the National Health Interview Survey (NHIS) and the Medical Expenditure Panel Survey (MEPS). | self-reported health data, health care data, National Health Interview Survey, Medical Expenditure Panel Survey, | Free, Freely available | SCR_026762 | Integrated Public Use Microdata Series Health Surveys | 2026-08-14 09:29:32 | 3 | ||||||||||
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WebWarp Resource Report Resource Website 1+ mentions |
WebWarp (RRID:SCR_026759) | source code, web application, software resource | Web application for nonlinear refinement of image registration after WebAlign. | Nonlinear refinement, 2D, 3D, registration, quantitative analysis, image registration, | is related to: SeriesZoom | H2020-EU FPA 650003 | DOI:10.3389/fninf.2025.1629388 | Free, Available for download, Freely available | https://webwarp.readthedocs.io/en/latest/index.html | SCR_026759 | 2026-08-14 09:29:22 | 1 | |||||||
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WebAlign Resource Report Resource Website 1+ mentions |
WebAlign (RRID:SCR_026758) | source code, web application, software resource | Web application for 2D image registration to 3D atlas. Used for user guided affine spatial registration (anchoring) of sectional image data, typically high resolution histological images, to 3D reference atlas space. Can generate user defined cut planes through atlas templates that match orientation of cutting plane of 2D experimental images (atlas maps). | 2D image registration, 3D atlas, affine spatial registration, sectional image data, histological images, 3D reference atlas space, | is related to: SeriesZoom | H2020-EU FPA 650003 | DOI:10.3389/fninf.2025.1629388 | https://webalign.readthedocs.io/en/latest/index.html | SCR_026758 | 2026-08-14 09:29:32 | 1 | ||||||||
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projecTILs Resource Report Resource Website 10+ mentions |
projecTILs (RRID:SCR_026854) | source code, software application, software resource | Software tool to project scRNA-seq data into reference single-cell atlases, enabling their direct comparison in stable, annotated system of coordinates. Predicts effects of cell perturbations and identifies gene programs that are altered in different conditions and tissues. Used for interpretation of cell states using reference single-cell maps. | Predict effects of cell perturbatio, project scRNA-seq data into reference single-cell atlases, identifies gene programs, interpretation of cell states, reference single-cell maps, | Swiss National Science Foundation | PMID:34017005 | Free, Available for download, Freely available | SCR_026854 | 2026-08-14 09:29:50 | 40 | |||||||||
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University of Michigan Medical School Central Biorepository Core Facility Resource Report Resource Website 1+ mentions |
University of Michigan Medical School Central Biorepository Core Facility (RRID:SCR_026845) | service resource, access service resource, core facility | Core provides annotated biospecimens for basic, clinical, and translational research. Helps researchers access, collect, manage, and protect biospecimens using automated processes and quality control. Offers safe and monitored management of biospecimens including temperature-controlled storage, preparation of derivatives from these specimens, aliquoting, distribution, and production of specimen collection kits. | ABRF, annotated biospecimens, access, collect, manage, protect biospecimens, |
is listed by: ABRF CoreMarketplace has parent organization: University of Michigan; Ann Arbor; USA |
Restricted | ABRF_3210 | https://coremarketplace.org/RRID:SCR_026845/?citation=1 | SCR_026845 | , University of Michigan Medical School Central Biorepository, University of Michigan Central Biorepository | 2026-08-14 09:29:33 | 7 | |||||||
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Cancer Research Institute IFOM CERD Cancer Engineering R&D Core Facility Resource Report Resource Website 1+ mentions |
Cancer Research Institute IFOM CERD Cancer Engineering R&D Core Facility (RRID:SCR_026862) | service resource, access service resource, core facility | Core focuses on development of innovative biomedical technologies and devices for cancer research as well as biomedical applications using microfabrication and 3D printing. | ABRF, biomedical technologies development, devices development, cancer engineering, microfabrication and 3D printing, |
is listed by: ABRF CoreMarketplace has parent organization: IFOM ETS - The AIRC Institute of Molecular Oncology; Milan; Italy |
ABRF_3225 | https://coremarketplace.org/?FacilityID=3225&citation=1 | SCR_026862 | IFOM CERD - Cancer Engineering R&D Core Facility | 2026-08-14 09:29:24 | 4 | ||||||||
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Cancer Research Institute IFOM CPM Cellular And Preclinical Models Core Facility Resource Report Resource Website 1+ mentions |
Cancer Research Institute IFOM CPM Cellular And Preclinical Models Core Facility (RRID:SCR_026864) | service resource, access service resource, core facility | Specialized laboratory designed for growth, maintenance, and experimentation of living cells under controlled conditions. This facility is used in various fields such as biomedical research, drug development, and supports the culture of primary cells, immortalized cell lines, human-induced pluripotent stem cells (hiPSCs), and organoids, among others. | ABRF, living cells, primary cells, immortalized cell lines, human-induced pluripotent stem cells (hiPSCs), organoids |
is listed by: ABRF CoreMarketplace has parent organization: IFOM ETS - The AIRC Institute of Molecular Oncology; Milan; Italy |
ABRF_3222 | https://coremarketplace.org/?FacilityID=3222&citation=1 | SCR_026864 | IFOM CPM - Cellular And Preclinical Models Core Facility | 2026-08-14 09:29:34 | 1 | ||||||||
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RectChr Resource Report Resource Website 10+ mentions |
RectChr (RRID:SCR_026859) | source code, software application, software resource | Software tool for multi-level visualization of genomic statistical variables on rectangular chromosomes. | multi-level visualization, genomic statistical variables, rectangular chromosomes, | Free, Available for downoad, Freely available | SCR_026859 | 2026-08-14 09:29:24 | 14 | |||||||||||
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DNA Methylation Age Calculator Resource Report Resource Website 10+ mentions |
DNA Methylation Age Calculator (RRID:SCR_026822) | portal, web service, data or information resource, data access protocol, software resource | Web portal contains information on how to calculate DNA methylation (DNAm) age based on data measured using the Illumina Infinium platform. | calculate DNA methylation age, DNAm age, Illumina Infinium data, | Restricted | SCR_026822 | 2026-08-14 09:29:24 | 47 | |||||||||||
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brainageR Resource Report Resource Website 10+ mentions |
brainageR (RRID:SCR_026826) | source code, software application, software resource | Software R tool for generating brain-predicted age value, using Gaussian Processes regression. Used for generating brain-predicted age value from raw T1-weighted MRI scan. | generating brain-predicted age value, raw T1-weighted MRI scan, | Free, Available for download, Freely available | SCR_026826 | 2026-08-14 09:29:24 | 34 | |||||||||||
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OLINDA/EXM Resource Report Resource Website 10+ mentions |
OLINDA/EXM (RRID:SCR_026835) | software application, software resource | Software to evaluate mean absorbed doses to organs and tumors in radionuclide images, providing simple and fast solution for radionuclide imaging and treatment of new drugs in clinical trials. Calculates radiation doses to organs and the whole body based on established human body models. | Calculate radiation doses, evaluate mean absorbed doses to organs and tumors, radionuclide images, clinical trials, | PMID:15937315 PMID:36780284 |
Restricted | SCR_026835 | , Organ Level INternal Dose Assessment/EXponential Modeling, OLINDA/EXM 2, Hermes Medical Solutions OLINDA/EXM | 2026-08-14 09:29:33 | 12 | |||||||||
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kraken2 Resource Report Resource Website 1000+ mentions |
kraken2 (RRID:SCR_026838) | source code, software application, software resource | Software tool as second version of Kraken taxonomic sequence classification system. | taxonomic sequence classification system, taxonomic, sequence, classification system, | NSF ; NIGMS R01 GM118568; NIGMS R35 GM130151 |
PMID:31779668 | Free, Available for download, Freely available | SCR_026838 | 2026-08-14 09:29:50 | 1421 |
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