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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Human Atlas of Neonatal Development and Early Life Immunity Resource Report Resource Website 1+ mentions |
Human Atlas of Neonatal Development and Early Life Immunity (RRID:SCR_021947) | HANDEL-I | data or information resource, portal, project portal | HANDEL-1 program to better understand normal human immune development by acquiring stromal and mucosal tissues from infant and pediatric organ donors and to create novel and essential dataset informing immune system development in collaborative research project that leverages shared access to various tissues in conjunction with existing HANDEL-P program that seeks to understand development of pancreas and islet microenvironment in early life. | T1D, normal human immune development, stromal and mucosal tissues, infant and pediatric organ donors, dataset, pancreas development, islet microenvironment | has parent organization: University of Florida; Florida; USA | Type 1 Diabetes | Free, Freely available | SCR_021947 | Human Atlas of Neonatal Development and Early-Life Immunity | 2026-08-13 09:30:38 | 4 | |||||||
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BrainGlobe project Resource Report Resource Website 1+ mentions |
BrainGlobe project (RRID:SCR_021481) | data or information resource, portal, project portal | Project is related to working with atlas data from multiple species on common platform.Provides collection of Python tools for working with atlas data from multiple species on common platform and for morphological analyses in systems neuroscience. | Atlas data from multiple species, atlas data on common platform, morphological analyses, systems neuroscience, OpenBehavior | is listed by: OpenBehavior | Free, Freely available | SCR_021481 | BrainGlobe | 2026-08-13 09:30:42 | 2 | |||||||||
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Brain heatmap Resource Report Resource Website 10+ mentions |
Brain heatmap (RRID:SCR_023815) | data or information resource, portal, project portal | Custom Brain Heatmaps on top of the Allen Brain Atlas. Platform to generate brain heatmaps for the human or mouse brain ontop of the Allen Brain Atlas by editing google spreadsheet template with specific brain region and gene information. | Allen Mouse Brain Reference Atlas, Human Brain Reference Atlas, | is related to: Allen Institute for Brain Science | Free, Freely available | https://github.com/LiorKirsch/brain-heatmap-web, https://github.com/LiorKirsch/brain-heatmap | SCR_023815 | 2026-08-13 09:31:09 | 34 | |||||||||
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Hydractinia Genome Project Portal Resource Report Resource Website 10+ mentions |
Hydractinia Genome Project Portal (RRID:SCR_022602) | data or information resource, portal, project portal | Portal provides genomic and transcriptomic data for researchers interested in Hydractinia genomics and molecular biology. Includes browsers for the H. symbiolongicarpus and H. echinata genome assemblies and interactive interface for interrogating H. symbiolongicarpus single cell gene expression atlas. Provides gene pages with functional annotation data for every gene model for both species, including protein domain composition and orthology predictions. | Hydractinia genomic and transcriptomic data, functional annotation data, gene model, protein domain composition, orthology predictions | Free, Freely available | SCR_022602 | NHGRI Hydractinia Genome Project Portal | 2026-08-13 09:30:49 | 17 | ||||||||||
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SCORCH Resource Report Resource Website 1+ mentions |
SCORCH (RRID:SCR_022600) | data or information resource, portal, project portal | Data coordination, analysis, and scientific outreach center to standardize and share single cell molecular HIV/SUD data by ensuring that data is FAIR. Program with mission of generating resources that would enable comprehensive tissue characterization at single cell level. This includes generating single nucleus transcriptomic data for identification of novel rare cell types, and enrichment of key cellular populations to inform pathophysiological understanding of CNS effects of SUD and HIV. Interdisciplinary effort, involving teams of investigators at ten institutions including Yale, Boston University, Mount Sinai, University of Nebraska Medical Center, Broad Institute, University of California San Diego, Weill Cornell Medicine, Allen Institute, Scripps Research as well as a Data Coordination Center hosted at Institute for Genome Sciences, University of Maryland Baltimore School of Medicine. | FAIR data, standardize and share single cell molecular HIV/SUD data, tissue characterization at single cell level, single nucleus transcriptomic data, novel rare cell types, HIV, SUD |
is related to: ATAC Pipeline has organization facet: Multiome Pipeline |
Free, Freely available | SCR_022600 | Single Cell Opioid Responses in the Context of HIV | 2026-08-13 09:30:36 | 5 | |||||||||
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Automated Classification of Self-grooming in Mice project Resource Report Resource Website 1+ mentions |
Automated Classification of Self-grooming in Mice project (RRID:SCR_021597) | data or information resource, portal, project portal | Portal provides protocol that implements JAABA, open source machine learning based behavior detection system; motr, open-source mouse trajectory tracking software; and bonsai, open source system capable of streaming and recording video. Together they use these tools to process videos of mice performing grooming behaviors in variety of behavioral setups. | grooming behavior, behavior detection protocol, JAABA behavior detection system, motr mouse trajectory tracking software, bonsai streaming and recording video, OpenBehavior | is listed by: OpenBehavior | DOI:10.1016/j.jneumeth.2017.05.026 | Free, Freely available | SCR_021597 | Automated Classification of Self-grooming in Mice | 2026-08-13 09:30:33 | 1 | ||||||||
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Calcium Imaging data Analysis project Resource Report Resource Website 1+ mentions |
Calcium Imaging data Analysis project (RRID:SCR_021477) | CaImAn | data or information resource, portal, project portal | Project related to calcium imaging.Provides software library, CaImAn, for one and two-photon Calcium Imaging data Analysis. | calcium imaging analysis, movie handling, motion correction, source extraction, spike deconvolution, result visualization, OpenBehavior |
is listed by: OpenBehavior is related to: Calcium Imaging data Analysis |
DOI:10.7554/elife.38173 | Free, Freely available | SCR_021477 | Calcium Imaging data Analysis | 2026-08-13 09:30:24 | 2 | |||||||
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neuronal reconstruction analysis project Resource Report Resource Website 1+ mentions |
neuronal reconstruction analysis project (RRID:SCR_021638) | data or information resource, portal, project portal | Project for quantitative neuronal morphometry by supervised and unsupervised learning. Includes protocol to quantify and interpret morphological properties of individual neurons reconstructed from microscopic imaging.Includes information about installation of analysis tools and downloading datasets and custom codes. | Quantitative neuronal morphometry, supervised learning, unsupervised learning, protocol, interpret morphological properties, individual neurons reconstructed, neuron, microscopic imaging, zebrafish analysis protocol | Free, Freely available | SCR_021638 | zebrafish-analysis-protocol, neuronal reconstruction analysis | 2026-08-13 09:30:44 | 1 | ||||||||||
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Fred Hutchinson Cancer Center Shared Resources Resource Report Resource Website 1+ mentions |
Fred Hutchinson Cancer Center Shared Resources (RRID:SCR_022607) | data or information resource, organization portal, portal | Through Shared Resources, investigators in Fred Hutch/University of Washington Cancer Consortium and external academic and industry organizations can access services tailored to their specific research goals, including novel assay development or early access to new technologies. | Fred Hutch/University of Washington Cancer Consortium, cancer research services, ABRF, NACCSR |
lists: Fred Hutchinson Cancer Center Genomics and Bioinformatics Core Facility lists: Fred Hutchinson Cancer Center Antibody Technology Core Facility lists: Fred Hutchinson Cancer Center Cellular Imaging Core Facility lists: Fred Hutchinson Cancer Center Comparative Medicine Core Facility lists: Fred Hutchinson Cancer Center Electron Microscopy Core Facility lists: Fred Hutchinson Cancer Center Experimental Histopathology Core Facility lists: Fred Hutchinson Cancer Center Flow Cytometry Core Facility lists: Fred Hutchinson Cancer Center Hutch Data Core Facility lists: Fred Hutchinson Cancer Center Immune Monitoring Core Facility lists: Fred Hutchinson Cancer Center Preclinical Imaging Core Facility lists: Fred Hutchinson Cancer Center Preclinical Modeling Core Facility lists: Fred Hutchinson Cancer Center Proteomics and Metabolomics Core Facility lists: Fred Hutchinson Cancer Center Specimen Processing and Research Cell Bank Core Facility lists: Fred Hutchinson Cancer Center Prevention Center Shared Resource Core Facility lists: Fred Hutchinson Cancer Center Biostatistics Shared Resource |
Free, Freely available | SCR_022607 | 2026-08-13 09:30:55 | 1 | ||||||||||
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cyvcf2 Resource Report Resource Website 1+ mentions |
cyvcf2 (RRID:SCR_024000) | software toolkit, software resource, software library | Software Python library and software package for fast parsing and querying of VCF and BCF files and illustrate its speed, simplicity and utility. Used for variant analysis. | files parsing and querying, VCF files, BCF files, | is listed by: Debian | PMID:28165109 | Free, Available for download, Freely available | OMICS_20006 | https://sources.debian.org/src/cyvcf2/ | SCR_024000 | 2026-08-13 09:30:52 | 2 | |||||||
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Lipid Droplet Knowledge Portal Resource Report Resource Website 1+ mentions |
Lipid Droplet Knowledge Portal (RRID:SCR_021650) | data or information resource, portal, project portal | Interactive portal provides datasets, across variety of cell types, for LD biology, including transcriptional profiles of induced lipid storage, organellar proteomics, genome-wide screen phenotypes, and ties to human genetics. Provides comprehensive picture of genes and pathways affecting lipid droplet biology, including gene expression, proteomics, and LD morphology phenotypes, by integrating multiple relevant data types. | Genes affecting lipid droplet biology, pathways affecting lipid droplet biology, lipid droplet biology, transcriptional profiles, induced lipid storage, organellar proteomics, genome wide screen phenotypes, gene expression, LD morphology phenotypes | DOI:10.1101/2021.06.08.447431 | Free, Freely available | SCR_021650 | 2026-08-13 09:30:34 | 9 | ||||||||||
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plusTipTracker Resource Report Resource Website 10+ mentions |
plusTipTracker (RRID:SCR_021890) | image analysis software, data processing software, software resource, software application | Software package as quantitative image analysis software for measurement of microtubule dynamics. MATLAB software for tracking full dynamics of microtubules based on plusTIP marker live cell image sequences. | microtubule tracking, microtubule dynamics, microtubule dynamics measurement, plusTIP marker, live cell image sequences | NIGMS U01 GM67230 | PMID:21821130 | Free, Available for download, Freely available | SCR_021890 | 2026-08-13 09:30:38 | 10 | |||||||||
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Research Organization Registry Resource Report Resource Website 10+ mentions |
Research Organization Registry (RRID:SCR_021891) | ROR | data or information resource, portal, project portal | Community led project to develop open, sustainable, usable, and unique identifier for every research organization in the world. Implementation of ROR IDs in scholarly infrastructure and metadata will enable more efficient discovery and tracking of research outputs across institutions and funding bodies. | unique identifier for research organization, unique identifier, ROR, develop unique identifier, research organization | Free, Freely available | SCR_021891 | 2026-08-13 09:30:28 | 13 | ||||||||||
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NeuroBridge Resource Report Resource Website 1+ mentions |
NeuroBridge (RRID:SCR_023703) | data or information resource, portal, project portal | Platform for data discovery to enhance the reuse of clinical neuroscience and neuroimaging data. Provides NeuroBridge ontology, and combines machine learning with ontology based search of both neuroimaging repositories like XNAT databases and open access full text journals such as PubMed Central. Connects researchers with potential neuroimaging data, by searching text of papers describing neuroimaging studies that contain information on neuroimaging data. | NeuroBridge ontology, ontology based search, searching text, data discovery, clinical neuroscience data, neuroimaging data, data reuse, | Free, Freely available | https://github.com/NeuroBridge | SCR_023703 | 2026-08-13 09:31:08 | 1 | ||||||||||
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Multimodal Environment for Neuroimaging and Genomic Analysis Resource Report Resource Website 1+ mentions |
Multimodal Environment for Neuroimaging and Genomic Analysis (RRID:SCR_023822) | MENGA | data or information resource, portal, project portal | Software platform for integration of imaging data and Allen Human Brain Atlas mRNA data. MENGA investigates correlation patterns between various imaging modalities and gene expression profiles based on the Allen Brain Atlas in order to create comprehensive, integrated data platform. | Allen Human Brain Atlas, imaging data, Allen Human Brain Atlas mRNA data, data integration, | is related to: Allen Institute for Brain Science | PMID:26882227 | Free, Freely available | SCR_023822 | MENGA: Multimodal Environment for Neuroimaging and Genomic Analysis | 2026-08-13 09:30:50 | 1 | |||||||
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SimpleITK Resource Report Resource Website 50+ mentions |
SimpleITK (RRID:SCR_024693) | software toolkit, software resource, software library | Open source software library for multi dimensional image analysis in Python, R, Java, C#, Lua, Ruby, TCL and C++. New interface to Insight Segmentation and Registration Toolkit (ITK) designed to facilitate rapid prototyping, education and scientific activities via high level programming languages. Provides easy to use and simplified interface to ITK's algorithms. | multi dimensional image analysis, Insight Segmentation and Registration Toolkit, | is related to: Insight Segmentation and Registration Toolkit | NLM | PMID:24416015 | Free, Available for download, Freely available | https://github.com/SimpleITK/SimpleITK | SCR_024693 | Simple Insight Segmentation and Registration Toolkit | 2026-08-13 09:31:23 | 69 | ||||||
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quicktree Resource Report Resource Website 10+ mentions |
quicktree (RRID:SCR_024205) | software toolkit, software resource, software library | Software application as implementation of Neighbor-Joining algorithm, capable of reconstructing phylogenies from huge alignments. | Neighbor-Joining algorithm, reconstructing phylogenies from huge alignments, | is listed by: Debian | PMID:3447015 | Free, Available for download, Freely available, | https://sources.debian.org/src/quicktree/ | SCR_024205 | 2026-08-13 09:31:17 | 12 | ||||||||
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Mapsembler2 Resource Report Resource Website 1+ mentions |
Mapsembler2 (RRID:SCR_024102) | software toolkit, software resource, software library | Targeted assembly software. It takes as input any number of NGS raw read sets and starter set of input sequences.May be used to Validate assembled sequence, Check if known enzyme is present in metagenomic NGS read set, Enrich unmappable reads by extending them, Check what happens at the extremities of a contig, Check the presence / absence and quantify RNA seq splicing events, Check presence/absence of SNPs or structural variants. | Targeted assembly, NGS raw read, input sequences, | is listed by: Debian | PMID:22443449 | Free, Available for download, Freely available, | OMICS_18310 | https://sources.debian.org/src/mapsembler2/ | SCR_024102 | mapsembler2, Mapsembler | 2026-08-13 09:31:12 | 1 | ||||||
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MAXFLOW Resource Report Resource Website 1+ mentions |
MAXFLOW (RRID:SCR_024103) | software toolkit, software resource, software library | Software library that implements the maxflow-mincut algorithm.Used for computing mincut/maxflow in a graph. | computing mincut/maxflow in a graph, | is listed by: Debian | DOI:10.1109/TPAMI.2004.60 | Free, Available for download, Freely available, | https://sources.debian.org/src/maxflow/ | SCR_024103 | maxflow | 2026-08-13 09:31:14 | 1 | |||||||
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Cartopy Resource Report Resource Website 1+ mentions |
Cartopy (RRID:SCR_024587) | software toolkit, software resource, software library | Software Python package designed for geospatial data processing in order to produce maps and other geospatial data analyses. Cartographic library with matplotlib support. | geospatial data processing, produce maps production, geospatial data analyses, | Free, Available for download, Freely available | https://scitools.org.uk/cartopy/docs/latest/ | SCR_024587 | 2026-08-13 09:31:21 | 9 |
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