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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BLASTP Resource Report Resource Website 100+ mentions |
BLASTP (RRID:SCR_001010) | production service resource, data analysis service, analysis service resource, service resource | Data analysis service whose programs search protein databases using a protein query. The algorithms used include blastp, psi-blast, phi-blast, and delta-blast. | blast, basic local alignment search tool, protein alignment, protein blast, data analysis service, protein |
is used by: Open Reading Frame Finder is listed by: OMICtools is listed by: SoftCite has parent organization: NCBI |
Freely available, Acknowledgement requested | OMICS_00991 | SCR_001010 | blastp suite, Standard Protein BLAST | 2026-08-12 10:48:19 | 293 | ||||||||
|
PLoS Blogs Resource Report Resource Website 1+ mentions |
PLoS Blogs (RRID:SCR_001371) | PLoS Blogs | data or information resource, narrative resource, blog | PLoS Blogs has been set up to bring a select group of independent science and medicine bloggers together with the editors and staff who run our blogs. Our independent network is made up of writers who love science and medicine, and scientists and physicians that love to write. Here, you'll find an equal mix of blogs from journalists and researchers tackling diverse issues in science and medicine. There are three very distinct types of blogs on the PLoS Blogs network: the official PLoS blog, the PLoS journal blogs (collectively known as The PLoS Blogs), and blogs from the independent network (a.k.a. The PLoS Blogosphere) # The official PLoS blog: This content is produced, edited, and/or maintained by PLoS staff. # The journal blogs: This content is produced, edited, and/or maintained by PLoS journal staff: The current journal blogs are Speaking of Medicine (PLoS Medicine's blog) and everyONE (PLoS ONE's blog). # Our independent network of bloggers (The PLoS Blogosphere): This content is produced, edited, and/or maintained by the authors. * All of the content in The PLoS Blogosphere came from the minds of the authors. PLoS does not screen, edit, or otherwise meddle with content on the these blogs in any way. Our bloggers and our users are held to exactly the same standards, and the community guidelines apply to everyone that uses our site. If a blogger has posted content that you believe violates our site abuse policy, please contact PLoS. * Bloggers monitor their own comment threads: All comments will be reviewed by the author of the blog where you leave your thoughts. Just follow our simple community guidelines and we'll all get along just fine. | science, medicine, health |
is used by: NIF Data Federation is used by: Integrated Blogs is parent organization of: NeuroTribes is parent organization of: Wordpress ePub Plugin |
Creative Commons Attribution License, 1 has restrictions - see bottom of blogs and abide by restrictions | nif-0000-07759 | SCR_001371 | Public Library of Science - Science Blog Network, PLoS Blogs Network, Public Library of Science Blogs | 2026-08-12 10:48:23 | 2 | |||||||
|
WegoLoc Resource Report Resource Website 1+ mentions |
WegoLoc (RRID:SCR_001402) | WegoLoc | production service resource, data analysis service, analysis service resource, service resource | Data analysis service that predicts protein subcellular localizations of animal, fungal, plant, and human proteins based on sequence similarity and gene ontology information. | subcellular localization, protein |
is listed by: OMICtools is related to: Gene Ontology |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01636 | SCR_001402 | weighted gene ontology term based subcellular locallization prediction | 2026-08-12 10:48:23 | 4 | |||||||
|
ERGO Resource Report Resource Website 50+ mentions |
ERGO (RRID:SCR_001243) | ERGO | production service resource, data analysis service, analysis service resource, service resource | A web-based genome analysis platform that integrates proprietary functional genomic data, metabolic reconstructions, expression profiling, and biochemical and microbiological data with publicly available information. Focused on microbial genomics, it provides better and faster identification of gene function across all organisms. Building upon a comprehensive genomic database integrated with a collection of microbial metabolic and non-metabolic pathways and using proprietary algorithms, it assigns functions to genes, integrates genes into pathways, and identifies previously unknown or mischaracterized genes, cryptic pathways and gene products. . * Automated and manual annotation of genes and genomes * Analysis of metabolic and non-metabolic pathways to understand organism physiology * Comparison of multiple genomes to identify shared and unique features and SNPs * Functional analysis of gene expression microarray data * Data-mining for target gene discovery * In silico metabolic engineering and strain improvement | genome analysis, genome, annotation, database, software, comparative genomics, function, gene, pathway, gene expression, microarray, FASEB list | is listed by: OMICtools | Restricted | OMICS_02097 | SCR_001243 | ERGO Genome Analysis and Discovery System, ERGO Genome Analysis & Discovery System | 2026-08-12 10:48:21 | 68 | |||||||
|
Penn Community Outreach Using Health System Informatics Core Resource Report Resource Website 1+ mentions |
Penn Community Outreach Using Health System Informatics Core (RRID:SCR_000304) | COHSI | data or information resource, portal, organization portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 30,2023. Informatics core for the purpose of promoting clinical research by collecting data from the Penn Health System. | informatics, community development, awareness, clinical research |
is listed by: Eagle I has parent organization: University of Pennsylvania; Philadelphia; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_156476 | http://eagle-i.itmat.upenn.edu/i/00000141-93f7-4d80-91c7-0c6080000000 | SCR_000304 | Penn COHSI | 2026-08-12 10:48:12 | 1 | ||||||
|
psignifit Resource Report Resource Website 1+ mentions |
psignifit (RRID:SCR_024196) | software library, software toolkit, software resource | Software toolbox to fit psychometric functions and to test hypotheses about psychometric data. | fit psychometric functions, test hypotheses, psychometric data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/psignifit/ | SCR_024196 | 2026-08-12 10:53:01 | 3 | |||||||||
|
sumaclust Resource Report Resource Website 1+ mentions |
sumaclust (RRID:SCR_024352) | software library, software toolkit, software resource | Software tool aims to cluster sequences in a way that is fast and exact at the same time. | cluster sequences, fast and exact clustering, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_19112 | https://sources.debian.org/src/sumaclust/ | SCR_024352 | 2026-08-12 10:53:06 | 2 | ||||||||
|
Inference of CRISPR Edits Resource Report Resource Website 100+ mentions |
Inference of CRISPR Edits (RRID:SCR_024508) | ICE | production service resource, software resource, analysis service resource, service resource | Software tool that offers analysis of CRISPR editing data. Used for inference of CRISPR edits from Sanger trace data. | analysis of CRISPR editing data, CRISPR editing analysis, | is listed by: SoftCite | PMID:35119294 | Free, Freely available | https://github.com/synthego-open/ice#ref2 | SCR_024508 | Synthego Inference of CRISPR Edits | 2026-08-12 10:53:15 | 103 | ||||||
|
ODIN Resource Report Resource Website 10+ mentions |
ODIN (RRID:SCR_001386) | ODIN | service resource, software resource, source code | Service (Beta) that allows users to search the DataCite Metadata Store, and add their research outputs including datasets, software, and others to their ORCID profile. This should increase the visibility of these research data, and will make it easier to use these data citations in applications that connect to the ORCID Registry. In addition, the service is also providing formatted citations in several popular citation styles, supports COinS, links to related resources, and displays the attached Creative Commons license where this information is available. The DataCite Metadata Store of course also contains many text documents from academic publishers and services such as figshare or PeerJ Preprints, and these works can also be claimed. This tool is a collaborative effort by ORCID, CrossRef and DataCite. | data citation, scholarly communication, interoperability, access, discovery, sustainability, digital object identifier |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: ORCID - Open Researcher and Contributor ID has parent organization: DataCite |
European Union FP7 Coordination and Support Action 312788 | Unless otherwise noted, Creative Commons Attribution License, Account required | nlx_152557 | http://www.nitrc.org/projects/od1n http://github.com/mfenner/cr-search | SCR_001386 | ORCID and DataCite Interoperability Network | 2026-08-12 10:48:23 | 31 | |||||
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Schizophrenia and Bipolar Disorder Genetics Blog Resource Report Resource Website 1+ mentions |
Schizophrenia and Bipolar Disorder Genetics Blog (RRID:SCR_001541) | data or information resource, narrative resource, blog | This resource aims to provide information for the general public on the background and current progress of scientific research into the role of genetics in these disorders. Additionally, it also aims to provide a forum for the discussion of aspects of psychiatric genetics open to members of the research community. | genetics, disorder, psychiatric, research, scientific | has parent organization: University of Edinburgh; Scotland; United Kingdom | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10419 | SCR_001541 | Genetics Blog | 2026-08-12 10:48:25 | 2 | ||||||||
|
Sumatra Resource Report Resource Website 10+ mentions |
Sumatra (RRID:SCR_001381) | electronic laboratory notebook, software resource, software application | A software tool for managing and tracking projects based on numerical simulation or analysis to support reproducible research. It can be thought of as an automated electronic lab notebook for simulation/analysis projects. Sumatra consists of: a command-line interface, smt, for launching simulations/analyses with automatic recording of information about the context, annotating these records, linking to data files, etc.; a web interface with a built-in web-server, smtweb, for browsing and annotating simulation/analysis results; a LaTeX package and Sphinx extension for including Sumatra-tracked figures and links to provenance information in papers and other documents; and a Python API, on which smt and smtweb are based, that can be used in personalized scripts in place of using smt. | simulation, analysis, python, numerical simulation, manage, track |
uses: Python Programming Language is listed by: INCF Software Center has parent organization: NeuralEnsemble |
Free, Freely Available | nlx_152549 | SCR_001381 | Sumatra: automated tracking of scientific computations | 2026-08-12 10:48:23 | 27 | ||||||||
|
getorf Resource Report Resource Website 1+ mentions |
getorf (RRID:SCR_024691) | software resource, data access protocol, web service | Web application to find and extract open reading frames (ORFs). Used to find and output sequences of open reading frames in one or more nucleotide sequences. | find and extract open reading frames, open reading frames, ORFs, nucleotide sequences, | Free, Freely available | SCR_024691 | EMBOSS getorf | 2026-08-12 10:53:11 | 5 | ||||||||||
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Ocular Resource Report Resource Website 1+ mentions |
Ocular (RRID:SCR_024467) | data processing software, data acquisition software, software resource, software application | Photometrics acquisition software to capture, save and publish images and movies. Allows users of color and monochrome cameras to capture high quality images and videos from their microscope or lens system. | Teledyne Photometrics, photometrics acquisition, capture control, images and movies capture, microscope, lens system, image, video | Free, Freely available | SCR_024467 | Teledyne Photometrics Ocular | 2026-08-12 10:53:05 | 2 | ||||||||||
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scNTImpute Resource Report Resource Website 1+ mentions |
scNTImpute (RRID:SCR_024395) | data processing software, data analysis software, software resource, software application | Software imputation model for scRNA-seq data. Used to accurately and efficiently identify dropout values and impute them precisely, which helps to improve downstream analyses of single-cell RNA sequencing data. | imputation model, scRNA-seq data, identify dropout values, single-cell RNA sequencing data analysis, | Free, Available for download, Freely available, | SCR_024395 | single-cell Neural Topic Imputation | 2026-08-12 10:53:07 | 1 | ||||||||||
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ChrAccR Resource Report Resource Website 1+ mentions |
ChrAccR (RRID:SCR_024397) | data processing software, data analysis software, software resource, software application | Software R package for comprehensive analysis chromatin accessibility data. Analyzing chromatin accessibility data in R. Used for data quality control, exploratory analyses including unsupervised methods for dimension reduction, clustering and quantifying transcription factor activities, and identification and characterization of differentially accessible regions. Used for analysis of large bulk datasets comprising hundreds of samples as well as for single cell datasets. | analysis chromatin accessibility data, data quality control, identification and characterization of differentially accessible regions, clustering and quantifying transcription factor activities, | Free, Available for download, Freely available | https://greenleaflab.github.io/ChrAccR/ | SCR_024397 | Chromatin Accessibility data in R | 2026-08-12 10:53:13 | 2 | |||||||||
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MapMyCells Resource Report Resource Website 50+ mentions |
MapMyCells (RRID:SCR_024672) | algorithm resource, web application, software resource, software application | MapMyCells maps single cell and spatial transcriptomics data sets to massive, high-quality, and high-resolution cell type taxonomies. It enables speeding up the creation of brain reference atlases by facilitating the integration of datasets from the scientific community with a shared reference. MapMyCells is part of the growing Brain Knowledge Platform. Its key advantage is scale: researchers can provide up to 327 million cell-gene pairs from their own data, a huge leap forward for working with whole-brain datasets. Allen Institute and its collaborators continue to add new reference taxonomies and algorithms to MapMyCells. | mapping of single cell and spatial transcriptomics data, mapping to whole mouse brain taxonomy, mapping to human brain taxonomy, correlation mapping, hierarchical mapping, label transfer |
has parent organization: Allen Institute is organization facet of: BICCN |
NIMH U24MH130918; Paul G. Allen Foundation |
Free, Freely available | https://knowledge.brain-map.org/mapmycells/process/, https://portal.brain-map.org/atlases-and-data/bkp/mapmycells/mapmycells-use-case-single-cell-genomics | SCR_024672 | Map My Cells, Allen MapMyCells | 2026-08-12 10:53:16 | 60 | |||||||
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Efficient and Adaptive Gaussian Smoothing Resource Report Resource Website 1+ mentions |
Efficient and Adaptive Gaussian Smoothing (RRID:SCR_024399) | EAGS | data processing software, data analysis software, software resource, software application | Software tool for high resolved spatial transcriptomics. Smoothing approach for spatial transcriptome data with ultrahigh resolution. Used to determine neighborhood relationship of cells, to calculate smoothing contribution to recalculate the gene expression of each cell. | determine neighborhood cells relationship, calculate cell gene expression, high resolved spatial transcriptomics, spatial transcriptome data, data with ultrahigh resolution, | Free, Available for download, Freely available, | SCR_024399 | 2026-08-12 10:53:03 | 1 | ||||||||||
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Olympus FV10-ASW Viewer Resource Report Resource Website 10+ mentions |
Olympus FV10-ASW Viewer (RRID:SCR_024433) | data processing software, software resource, image processing software, software application | Software for image processing. Reads data captured by FV1200/FV1000/FV500/FV300 microscopes. Images saved with FV file format (OIF, OIB, FV Multi-Tiff) can be read. | FV1200/FV1000/FV500/FV300 microscopes image processing, FV1200/FV1000/FV500/FV300 microscopes data processing, FV file format, | Free, Available for download, Freely available | https://www.olympus-lifescience.com/ | SCR_024433 | FV10-ASW Viewer software v4.2b | 2026-08-12 10:53:14 | 39 | |||||||||
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Molecular Property Diagnostic Suite Covid-19 Resource Report Resource Website 1+ mentions |
Molecular Property Diagnostic Suite Covid-19 (RRID:SCR_024545) | MPDS-Covid19 | data or information resource, topical portal, portal, disease-related portal | Galaxy based disease specific web portal for drug discovery research of COVID-19. Open access disease specific drug discovery portal. | Drug discovery, disease specific drug discovery, COVID-19 | Covid-19 | Department of Biotechnology Govt. of India | DOI:10.1101/2023.08.29.555437 | Free, Freely available | SCR_024545 | Galaxy MPDS COVID-19 | 2026-08-12 10:53:15 | 1 | ||||||
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ScanProsite Resource Report Resource Website 100+ mentions |
ScanProsite (RRID:SCR_024425) | PMID:16845026 | software resource, data access protocol, web service | Web tool for detecting PROSITE signature matches in protein sequences. | detecting PROSITE signature matches, protein sequences, | is listed by: SoftCite | Swiss National Science Foundation ; Swiss Federal Government |
Free, Freely available | https://www.expasy.org/resources/scanprosite | SCR_024425 | 2026-08-12 10:53:08 | 106 |
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