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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Nighres Resource Report Resource Website 1+ mentions |
Nighres (RRID:SCR_016287) | data processing software, image analysis software, software application, software resource, software toolkit | Software package for processing of high-resolution neuroimaging data. Nighres is a community-developed project that aims to make neuroscience data tools easier to install, use and extend. | neuroimaging, python, high-resolution, MRI, ultra-high, field, laminar, brain | Free, Available for download, Runs on Linux | http://nighres.readthedocs.io/en/latest/ | https://github.com/juhuntenburg/laminar_python | SCR_016287 | SciCrunch Registry | nighres | 2026-09-26 02:15:44 | 3 | ||||||||
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ANNOgesic Resource Report Resource Website 10+ mentions |
ANNOgesic (RRID:SCR_016326) | data analysis software, data processing software, software application, software resource, software toolkit, standalone software | Software tool for bacterial/archaeal RNA-Seq based genome annotations. Used for integrating, detecting, predicting, and grouping RNA-Seq data. | bacterial, archaeal, RNA, sequencing, data, analysis, genome, annotation, statistic, visualization, protein, interaction, prediction, grouping, go, ontology, gene, differential, circular |
is related to: Infernal is related to: Vienna RNA is related to: Biopython is related to: MEME Suite - Motif-based sequence analysis tools is related to: Segemehl |
Free, Freely available, Available for download | SCR_016326 | SciCrunch Registry | 2026-09-26 02:15:45 | 10 | ||||||||||
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Longitudinal neuroimaging hippocampal markers for diagnosing Alzheimer's disease Resource Report Resource Website 1+ mentions |
Longitudinal neuroimaging hippocampal markers for diagnosing Alzheimer's disease (RRID:SCR_016282) | data processing software, image analysis software, registration software, software application, software resource | Software based on robust registration and simultaneous hippocampal segmentation and longitudinal marker classification of brain MRI of an arbitrary number of time points. The framework comprises two parts: a longitudinal segmentation and a longitudinal classification step. | longitudinal, segmentation, hippocampus, mri, atrophy, atlas, classification, matlab | Free, Available for download | SCR_016282 | SciCrunch Registry | 2026-09-26 02:15:44 | 1 | |||||||||||
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HUMAnN2 Resource Report Resource Website 50+ mentions |
HUMAnN2 (RRID:SCR_016280) | HUMAnN2 | data analysis software, data processing software, sequence analysis software, software application, software resource | Software for profiling the presence/absence and abundance of microbial pathways in a community from metagenomic or metatranscriptomic sequencing data Used for millions of short DNA/RNA reads. This process, referred to as functional profiling, aims to describe the metabolic potential of a microbial community and its members. | microbe, matagenome, metatranscription, sequence, short, read, dna, rna, metabolism | Free, Available for download, Tutorial available, Acknowledgement requested | SCR_016280 | SciCrunch Registry | The HMP Unified Metabolic Analysis Network 2 | 2026-09-26 02:15:44 | 82 | |||||||||
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SV-plaudit Resource Report Resource Website 1+ mentions |
SV-plaudit (RRID:SCR_016285) | data analysis software, data processing software, image analysis software, software application, software resource | Software for rapidly curating structural variant (SVs) predictions. SV-plaudit provides a pipeline for creating image views of genomic intervals, automatically storing them in the cloud, deploying a website to view/score them, and retrieving scores for analysis. | genomics, structural, variants, visualization, manual, curation, prediction, image, alignment | NCI U24 CA209999; NHGRI K99 HG009532; NHGRI R01 HG006693; NIGMS R01 GM124355 |
Free, Available for download | SCR_016285 | SciCrunch Registry | 2026-09-26 02:15:44 | 2 | ||||||||||
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SIGEN Resource Report Resource Website 1+ mentions |
SIGEN (RRID:SCR_016284) | data processing software, image analysis software, image reconstruction software, segmentation software, software application, software resource | Software to extract and trace neuronal structure from confocal laser scanning microscope images. It performs the automatic reconstruction of neurons for image stacks and can generate compartmental models of neurons as swc file format data. | segmentation, neuron, confocal, laser, scan, microscopy, reconstruction, swc, confocal, laser, microscopy | is related to: ParaView | Free, Available for download | SCR_016284 | SciCrunch Registry | SImulation of Geometrical and Electrical properties of Neuron, SIGEN: SImulation of Geometrical and Electrical properties of Neuron | 2026-09-26 02:15:44 | 3 | |||||||||
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JAX Mice and Services Resource Report Resource Website 10+ mentions |
JAX Mice and Services (RRID:SCR_016408) | JAX, JAX MS, JMS, IMSR_JAX | biomaterial supply resource, material resource, organism supplier | Supplier of mice for research purposes. | RIN, Resource Information Network, mouse, strain, supply, research, repository, subject, genetic engineering, knockout, mice, gene, model, RRID Community Authority |
is listed by: International Mouse Strain Resource is listed by: Resource Information Network is related to: Knockout Mouse Project Repository at JAX is parent organization of: Diversity Outbred Database works with: International Mouse Strain Resource |
SCR_016408 | SciCrunch Registry | Mice and Services, JAX Mice, JAX Mouse Service, JAX Mice Service, JAX Mouse and Services | 2026-09-26 02:15:46 | 14 | |||||||||
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Shanghai Model Organisms Center Resource Report Resource Website 1+ mentions |
Shanghai Model Organisms Center (RRID:SCR_016407) | SMOC | biomaterial supply resource, commercial organization, material resource, organism supplier | Global biotechnology company based in Shanghai, China, specializing in custom model organisms, humanized and immunodeficient mice, and gene-editing services for preclinical research. Alternatively, in molecular biology, it can refer to knockout or mutant mice lacking the Smoc1 or Smoc2 genes (secreted modular calcium-binding proteins) used to study embryonic, eye, and limb development.Supplier of mice for research purposes. Provides technical services, model organisms, gene editing and decoding. | RIN, Resource Information Network, Shanghai Model Organisms Center Inc., mouse, strain, supply, research, repository, subject, genetic engineering, knockout, mice, gene, model, RRID Community Authority |
is listed by: Resource Information Network works with: International Mouse Strain Resource |
http://www.shmo.com.cn/English/, https://www.modelorg.com/en/, https://www.modelorg.com/ | SCR_016407 | SciCrunch Registry | Shanghai Model Organisms Center, Inc. SMOCShanghai Model Organisms Center, Shanghai Model, Shanghai Model Center, Shanghai Model Organism Center | 2026-09-26 02:15:46 | 2 | ||||||||
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National Resource Center for Mutant Mice Resource Report Resource Website 1+ mentions |
National Resource Center for Mutant Mice (RRID:SCR_016406) | NRCMM, MARIP | biomaterial supply resource, material resource, organism supplier | Supplier of mice for research purposes. | mouse, strain, supply, research, repository, subject, genetic engineering, knockout, mice, gene, model, transgenic | is listed by: International Mouse Strain Resource | SCR_016406 | SciCrunch Registry | National Resource Center for Mutant Mouse, Nanjing University Model Animal Research Institute, Model Animal Resource Information Platform, Model Animal Resource Imformation Platform | 2026-09-26 02:15:46 | 1 | |||||||||
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Taconic Biosciences Resource Report Resource Website 100+ mentions |
Taconic Biosciences (RRID:SCR_016410) | TAC, TB | biomaterial supply resource, material resource, organism supplier | Supplier of mice for research purposes. | RIN, Resource Information Network, mouse, strain, supply, research, repository, subject, genetic engineering, knockout, mice, gene, model, transgenic, RRID Community Authority |
is listed by: Resource Information Network works with: International Mouse Strain Resource |
SCR_016410 | SciCrunch Registry | Taconic Mouse Supply, Taconic Mice, eTaconic, Taconic, Taconic Bioscience, Taconic Bio Sciences | 2026-09-26 02:15:46 | 232 | |||||||||
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GenPipes Resource Report Resource Website 10+ mentions |
GenPipes (RRID:SCR_016376) | data analysis software, data processing software, software application, software resource | Software for genomics and bioinformatics analysis. GenPipes includes several python pipelines that cover many genomics applications, such as RNASeq, ChIPSeq, DNASeq, WGBS, HiC, Metagenomics, PacBio assembly, etc. | workflow, management, system, genomics, bioinformatics, rnaseq, chipseq, dnaseq, hic, metagenomics, WGBS, PacBio, Assembly, C3G | has parent organization: McGill University; Montreal; Canada | Free, Available for download, Tutorial available | http://www.computationalgenomics.ca/tutorials/ | SCR_016376 | SciCrunch Registry | 2026-09-26 02:15:45 | 18 | |||||||||
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MxPro QPCR Resource Report Resource Website 500+ mentions |
MxPro QPCR (RRID:SCR_016375) | data analysis software, data processing software, software application, software resource | Software that performs data analysis algorithms for QPCR data. The software is included with the purchase of the Agilent MxPro QPCR System., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | pcr, qpcr, polymerase, qualitative, analysis, nucleic, acid, gene | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_016375 | SciCrunch Registry | MxPro QPCR Software | 2026-09-26 02:15:45 | 543 | ||||||||||
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MetaCyto Resource Report Resource Website 1+ mentions |
MetaCyto (RRID:SCR_016415) | data analysis software, data processing software, software application, software resource, software toolkit | Software tool for automated meta-analysis of mass and flow cytometry data. Provides functions for preprocessing, automated gating and meta-analysis of cytometry data and collection of cytometry data from the ImmPort database. | automated, analysis, meta, flow, cytometry, data, bio.tools |
is listed by: Bioconductor is listed by: NIDDK Information Network (dkNET) is listed by: bio.tools is listed by: Debian is related to: The Immunology Database and Analysis Portal (ImmPort) |
the National Institute of Allergy and Infectious Diseases HHSN272201200028C | Free, Available for download, Freely available | biotools:metacyto | https://bio.tools/metacyto | SCR_016415 | SciCrunch Registry | 2026-09-26 02:15:46 | 5 | |||||||
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Xenopus Express Resource Report Resource Website 1+ mentions |
Xenopus Express (RRID:SCR_016373) | XEP | biomaterial supply resource, material resource, organism supplier | Supplier of Frogs and Tadpoles for the scientific community. | RIN, Resource Information Network, xenopus, frog, tadpole, amphibian, supply, organism, diet, animal food, RRID Community Authority | is listed by: Resource Information Network | SCR_016373 | SciCrunch Registry | Xenopus Xpress | 2026-09-26 02:15:45 | 4 | |||||||||
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findMotif.pl Resource Report Resource Website 1+ mentions |
findMotif.pl (RRID:SCR_016417) | data analysis software, data processing software, sequence analysis software, software application, software resource, software toolkit | Software tool to analyze the promoters of genes and look for motifs that are enriched in the target gene promoters relative to other promoters. Used for gene based analysis to provide a list of genes that should contain the same elements, such as genes that are co-regulated. It includes gene ontology analysis and can be used to look for RNA motifs in mRNAs. | analyze, promoter, gene, motif, target, relative, same, element, ontology, RNA, mRNA |
is related to: HOMER has parent organization: University of California at San Diego; California; USA |
Free, Available for download, Freely available | SCR_016417 | SciCrunch Registry | 2026-09-26 02:15:46 | 4 | ||||||||||
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Monica monitor Resource Report Resource Website |
Monica monitor (RRID:SCR_016416) | data or information resource, portal, topical portal | A peel and stick in-room ambulatory fetal monitoring solution by Monica Healthcare Ltd. Measures fetal heart rate (FHR), maternal heart rate (MHR) and uterine activity (UA). | instrument, ambulatory, fetal, monitoring, heart, rate, fetal, maternal, uterine, activity | has parent organization: University of Nottingham; Nottingham; United Kingdom | Commercially available | SCR_016416 | SciCrunch Registry | 2026-09-26 02:15:46 | 0 | ||||||||||
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CycIF.org Resource Report Resource Website 10+ mentions |
CycIF.org (RRID:SCR_016267) | CycIF.org | data or information resource, experimental protocol, immuno detection protocol, immunofluorescence, narrative resource, web page | Web page for cyclic immunofluorescence. It lists several downloadable data and software pertaining to cyclic immunofluorescence. | immunofluorescence, cyclic, cycif, data, software, single cell, numeric, dataset, intratumoural, heterogeneity | has parent organization: LINCS Data Portal | NHLBI U54 HL127365 | PMID:26399630 | Public | SCR_016267 | SciCrunch Registry | cycif.org | 2026-09-26 02:15:44 | 16 | ||||||
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Fetal Actocardiograph MT-516 Resource Report Resource Website |
Fetal Actocardiograph MT-516 (RRID:SCR_016420) | data or information resource, portal, topical portal | Fetal actocardiograph instrument provided by TOITU CO., LTD. | instrument, fetal, actocardiogram, Toitu, obstetric, gynecology | Commercially available | SCR_016420 | SciCrunch Registry | 2026-09-26 02:15:46 | 0 | |||||||||||
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OMA Orthology database Resource Report Resource Website 1+ mentions |
OMA Orthology database (RRID:SCR_016425) | OMA | data access protocol, data or information resource, database, software application, software resource, standalone software, web service | Web based database interface for orthology prediction for the inference of orthologs among complete genomes. Used to relate genes across many species., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | interface, orthology, prediction, inference, complete, genome, species, data | Bayer Crop Science NV ; Swiss Institute of Bioinformatics ; UK Biotechnology and Biological Sciences Research Council ; University College London |
PMID:29106550 | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_016425 | SciCrunch Registry | Orthologous MAtrix | 2026-09-26 02:15:46 | 9 | |||||||
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kCSD-Matlab Resource Report Resource Website 1+ mentions |
kCSD-Matlab (RRID:SCR_016424) | kCSD | data analysis software, data processing software, software application, software resource | Software tool for analyzing recordings from multielectrodes. Source code for the Matlab implementation of the Kernel Current Source Density method. The method operates in one-, two-, and three-dimensional space to perform nonparametric estimation of transmembrane current sources from local field potentials recorded from arbitrarily distributed electrodes. | analyzing, recording, data, multielectrode, transmembrane, current, source, estimate, kernel, source, density, method | is related to: MATLAB | Free, Available for download, Freely available | SCR_016424 | SciCrunch Registry | kernel Current Source Density | 2026-09-26 02:15:47 | 3 |
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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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