Searching the RRID Resource Information Network
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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.
Cloud-based data repository for storing, publishing and accessing scientific data. Mendeley Data creates a permanent location and issues Force 11 compliant citations for uploaded data.
Proper citation: Mendeley Data (RRID:SCR_015671) Copy
http://www.baltimorepkdcenter.org/
Center for research in polycystic kidney disease (PKD) with collaboration by international investigators. The center has several cores, including biomedical cores for antibody validation and cell cultures, educationa programs, and pilot programs for new projects.
Proper citation: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center (RRID:SCR_015315) Copy
https://www.niddk.nih.gov/research-funding/research-programs/kidney-disease-centers
Research program whose aim is to make state-of-the art technologies and resources accessible to a broad spectrum of investigators pursuing studies in kidney research areas.
Proper citation: O'Brien Kidney Centers (RRID:SCR_015270) Copy
Real-time task-based and resting-state fMRI analysis software. This software is developed and distributed to researchers by NeurInsight LLC.
Proper citation: TurboFIRE (RRID:SCR_015518) Copy
https://github.com/SpineML/SpineML_2_BRAHMS
Simulation software which can execute neural network models specified in the SpineML format (an extension of the INCF's NineML). It is used as the canonical simulator backend by SpineCreator and translates the SpineML specification of the model into object code and a SystemML specification of the network.
Proper citation: SpineML_2_BRAHMS (RRID:SCR_015640) Copy
Statistical checking software for psychology manuscripts. Users can upload APA-formatted PDF or HTML files to find errors in statistical reporting.
Proper citation: StatCheck (RRID:SCR_015487) Copy
http://tlife.fudan.edu.cn/ltr_finder/
Web software capable of scanning large-scale sequences for full-length LTR retrotranspsons., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: LTR_Finder (RRID:SCR_015247) Copy
Web application for combined transmembrane topology and signal peptide prediction. Used for whole genome annotation of signal peptides and transmembrane regions. Predictor is based on hidden Markov model (HMM) that models different sequence regions of signal peptide and different regions of transmembrane protein in series of interconnected states.
Proper citation: Phobius (RRID:SCR_015643) Copy
https://www.encodeproject.org/
Consortium to build comprehensive parts list of functional elements in human genome. This includes elements that act at protein and RNA levels, and regulatory elements that control cells and circumstances in which gene is active. Data from 2012-present.
Proper citation: Encode (RRID:SCR_015482) Copy
http://ccb.jhu.edu/software/hisat2/index.shtml
Graph-based alignment of next generation sequencing reads to a population of genomes.
Proper citation: HISAT2 (RRID:SCR_015530) Copy
http://platanus.bio.titech.ac.jp/
De novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: Platanus (RRID:SCR_015531) Copy
https://github.com/johnlees/seer
Sequence element enrichment analysis tool to perform pan-genome-wide association studies in bacteria.
Proper citation: SEER (RRID:SCR_015499) Copy
Research center which aims to contribute to a national database of metabolic phenotyping data in wild-type mouse strains and a broad range of mouse models relevant to the pathogenesis and treatment of diabetes, obesity and associated metabolic disorders. It also aims to foster continued technical development, refinement of assay sensitivity and specificity, data reproducibility, and transmission of best research practices within the areas of fundamental and applied diabetes and obesity research.
Proper citation: MMPC-University of Michigan Medical School (RRID:SCR_015373) Copy
3D visualization software for working with triangle meshes. This software also can clean up 3D scans, design objects for 3D printing, and perform other 3D design-related functions.
Proper citation: Autodesk Meshmixer (RRID:SCR_015736) Copy
https://nxr.northwestern.edu/digital-rat
Software for a 2D elastic beam model that can be used to model quasistatic bending of the vibrissa to compute forces and bending moments at the base. Elastica2D is part of the Digital Rat software project that that aims to enable morphologically and mechanically accurate modelling of the rat head and vibrissal (whisker) array.
Proper citation: Elastica2D (RRID:SCR_015858) Copy
http://remesh.sourceforge.net/
3D editing software for manifold triangle meshes with advanced repairing features. It can post-process polygon meshes coming from digitization sessions and automatically filter out most of the typical flaws that models may have when coming from a 3D digitization session (degenerate triangles, isolated vertices, noise, topological artefacts, holes, ...).
Proper citation: ReMESH (RRID:SCR_015735) Copy
University-affiliated center that promotes research in diabetes and related metabolic and endocrine disorders at Stanford University.
Proper citation: Stanford Diabetes Research Center (RRID:SCR_015856) Copy
Project portal for a cooperative research program to improve short and long-term graft and patient survival. CTOT is an investigative consortium for conducting clinical and associated mechanistic studies that will lead to improved outcomes for transplant recipients.
Proper citation: Clinical Trials in Organ Transplantation (CTOT) (RRID:SCR_015859) Copy
Project portal for a cooperative research program sponsored by the National Institute of Allergy and Infectious Diseases (NIAID). CTOT-C is an investigative consortium for conducting clinical and associated mechanistic studies that will lead to improved outcomes for pediatric heart, lung, or kidney transplant recipients.
Proper citation: Clinical Trials in Organ Transplantation in Children (CTOT-C) (RRID:SCR_015860) Copy
http://www.nitrc.org/projects/spicodyn/
Software for the analysis of multi-site neuronal spike signals. SPICODYN processes electrophysiological signals, focusing on spiking and bursting dynamics and functional-effective connectivity analysis.
Proper citation: SpiCoDyn (RRID:SCR_015744) Copy
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