Tools   Select Another Resource Report Type

https://ftp.ncbi.nlm.nih.gov/pub/lu/LabeledIn/

Database of annotations of drug indications in FDA drug labels. LabeledIn contains an expert curated set of indications and a crowdsourced set of indications.

Proper citation: LabeledIn (RRID:SCR_015667) Copy   

•   Source: SciCrunch Registry

http://diseases.jensenlab.org/

Database that integrates evidence on disease-gene associations from automatic text mining, manually curated literature, cancer mutation data, and genome-wide association studies. It also assigns confidence scores that facilitate comparison of the different types and sources of evidence.

Proper citation: DISEASES (RRID:SCR_015664) Copy   

•   Source: SciCrunch Registry

http://tissues.jensenlab.org

Database that integrates evidence on tissue expression from manually curated literature, proteomics and transcriptomics screens, and automatic text mining. It maps all evidence to common protein identifiers and Brenda Tissue Ontology terms, and further unifies it by assigning confidence scores that facilitate comparison of the different types and sources of evidence.

Proper citation: TISSUES (RRID:SCR_015665) Copy   

•   Source: SciCrunch Registry

http://mrir.med.miami.edu:8000/midas

Software for processing, display, and analysis of magnetic resonance spectroscopic imaging data. MIDAS supports a "whole-brain" MRSI acquisition method that has been implemented on MRI systems from three major manufacturers., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: MIDAS (RRID:SCR_015704) Copy   

•   Source: SciCrunch Registry

http://csb.pitt.edu/erc_analysis/Methods.php

Web-based statistical application that measures correlated rates across a phylogeny, allowing for extraction of genes with similar evolutionary histories. It can identify new functional connections between genes.

Proper citation: Evolutionary Rate Covariation (RRID:SCR_015669) Copy   

•   Source: SciCrunch Registry

https://portals.broadinstitute.org/cmap/

Collection of genome-wide transcriptional expression data from cultured human cells treated with bioactive small molecules and simple pattern-matching algorithms. camp aims to enable the discovery of functional connections between drugs, genes and diseases through the transitory feature of common gene-expression changes., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: Connectivity Map 02 (RRID:SCR_015674) Copy   

•   Source: SciCrunch Registry

https://data.mendeley.com/

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   

•   Source: SciCrunch Registry

http://www.neurinsight.com/

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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

http://www.neurocaregroup.com/dc-stimulator-neuroconn.html

Device for administering transcranial electrical stimulation. It has applications in cranial electrotherapy that provides a weak direct current for non-invasive Interventional Neurophysiology.

Proper citation: Neurocare: Neuroconn DC-Stimulator Plus (RRID:SCR_015520) Copy   

•   Source: SciCrunch Registry

http://www.usa.philips.com/healthcare/product/HCNMRB617/dti-fibertrak-mr-software

Instrument and software tool used to visualize, trace, analyze, and process white matter fiber tracts of Diffusion Tensor Imaging (DTI) data in real-time. It supports pre-operative surgical planning, post-surgery evaluation, and general evaluation of fiber tracts around tumors and lesions in connection with functional areas.

Proper citation: DTI FiberTrak MR Clinical application (RRID:SCR_015521) Copy   

•   Source: SciCrunch Registry

https://github.com/BRAHMS-SystemML/brahms

Simulation software that runs network simulations where the network is specified in its own format called SystemML. The components of the network can be implemented in C, C++, Python or Matlab and are used in SpineML_2_BRAHMS to provide a simulation back-end for SpineML models.

Proper citation: BRAHMS (RRID:SCR_015642) Copy   

•   Source: SciCrunch Registry

http://phobius.sbc.su.se/

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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

https://www.quantumbiologyinstitute.org/

Institute that provides resources and researches the concepts and mechanisms which underlie the complexities of biology. In particular, it incorporates concepts in physics and mathematics to resolve, unravel, and explain complex biological mechanisms and conditions.

Proper citation: Quantum Biology Institute (RRID:SCR_015855) Copy   

•   Source: SciCrunch Registry

https://sdrc.stanford.edu/

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   

•   Source: SciCrunch Registry

http://www.ctotstudies.org

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   

•   Source: SciCrunch Registry

http://www.ctotc.org

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   

•   Source: SciCrunch Registry