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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.
Genetic Alliance Registry and BioBank is a centralized, clinical data registry and sample repository (including DNA, serum, cells and tissues) that enables translational research. It is a nonprofit organization established by seven patient advocacy organizations. These organizations share resources for their BioBanks, such as the contract to the independent lab that processes the samples, but each organization will maintain ownership, control and costs associated with their sample collection. Founded in 2003, this cooperative venture provides shared infrastructure and customized solutions for disease advocacy organizations to lead sophisticated research initiatives. Genetic Alliance Registry and BioBank is an advocacy owned repository for biological samples and clinical data. It provides: * Centralized, standardized collection and archiving * Highest biorepository and participant protection standards * Open access for all organization approved researchers * Advocacy organization control
Proper citation: Genetic Alliance Biobank (RRID:SCR_010625) Copy
A web-based application designed with an easy-to-use interface to facilitate the high-throughput assessment and prioritization of genes and missense alterations important for cancer tumorigenesis.
Proper citation: CRAVAT (RRID:SCR_012776) Copy
Commercial organizations which develops, manufactures, and sells solutions and equipment for blood sampling, blood gas analysis, transcutaneous monitoring, and IT management systems under certain brand names.
Proper citation: Radiometer (RRID:SCR_014772) Copy
https://sift.bii.a-star.edu.sg/sift4g/AboutSIFT4G.html
Software tool to predict whether amino acid substitution affects protein function. Faster version of SIFT that enables to scale up and provide SIFT predictions for more organisms.
Proper citation: SIFT 4G (RRID:SCR_021850) Copy
Manufacturer and supplier of the DMZ Universal electrode pullers which produce pipettes and electrodes with a tip diameter down to 0.2 micrometers.
Proper citation: Zeitz (RRID:SCR_014774) Copy
Artificial intelligence image analysis platform that facilitates life science research. It offers data analysis, processing functions, and security features to accelerate research productivity.
Proper citation: IMACEL (RRID:SCR_015868) Copy
http://www.detaibio.com/sms2/protein_gravy.html
Web protein hydrophilicity analysis tool.
Proper citation: protein hydrophilicity analysis tool (RRID:SCR_023015) Copy
https://docs.google.com/presentation/d/13KqqDOFLbhCPRsCqf4zETdcjhZECIXD_/edit#slide=id.p1
MJFF in partnership with Aligning Science Across Parkinson’s are in the process of establishing data platform, CRN Cloud, leveraging Verily Workbench to share data generated by researcher labs funded through ASAP Collaborative Research Network. The data types include mainly raw and processed single cell RNA-seq, single nucleus RNA-seq, and bulk RNA-seq from both PD and healthy control samples.
Proper citation: Collaborative Research Network Cloud (RRID:SCR_023923) Copy
https://git.integromics.fr/published/predomics
Software package for metagenomics data. Discovers accurate predictive signatures and provides unprecedented interpretability. Package contains three methods for suppervised learning based on ternary coefficients. Used to discover classification models for quantitative metagenomics data.
Proper citation: Predomics (RRID:SCR_017415) Copy
http://www.ebi.ac.uk/ena/search/
A nucleotide sequence similiary search tool which is far faster than BLAST for large datasets, with only a marginal loss in search sensitivity.
Proper citation: ENA Sequence Search (RRID:SCR_013170) Copy
https://github.com/wilsonGW/SomaDetection
Source code for a machine learning method to detect somas on confocal microscopic images of the Drosophila brain. The method can be applied to the original raw images where the noises are not removed and the number of somas is unknown.
Proper citation: SomaDetection (RRID:SCR_015717) Copy
http://viewer.shigen.info/cgi-bin/crispr/crispr.cgi
Web tool to show micro homology sequences striding over double strand break point created by CRISPR/Cas9 system. Used to search for CRISPR target site with micro-homology sequences. Used to predict deletion pattern.
Proper citation: NBRP Medaka CRISPR target site (RRID:SCR_018159) Copy
Gene atlas of Type 2 Diabetes Mellitus associated complex disorders. Provides curated and integrated information about genes involved in development and progression of Type 2 Diabetes Mellitus, genes and pathways with evidence for role in diabetes under risk factors including obesity, diet, inflammation, stress and complex disorders that are associated with Type 2 Diabetes Mellitus including atherosclerosis, diabetic retinopathy, diabetic nephropathy, diabetic neuropathy, cardiovascular disease.
Proper citation: T2DiACoD (RRID:SCR_019092) Copy
https://www.mcdb.ucla.edu/Research/Hartenstein/dbla/index.html
Atlas providing structure and development of Drosophila brain lineages. Used to learn about projection pattern of lineages as first step towards reconstructing and understanding all neurons.
Proper citation: Drosphila Brain Lineage Atlas (RRID:SCR_017507) Copy
Software tool as catalog of inferred sequence binding preferences. Online library of transcription factors and their DNA binding motifs.
Proper citation: CIS-BP (RRID:SCR_017236) Copy
Open online platform for single cell RNA-seq. Provides data management and analytics. Used to analyze public and private datasets and you can choose between several best practices workflows and browse existing analyses.
Proper citation: FASTGenomics (RRID:SCR_022898) Copy
https://www.estimationstats.com/#/
Web application for data analysis and visualizing effect sizes. Data analysis with estimation graphics.
Proper citation: Estimation Stats (RRID:SCR_018321) Copy
Resource of targeted proteomics assays to detect and quantify proteins in complex proteome digests by mass spectrometry. Used to quantify the complete human proteome.
Proper citation: SRMAtlas (RRID:SCR_016996) Copy
https://figshare.com/articles/phi_toolbox_zip/3203326
Toolkit of MATLAB functions for computing integrated information ('phi' or 'Φ') from neural data. The toolbox consists of downloadable codes that perform practical computation.
Proper citation: Phi Toolbox (RRID:SCR_015549) Copy
http://www.humphreyslab.com/SingleCell/
Software tool as analyzer for kidney single cell datasets. Allows users to query gene expression from mouse or human kidney and human kidney organoid single cell datasets. For details about datasets visit ReBuilding a Kidney website.
Proper citation: Kidney Interactive Transcriptomics (RRID:SCR_017209) Copy
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