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https://www.rebuildingakidney.org

A consortium of research projects working to optimize approaches for the isolation, expansion, and differentiation of appropriate kidney cell types and their integration into complex structures that replicate human kidney function. Their goal is to coordinate and integrate research to support the development and implementation of strategies such as de novo repair of nephrons, the re-generation of nephrons, and the in vitro engineering of a biological kidney to enhance renal repair and promote the generation of new nephrons in the postnatal organ. Investigators may apply for funding of a kidney-related project through the RBK Partnership Project. Funded projects would join the consortium.

Proper citation: ReBuilding a Kidney (RRID:SCR_014442) Copy   

•   Source: SciCrunch Registry

http://www.ventana.com/documents/ImageViewerBrochure.pdf

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on November 12,2024. A digital slide image software that is used with the VENTANA iScan Coreo Au slide scanner. This software helps facilitate viewing high quality images with little latency. The image view software can also support the viewing of multiple images simultaneously.

Proper citation: Ventana Image Viewer (RRID:SCR_014446) Copy   

•   Source: SciCrunch Registry

http://www.sandiegoinstruments.com/any-maze-video-tracking/

Video tracking system used to automate testing in a variety of behavioral apparatus. ANY-maze can automatically track the tail, head, or body of a test animal in up to 16 pieces of apparatus. The software can record live images or digital files with different camera types and save the data in multiple formats. ANY-maze contains built in statistical tests and standard measures for distance, speed, mobility, duration, etc., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: ANY-maze (RRID:SCR_014289) Copy   

•   Source: SciCrunch Registry

http://www.definiens.com/research/tissue-studio/developer-xd

A development environment designed to create automated image analysis solutions for segmentation and classification tasks. It delivers quantitative and consistent data for any type of image (e.g., IHC, ISH, IF images in different formats). Developer XD also contains a large library of image analysis algorithms, which users can add to, for whole slide images and tissue microarrays (TMAs). It can be integrated with an existing Tissue Studio installation.

Proper citation: Definiens Developer XD (RRID:SCR_014283) Copy   

•   Source: SciCrunch Registry

http://www.agilent.com/en-us/products/cell-analysis-(seahorse)/software-download-for-wave-desktop

Software to manage Seahorse XFe24 Analyzer, which measures OCR and ECAR of live cells in a 24-well plate format. Users can create and modify assay templates and analyze and manage data.

Proper citation: Seahorse Wave (RRID:SCR_014526) Copy   

•   Source: SciCrunch Registry

https://github.com/nickFurlotte/pylmm

A Python package for doing linear mixed model associations in genome wide association studies (GWAS). The software corrects for population structure using EMMA.

Proper citation: pyLMM (RRID:SCR_014525) Copy   

•   Source: SciCrunch Registry

http://enigma.ini.usc.edu/protocols/dti-protocols/

Pipeline which provides tools to extract whole-brain average and regional measurements from DTI images including FA, AD, RD and MD. Protocols for preprocessing, ENIGMA-DTI processing (skeletonization and ROI extraction), and GWAS analysis are available. Software tools used for each process are listed within the protocols.

Proper citation: ENIGMA-DTI Pipeline (RRID:SCR_014649) Copy   

•   Source: SciCrunch Registry

http://www.starrlifesciences.com/products/vitalview-software

A data acquisition and analysis software program. The program collects data from sensors and receivers and displays graphical data analysis as well as descriptive statistics.

Proper citation: VitalView Software (RRID:SCR_014497) Copy   

•   Source: SciCrunch Registry

https://ndar.nih.gov/tools_guid_tool.html

A customized software application that generates a Global Unique Identifier for each study participant. The GUID is a universal subject ID that allows researchers to share data specific to a study participant without exposing personally identifiable information (PII). The GUID has been approved by the NIH Office of General Counsel.

Proper citation: GUID Tool (RRID:SCR_014530) Copy   

•   Source: SciCrunch Registry

http://cbdm.uni-mainz.de/hippie/

Web tool used to generate confidence scored and functionally annotated human protein-protein interaction networks. Users can run a protein query using a UniProt identifier (ID or accession), gene symbol or Entrez gene id, or a network query using set fields.

Proper citation: HIPPIE (RRID:SCR_014651) Copy   

•   Source: SciCrunch Registry

https://www.qut.edu.au/research/research-projects/landmark-biobanks

A repository of human tissue samples collected during the LANDMark study (Longitudinal Assessment of Neuropathy in Diabetes using novel ophthalmic markers). The LANDMark Biobank longitudinal dataset contains blood and tissue (skin) samples and matching detailed phenotypic data of three microvascluar complications of type 1 diabetes: neuropathy, nephropathy and retinopathy.

Proper citation: LANDMark BioBanks (RRID:SCR_014534) Copy   

•   Source: SciCrunch Registry

http://bix.ucsd.edu/repeatscout/

Algorithm used to identify de novo repeat families in newly sequenced genomes. Repeat libraries for C. briggsae, M. muscles (X chromosome), R. novegicus (X chromosome), armadillo, H. sapiens (X chromosome), and various other mammals created using RepeatScout are available on the main site., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: RepeatScout (RRID:SCR_014653) Copy   

•   Source: SciCrunch Registry

http://www.exploranova.com/products/mercator/

A software package for quantification of histological sections. This software performs functions including: management and analysis of regions of interest, annotations, statistical analysis, and 3D visualization. These results are edited in an Excel-compatible spreadsheet.

Proper citation: Mercator (RRID:SCR_014493) Copy   

•   Source: SciCrunch Registry

http://www.imagemagick.org/script/index.php

Software suite for creating, editing, composing, and converting bitmap images. It can read and write images in over 200 formats including PNG, JPEG, JPEG-2000, GIF, TIFF, DPX, EXR, WebP, Postscript, PDF, and SVG. The user can use this software to resize, flip, mirror, rotate, distort, shear and transform images, adjust image colors, apply various special effects, or draw text, lines, polygons, ellipses and Bézier curves.

Proper citation: ImageMagick (RRID:SCR_014491) Copy   

•   Source: SciCrunch Registry

http://www.pubatlas.org

A program that searches PubMed to generate a heat map using a user's search terms. It also allows you to see over the years how many publications there are with the user's search term(s).

Proper citation: pubatlas.org (RRID:SCR_014538) Copy   

•   Source: SciCrunch Registry

http://nirx.net/software/

Commercial software tool designed to function as a multiplatform instrument controlling environment for NIRx products. Its features include the ability to run full or partial sensing configurations, montage views and viewing options, and a real-time system status reporting display.

Proper citation: NIRStar (RRID:SCR_014540) Copy   

•   Source: SciCrunch Registry

https://www.ecnp.eu/projects-initiatives/ECNP-networks/List-ECNP-Networks/Preclinical-Data-Forum.aspx

A forum for preclinical data sharing and interpretation to enhance its utility for clinical research and development. The forum allows researchers to communicate and collaborate on modern preclinical issues and data sharing.

Proper citation: Preclinical Data Forum Network (RRID:SCR_014545) Copy   

•   Source: SciCrunch Registry

http://www.celllineauthentication.com/

A material analysis service of the commercial organization Genetica DNA Laboratories which provides authentication of human cancer cell lines, stem cell lines and xenografts utilizing STR DNA technology.

Proper citation: Cell Line Authentication Testing (RRID:SCR_014504) Copy   

•   Source: SciCrunch Registry

http://www.igsn.org

A persistent unique identifier for samples and specimens collected from the natural environment. IGSNs are created by the user and are case sensitive. They should be concise, machine readable, and non-derivable to ensure originality. IGSNs were created and are organized by the IGSN e.V., whose goal is to implement and promote standard methods for locating, identifying, and citing physical samples with confidence by operating an international IGSN registration service with a distributed infrastructure for use by and benefit to its members.

Proper citation: International Geo Sample Number (RRID:SCR_014505) Copy   

•   Source: SciCrunch Registry

http://zhanglab.ccmb.med.umich.edu/I-TASSER/

Web server as integrated platform for automated protein structure and function prediction. Used for protein 3D structure prediction. Resource for automated protein structure prediction and structure-based function annotation.

Proper citation: I-TASSER (RRID:SCR_014627) Copy   

•   Source: SciCrunch Registry