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http://loni.usc.edu/Software/

Portal provides list of software resources. LONI is leader in development of advanced computational algorithms and software for comprehensive and quantitative mapping of brain structure and function. Aims to encourage communication between users and LONI software engineers in order to improve effectiveness.

Proper citation: University of Southern California LONI Software (RRID:SCR_002802) Copy   

•   Source: SciCrunch Registry

http://www.mmrrc.org/

National public repository system for mutant mice. Archives and distributes scientifically valuable spontaneous and induced mutant mouse strains and ES cell lines for use by biomedical research community. Includes breeding/distribution facilities and information coordinating center. Mice strains are cryopreserved, unless live colony must be established. Live mice are supplied from production colony, from colony recovered from cryopreservation, or via micro-injection of cell line into host blastocysts. MMRRC member facilities also develop technologies to improve handling of mutant mice, including advances in assisted reproductive techniques, cryobiology, genetic analysis, phenotyping and infectious disease diagnostics.

Proper citation: Mutant Mouse Resource and Research Center (RRID:SCR_002953) Copy   

•   Source: SciCrunch Registry

http://www.jax.org/smsr/index.html

Resource of special strains of mice that are valuable tools for genetic analysis of complex diseases. They include panels of recombinant inbred (RI) and chromosome substitution (CS) strains.

Proper citation: Special Mouse Strains Resource (RRID:SCR_002885) Copy   

•   Source: SciCrunch Registry

http://www.ouhsc.edu/compmed/documents/DevelopmentofaSpecificPathogenFreeBaboonColony.pdf

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 4th,2023. Program developing a self-sustaining colony of baboons free of all known herpesviruses, four retroviruses, and SV40 for research. When the program is fully developed, they will provide healthy, behaviorally normal, SPF baboons that are free of all known herpes viruses, four retroviruses, and SV40. To accomplish this goal, the center has established in collaboration with co-investigators and consultants serological and PCR tests for each of the 11 target viruses. These baboon viruses include six herpesviruses (analogs of human HSV, VZV, CMV, HHV6, EBV, and HHV8), four retroviruses (simian foamy virus, SRV/D, SIV, and STLV), and SV40. Twenty-four infant baboons are being recruited into the SPF program in each of the first five years, for a final total of at least 66 SPF baboons. All infants will be repeatedly tested for each of the target viruses. At one month of age, larger social groups of 4-6 SPF animals are formed. Beginning at 2-3 years of age, SPF animals will be integrated into larger socially compatible groups. These groups will eventually mature into breeding harems of SPF animals. This approach provides infants with age-matched companions for socialization during their early period of development, minimizes opportunities for transmission of viruses to the infants from adult animals, and allows for the simultaneous elimination of many different viruses from SPF animals.

Proper citation: Development of a Specific-Pathogen-Free Baboon Colony (RRID:SCR_002900) Copy   

•   Source: SciCrunch Registry

http://lab.rockefeller.edu/tuschl/

RNA is not only a carrier of genetic information, but also a catalyst and a guide for sequence-specific recognition and processing of other RNA molecules. This lab investigates the regulatory mechanisms of RNA interference, RNA-mediated translational control, and nuclear pre-mRNA splicing. Classical and combinatorial biochemical techniques are used to analyze the function of the RNA- and protein-components involved in those processes.

Proper citation: Tuschl Laboratory: RNA Molecular Biology (RRID:SCR_002866) Copy   

•   Source: SciCrunch Registry

http://insitu.fruitfly.org/cgi-bin/ex/insitu.pl

Database of embryonic expression patterns using a high throughput RNA in situ hybridization of the protein-coding genes identified in the Drosophila melanogaster genome with images and controlled vocabulary annotations. At the end of production pipeline gene expression patterns are documented by taking a large number of digital images of individual embryos. The quality and identity of the captured image data are verified by independently derived microarray time-course analysis of gene expression using Affymetrix GeneChip technology. Gene expression patterns are annotated with controlled vocabulary for developmental anatomy of Drosophila embryogenesis. Image, microarray and annotation data are stored in a modified version of Gene Ontology database and the entire dataset is available on the web in browsable and searchable form or MySQL dump can be downloaded. So far, they have examined expression of 7507 genes and documented them with 111184 digital photographs.

Proper citation: Patterns of Gene Expression in Drosophila Embryogenesis (RRID:SCR_002868) Copy   

•   Source: SciCrunch Registry

http://www.euroscarf.de/index.php?name=News

Archive of yeast strains and plasmids that were generated during various yeast functional analysis projects.

Proper citation: EUROpean Saccharomyces Cerevisiae ARchive for Functional Analysis (RRID:SCR_003093) Copy   

•   Source: SciCrunch Registry

http://www.mugen-noe.org/database/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 5, 2023. MUGEN Mouse Database (MMdb) is a virtual and fully searchable repository of murine models of immune processes and immunological diseases. MMdb is being developed within the context of the MUGEN network of Excellence, a consortium of 21 leading research institutes and universities, and currently holds all mutant mouse models that were developed within the consortium. Its primary aim is to enable information exchange between participating institutions on mouse strain characteristics and availability. More importantly, it aims to create a mouse-centric international forum on modelling of immunological diseases and pave the way to systems biology of the mouse by correlating various genotypic and phenotypic characteristics. The basic categorization of models is based on three major research application categories: * Model of Human Disease * Model of Immune Processes * Transgenic Tool Mutant strains carry detailed information on affected gene(s), mutant alleles and genetic background (DNA origin, targeted, host and backcrossing background). Each gene/transgene index also includes IDs and direct links to Ensembl (EBI��s genome browser), ArrayExpress (providing expression profiles), Eurexpress II (for embryonic expression patterns) and NCBI��s Entrez Gene database. Phenotypic description is standardized and hierarchically structured, based on MGI��s mammalian phenotypic ontology terms, but also includes relevant images and references. Since version 2.1.0 MMdb is also utilizing PATO. Availability (in the form of live mice, cryopreserved embryos or sperm, as well as ES cells) is clearly indicated, along with handling and genotyping details (in the form of documents or hyperlinks) and all relevant contact information (including EMMA and JAX hyperlinks where available).

Proper citation: MUGEN Mouse Database (RRID:SCR_003243) Copy   

•   Source: SciCrunch Registry

http://www.medicine.iu.edu/

Medical school and medical research center connected to Indiana University. Its principal research and medical center is on Indiana University – Purdue University Indianapolis campus in Indianapolis.

Proper citation: Indiana University School of Medicine; Indiana; USA (RRID:SCR_012916) Copy   

•   Source: SciCrunch Registry

http://www.ed.ac.uk/schools-departments/vet/

At the vanguard of veterinary education since William Dick founded the School in 1823, the Royal (Dick) School of Veterinary Studies is one of the world''s most innovative and influential centers for clinical care and student education. Using outstanding clinical facilities, we provide veterinary services of the highest standards and a stimulating educational experience for our students, within an environment rich in high quality interdisciplinary research. Affectionately known as the ''Dick Vet'', the School is part of the College of Medicine and Veterinary Medicine at the University of Edinburgh, one of the top 15 centers of biomedical research in the world with annual research awards in excess of 100 million pounds. Our research spans all aspects of veterinary medicine, from molecules and genes through to animal and human populations. Our partnership with the Medical School is summed up in the ethos - One Health. Our vision is simple yet ambitious: we want to take the School''s work to a new level as a world leader in veterinary research and training. By 2011 we will have invested over 100 million pounds in building state-of-the-art teaching facilities, clinics and laboratories. We attract, and actively recruit, the world''s leading veterinary teachers, clinicians and researchers to maintain our customary high ranking in the UK league tables for international excellence in our teaching and research.

Proper citation: University of Edinburgh Royal (Dick) School of Veterinary Studies; Scotland; United Kingdom (RRID:SCR_012845) Copy   

•   Source: SciCrunch Registry

http://www.tsu.edu/

Proper citation: Texas Southern University; Texas; USA (RRID:SCR_012737) Copy   

•   Source: SciCrunch Registry

https://bils.se

A national research infrastructure that provides bioinformatics support to life science researchers in Sweden. Their work is supported by the Swedish Research Council.

Proper citation: Bioinformatics Infrastructure for Life Sciences (RRID:SCR_014723) Copy   

•   Source: SciCrunch Registry

http://www.mq.edu.au/

Proper citation: Macquarie University; Sydney; Australia (RRID:SCR_012796) Copy   

•   Source: SciCrunch Registry

http://www.mcgill.ca/medicine/

Proper citation: McGill University Faculty of Medicine; Montreal; Canada (RRID:SCR_012888) Copy   

•   Source: SciCrunch Registry

http://www.med.uc.edu/Home.aspx

Proper citation: University of Cincinnati College of Medicine; Ohio; USA (RRID:SCR_012889) Copy   

•   Source: SciCrunch Registry

http://www.uni-hamburg.de/index_e.html

Public research and education university in Northern Germany with main campus located in central district of Rotherbaum, with affiliated institutes and research centres spread around city state.

Proper citation: University of Hamburg; Hamburg; Germany (RRID:SCR_012922) Copy   

•   Source: SciCrunch Registry

https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA1087118

Collection of spatial transcriptomics data of mouse CT26 sample generated by stereo-seq technology.

Proper citation: mouse-CT26-Spatial-Transcriptomics (RRID:SCR_025235) Copy   

•   Source: SciCrunch Registry

https://compbio.uth.edu/FusionGDB2/

Functional annotation database of human fusion genes.FusionGDB 2.0 has updates of contents such as up-to-date human fusion genes, fusion gene breakage tendency score with FusionAI deep learning model based on 20 kb DNA sequence around BP, investigation of overlapping between fusion breakpoints with human genomic features across cellular role's categories, transcribed chimeric sequence and following open reading frame analysis with coding potential based on deep learning approach with Ribo-seq read features, and rigorous investigation of protein feature retention of individual fusion partner genes in protein level.

Proper citation: FusionGDB2 (RRID:SCR_025299) Copy   

•   Source: SciCrunch Registry

https://medinform.jmir.org/2015/4/e35

Algorithm for generating unique study identifiers in distributed and validatable fashion, in multicenter research. Light-weight, block chain style resource identifier generation for tracking resource linkage, provenance, utilization, and visualization. NHash has unique set of properties: (1) it is a pseudonym serving the purpose of linking research data about study participant for research purposes; (2) it can be generated automatically in completely distributed fashion with virtually no risk for identifier collision; (3) it incorporates set of cryptographic hash functions based on N-grams, with combination of additional encryption techniques such as shift cipher; (d) it is validatable (error tolerant) in the sense that inadvertent edit errors will mostly result in invalid identifiers.

Proper citation: NHash Identifier (RRID:SCR_025313) Copy   

•   Source: SciCrunch Registry

https://cerevisiae.oridb.org/

Provides catalogue of confirmed and predicted DNA replication origin sites. At present this is limited to budding yeast and fission yeast. Data have been collated as culmination of number of genome-wide studies to identify location of replication origins throughout budding yeast genome. In addition to genome-wide studies data from large number of other origin mapping and characterization studies have been included.

Proper citation: OriDB (RRID:SCR_025365) Copy   

•   Source: SciCrunch Registry