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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.
Metadata management system built for EBRAINS. Multi modal metadata store which brings together information from different areas of Human Brain Project as well as from external partners. Graph database tracks linkage between experimental data and neuroscientific data science supporting more extensive data reuse and complex computational research.Supports rich terminologies, ontologies and controlled vocabularies. Built by design to support iterative elaborations of common standards and supports these by probabilistic suggestion and review systems.
Proper citation: EBRAINS Knowledge Graph (RRID:SCR_017612) Copy
https://scdevdb.deepomics.org/
Database for insights into single cell gene expression profiles during human developmental processes. Interactive database provides DE gene lists in each developmental pathway, t-SNE map, and GO and KEGG enrichment analysis based on these differential genes.
Proper citation: Single Cell Developmental Database (RRID:SCR_017546) Copy
http://circadb.hogeneschlab.org/
Database of mammalian circadian gene expression profiles. Works with link outs to Wikipedia, HomoloGene, Refseq, etc.. Open source database of circadian transcriptional profiles from time course expression experiments from mice and humans.
Proper citation: CircaDB (RRID:SCR_018078) Copy
http://www.genetherapyreview.com/gene-therapy-research
The National Gene Vector Laboratories (NGVL) was established as a cooperative national effort to produce and distribute vectors for human gene transfer studies.
Proper citation: National Gene Vector Laboratories (RRID:SCR_015944) Copy
https://hirnetwork.org/consortium/chib
Consortium that is an independent research initiative of the Human Research Information Network (HIRN). It is combining advances in beta cell biology and cell biology with tissue engineering technologies to develop microdevices that support functional human islets.
Proper citation: HIRN Consortium on Human Islet Biomimetics (RRID:SCR_016199) Copy
http://cerebrovascularportal.org
Portal enables browsing, searching, and analysis of human genetic information linked to cerebrovascular disease and related traits, while protecting the integrity and confidentiality of the underlying data.
Proper citation: Cerebrovascular Disease Knowledge Portal (RRID:SCR_015628) Copy
https://github.com/dorianps/LESYMAP
Software R package to conduct lesion-to-symptom mapping from human MRI data.Takes lesion maps and cognitive performance scores from patients with stroke, and maps brain areas responsible for cognitive deficit.
Proper citation: LESYMAP (RRID:SCR_017967) Copy
Biomedical technology resource center specializing in novel approaches and tools for neuroimaging. It develops novel strategies to investigate brain structure and function in their full multidimensional complexity. There is a rapidly growing need for brain models comprehensive enough to represent brain structure and function as they change across time in large populations, in different disease states, across imaging modalities, across age and sex, and even across species. International networks of collaborators are provided with a diverse array of tools to create, analyze, visualize, and interact with models of the brain. A major focus of these collaborations is to develop four-dimensional brain models that track and analyze complex patterns of dynamically changing brain structure in development and disease, expanding investigations of brain structure-function relations to four dimensions.
Proper citation: Laboratory of Neuro Imaging (RRID:SCR_001922) Copy
http://harvard.eagle-i.net/i/0000012a-2518-fb6c-5617-794280000000
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 27, 2023. Core provides services: RT PCR service, Gene expression profiling service, Proteomics analysis service, Bioinformatics and Systems Biology analyses, Next Generation Sequencing Service, Affymetrix Human and Mouse Gene 2.0 ST Arrays and 2.1 ST Arrayplates. Core proteomics facility for the Dana-Farber/Harvard Cancer Center. Workflows and algorithms for analysis of next-generation sequencing data including RNA-Seq, ChIP-Seq, Epigenetics-Seq and DNA seq, Comprehensive workflow for analysis of Microbiome sequencing data, Integrated systems biology analysis of transcriptome, miRNA, epigenome, metabolomics and proteomics data. Pipelines: MALDI Tissue imaging and targeted quantitative proteomics.
Proper citation: Beth Israel Deaconess Medical Center Genomics Proteomics Bioinformatics and Systems Biology Center (RRID:SCR_009668) Copy
http://www.tmslab.org/tmscore.php
At the Berenson-Allen Center for Noninvasive Brain Stimulation (CNBS) at Beth Israel Deaconess Medical Center and Harvard Medical School we have three distinct missions: Research, Education and Patient Care. Our research explores brain-behavior relations, brain plasticity and its modulation, employing different noninvasive brain stimulation techniques combined with careful task design, electroencephalography, and functional brain imaging. Educational efforts feature several Continuing Medical Education Courses including a week long intensive course in noninvasive brain stimulation offered 3 times per year. Our clinical program offers noninvasive brain stimulation for treatment of neuropsychiatric disorders such as depression and schizophrenia, epilepsy, and chronic pain. Clinical work also includes studies of central motor conduction time, cortical excitability, and noninvasive cortical mapping.
Proper citation: BIDMC Transcranial Magnetic Stimulation Core (RRID:SCR_011022) Copy
https://sdrc.stanford.edu/sdrc-research-cores/dimc/home/
Core facility that provides immune monitoring assays at the RNA, protein, and cellular level, as well as archiving, reporting, and data mining support for clinical and translational studies related to Diabetes. The DIMC is a specialized subcore of the Human Immune Monitoring Center (HIMC) at Stanford.
Proper citation: Stanford Diabetes Research Center Diabetes Immune Monitoring Core (RRID:SCR_016210) Copy
https://www.umassmed.edu/shrna/
Facility houses complete collections of human and mouse lentiviral short hairpin RNA (shRNA) libraries from Open Biosystems/GE Dharmacon, Mammalian Gene Collection (MGC) cDNA Library, and human and mouse CRISPR/Cas9 GeCKO v2 libraries from Addgene.
Proper citation: Massachusetts University Medical School RNAi Core Facility (RRID:SCR_017727) Copy
Provides system for Splicing isoform Annotation. This LISA platform allows high throughput annotation and functional analysis of Alternate Splicing in humans.
Proper citation: Quebeck Sherbrooke University Genomic Core Facility (RRID:SCR_017785) Copy
https://ipsc.bsd.uchicago.edu/
Core provides training to use latest episomal techniques to reprogram, expand and characterize human and mice iPS cells from skin or blood tissues of healthy subjects and diseased patients. Develops capability to differentiate iPS cells into specific somatic cells, such as neutrons, cardiomyocytes, and hepatocytes.
Proper citation: Chicago University iPSC Core Facility (RRID:SCR_017918) Copy
Core provides service support to all MIT investigators who utilize specialized in vitro cells such as stem cells, organoids, or primary cell lines and/or novel mouse models to study human diseases such as cancer. Projects involve generation of new model system, such as CRISPR-mediated gene editing in mouse to introduce mutation that mimics one found in patients. Helps with projects required optimization of finicky cell cultures and other challenges.Provides customizable set of service options to match specific needs of each project, including consultative advice and troubleshooting, complete tissue culture and microinjection services within our facilities or hands-on training to enable investigators to perfom these experiments either at their own laboratory or within our facilities.Services Include:Gene Targeting genomic modification through traditional or CRISPR/Cas9 locus targeting, assistance with targeting strategies and vector designs;Embryonic Stem Cells generation of new ES lines from mouse strains, importation and testing of lines from outside sources, differentiation of ES lines into specific cell lineages or cell types and more;Microinjection injection of mouse ES cells into blastocysts to generate chimeras and injection of DNA, RNA or CRISPR RNPs into the pronucleus of fertilized mouse eggs to generate transgenic and edited mice;Specialized Tissue Culture establishemnt of new primary cell cultures from a tumor, tissue or organ; Isolation of fibroblasts (MEFs) from mice for culture and analysis;Tissue Culture for Xenograft and Syngenic Modeling optimization, validation and testing of cell lines for orthotopic placement into mice, coordinated with Preclinical Testing Facility;Repository of Reagent Mice Commonly used wild type mice such as C57BL/6j as well as KrasG12D-based models of cancers are maintained on campus for efficient distrubution;Training and Troubleshooting for all aspects of embryonic stem cells, primary cultures, animal breeding etc.;Serum, DMEM, LIF and other media components that have been tested and verified for use with ES cells.
Proper citation: Massachusetts Institute of Technology Koch Institute Preclinical Modeling Core Facility (RRID:SCR_017899) Copy
http://www.cti.northwestern.edu/
Core is Northwestern Radiology research facility providing translational imaging capabilities that promote pre-clinical and clinical research efforts. CTI occupies space in basement of Olson building housing imaging equipment along with research staff. Services include Cardiovascular Imaging for development, analysis and application of MRI methods providing insights into structure and function of cardiovascular system,NeuroImaging for functional MRI using spectroscopy and diffusion-weighted imaging to studying human anatomy and physiology during development and disease,Small Animal Imaging for molecular and functional imaging of biological processes in living animal models to study diseases and responses to intervention.
Proper citation: Northwestern University Center for Translational Imaging Core Facility (RRID:SCR_017878) Copy
https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/XTRACT
Software command line tool for automated tractography. Standardised protocols for automated tractography in human and macaque brain.
Proper citation: XTRACT (RRID:SCR_024933) Copy
Knowledge graph system developed for managing and organizing rich metadata objects, initially for the Human Brain Project (HBP) and now extended to be a more generic, domain-agnostic solution. It is associated with CSCS (Swiss National Supercomputing Centre) and aims to provide a comprehensive toolset and API for working with knowledge graphs.
Proper citation: MarmotGraph (RRID:SCR_027452) Copy
https://www.crukscotlandinstitute.ac.uk/advanced-technologies/molecular-technology.html
Core provides Next Generation Sequencing (NGS) services and Single Cell services predominantly focussing on single cell RNAseq. Processes samples for variety of cancer associated projects, in both mouse and human derived materials. Offers full end-to-end service, from initial study design and planning, through sample QC, full library preparation, sequencing and data return. Offers range of standard molecular tests covering, plasmid purifications, Sanger sequencing and mycoplasma screening.
Proper citation: Cancer Research UK Scotland Institute Molecular Technology Service Core Facility (RRID:SCR_027368) Copy
A professional and scientific society that provides leadership, education, advocacy, and resources enabling clinical pharmacists to achieve excellence in practice and research. Their membership is composed of practitioners, scientists, educators, administrators, students, residents, fellows, and others committed to excellence in clinical pharmacy and patient pharmacotherapy. The Practice and Research Networks (PRNs) represent focused interest groups of ACCP members, providing a means for clinical pharmacists with common practice and research interests to gather for professional interaction, networking, and continuing education. Activities within individual PRNs may vary depending on the interests and perceived needs of their members. All PRNs conduct educational programs within their interest areas at the ACCP Annual Meeting and the Spring Practice and Research Forum.
Proper citation: American College of Clinical Pharmacy (RRID:SCR_003957) Copy
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