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https://komentissuebank.iu.edu/

The goals of the Susan G. Komen for the Cure Tissue Bank at the IU Simon Cancer Center are to acquire biomolecule and tissue specimens from the entire continuum of breast development: puberty to menopause and to make these specimens or the digital data derived from them available and accessible to researchers across the globe.

Proper citation: Susan G. Komen Tissue Bank (RRID:SCR_004708) Copy   

•   Source: SciCrunch Registry

http://www.life-source.org/

LifeSource is the non-profit organization dedicated to saving lives through organ and tissue donation in the Upper Midwest. We serve more than 6 million people in communities across Minnesota, North Dakota, South Dakota and portions of western Wisconsin. As the federally-designated organization that manages organ and tissue donation in our region, we are dedicated to working with our hospital and community partners to support donor families, facilitate the donation of organs and tissues to transplant recipients and encourage the people in our communities to register as donors.

Proper citation: LifeSource (RRID:SCR_004702) Copy   

•   Source: SciCrunch Registry

http://tissuebank.stanford.edu/

The Stanford Tissue Bank was established with seed funding from the Bio-X Program and the Department of Pathology, and currently receives support from the Stanford Cancer Institute. The goal of the Tissue Bank is to facilitate biomedical research using tissues at Stanford, by providing services for the procurement, storage, distribution, and study of tissues. Current Tissue Bank activities and services include collecting and banking freshly-frozen tissue specimens from excess surgical material and from autopsy, providing fresh tissue specimens for viable cell studies, processing and banking blood components, maintaining a tissue database with links to clinicopathological data, performing histological staining and pathological review, and coordinating patient consent and assuring regulatory compliance. As a centralized shared resource, the Tissue Bank adds value through experience, efficiency, standardization, accountability, protection of patient confidentially, and timely completion of research. An oversight committee serves to guide policies, prioritize resources, and review service requests to ensure equitable usage.

Proper citation: Stanford Tissue Bank (RRID:SCR_004615) Copy   

•   Source: SciCrunch Registry

http://www.ontariotumourbank.ca/

The Ontario Tumour Bank is a province-wide biorepository and data bank focused on collection of tumor-related human biospecimens. It provides academic and industry cancer researchers with a diverse selection of high quality tumor-related specimens and data obtained directly by dedicated tumour bank staff, who follow a stringent set of procedures and ethical guidelines. The biospecimens and clinical data are an important resource for scientists engaged in translational research who are developing better diagnostic tools and new drug therapies. Researchers depend on the Ontario Tumour Bank to provide research biospecimens of high quality, diversity, and integrity. Operating at state-of-the-art hospitals and cancer centers across Ontario, the Ontario Tumour Bank coordinates the collection, storage, analysis, annotation, and distribution of tumor and peripheral blood samples. Working in collaboration with local pathologists, medical oncologists, surgeons and other hospital personnel, specially trained staff obtain patient consent, collect tissues and assemble comprehensive clinical information about each donor and the corresponding samples.

Proper citation: Ontario Tumour Bank (RRID:SCR_004732) Copy   

•   Source: SciCrunch Registry

http://sidirect2.rnai.jp/

siDirect 2.0 provides functional and off-target minimized siRNA design for mammalian RNAi. The previous version of our software designed functional siRNAs by considering the relationship between siRNA sequence and RNAi activity, and provided them along with the enumeration of potential off-target gene candidates by using a fast and sensitive homology search algorithm. In the new version, the siRNA design algorithm is extensively updated to eliminate off-target effects by reflecting our recent finding that the capability of siRNA to induce off-target effect is highly correlated to the thermodynamic stability, or the melting temperature (Tm), of the seed-target duplex, which is formed between the nucleotides positioned at 2-8 from the 5'' end of the siRNA guide strand and its target mRNA. Selection of siRNAs with lower seed-target duplex stabilities (benchmark Tm < 21.5 degrees C) followed by the elimination of unrelated transcripts with nearly perfect match should minimize the off-target effects. siDirect 2.0 provides functional, target-specific siRNA design with the updated algorithm which significantly reduces off-target silencing. When the candidate functional siRNAs could form seed-target duplexes with Tm values below 21.5 degrees C, and their 19-nt regions spanning positions 2-20 of both strands have at least two mismatches to any other non-targeted transcripts, siDirect 2.0 can design at least one qualified siRNA for > 94% of human mRNA sequences in RefSeq. Enter an accession number and retrieve sequence or Paste in a nucleotide sequence.

Proper citation: siDirect (RRID:SCR_004853) Copy   

•   Source: SciCrunch Registry

http://www.ebi.ac.uk/thornton-srv/databases/profunc/index.html

The ProFunc server had been developed to help identify the likely biochemical function of a protein from its three-dimensional structure. It uses both sequence- and structure-based methods including fold matching, residue conservation, surface cleft analysis, and functional 3D templates, to identify both the protein''''s likely active site and possible homologues in the PDB. Often, where one method fails to provide any functional insight another may be more helpful. You can submit your own structure, analyze an existing PDB entry, or retrieve the results of a previously submitted run. The files are usually stored for about 6 months before being deleted. However, they are stored on a partition that is not backed up; so, in principle, they could disappear at any time.

Proper citation: ProFunc (RRID:SCR_004450) Copy   

•   Source: SciCrunch Registry

http://www.gsds.org/Home%20Page

Golden State Donor Services (GSDS) is the nonprofit, federally designated transplant donor network serving two and a half million people in the greater Sacramento area. We are committed to saving and improving lives by connecting one life to another through donation and transplantation. We support potential donor families in their time of loss, provide care for them through the donation process and coordinate the recovery of organs and tissues for transplant. We also provide after-care support to donor families while at the same time working to inspire universal acceptance of donation to ensure every person in need receives the ����??Gift of Life.����?? GSDS'' designated service area includes 11 counties in Northern California, (Amador, Calaveras, Colusa, El Dorado, Nevada, Placer, Sacramento, Sierra, Sutter, Yolo, and Yuba), as well as the communities of Santa Rosa and Reno. Currently GSDS has agreements with 30 hospitals. In Golden State Donor Services'' area, more than 1000 people now wait for an organ transplant, (heart, liver, lungs, kidneys, intestine or pancreas).

Proper citation: GSDS - Golden State Donor Services (RRID:SCR_004605) Copy   

•   Source: SciCrunch Registry

https://reich.hms.harvard.edu/software

Software application that finds skews in ancestry that are potentially associated with disease genes in recently mixed populations like African Americans. It can be downloaded for either UNIX or Linux.

Proper citation: Ancestrymap (RRID:SCR_004353) Copy   

•   Source: SciCrunch Registry

http://htrc.uchicago.edu/biospecimen_bank.php

Biospecimen banking (BSB) involves collecting, processing, storing and distributing of human or animal tissues and body fluids of molecular grade. Human tissues and body fluids are banked in compliance with IRB approved protocols without compromising the diagnostic process and maintaining donor confidentiality (HIPAA compliant). Investigator-driven biobanking initiatives are of paramount importance at the University. The BSB provides investigators with the infrastructure to establish organ-specific biobanks in a centralized location. This arrangement allows for minimal duplication of costs, as well as establishing a working template for all tissue collections. The BSB has grown exponentially, and has a strong team of experienced personnel banking tissues for clinical trials, investigator-driven projects, and future biospecimen-based research. In addition, the BSB now collects and stores saliva, urine, blood, plasma, serum, and derivatives. The BSB is a complex process, requiring multiple interacting systems to ensure the scientific quality of procured tissue, and body fluids, patient confidentiality, adherence to good clinical practices, and regulated disbursement of biospecimens to approved investigators. They are also aware that policies, HIPAA guidelines, and federal and state tissue procurement regulations may change, and will be fully compliant with all new regulations.

Proper citation: University of Chicago Human Tissue Resource Center Biospecimen Banking (RRID:SCR_004418) Copy   

•   Source: SciCrunch Registry

http://www.broadinstitute.org/mpg/ricopili/

Ricopili is a tool for visualizing regions of interest in select GWAS data sets. How it works Choose a data set and enter a genomic location or a gene name in the form below. A .pdf plot will be generated, as well as a text file with single SNP results. You can also specify the following options: * Clumping: Independent regions will be colored differently, to highlight LD. If you request more than one clump, be sure to have at least one SNP passing the specified p-value-threshold (for performance reasons.) * SNP: SNPs in the region are colored by LD to this index SNP. * Anonymity: Frequency information is from HapMap to protect anonymity. * NHGRI results: Results from the NHGRI GWAS catalog will be included in the plot. Finally, please note that this tool is in development (it was released on September 19th, 2011) and should be considered beta. In particular, our development server is not equipped for high traffic. If the server fails to respond to your request, please try again at a later time.

Proper citation: Ricopili (RRID:SCR_004496) Copy   

•   Source: SciCrunch Registry

http://www.brain-net.net/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 28,2022. A network of several university centers in Germany that classifies neurological and psychiatric disorders neuropathologically and collects and provides brain tissue for research. The aim and task of the Brain-Net are: the collection of clinically and neuropathologically well-characterized brain tissue samples; the standardization of neuropathological diagnoses according to internationally accepted criteria; and providing a basis for future research projects using genetic, epidemiological, biometric and other issues to neurological and psychiatric disorders.

Proper citation: Brain-Net (RRID:SCR_005017) Copy   

•   Source: SciCrunch Registry

http://amphoranet.pitgroup.org/

Webserver implementation of the AMPHORA2 workflow for phylogenetic analysis of metagenomic shotgun sequencing data. It is capable of assigning a probability-weighted taxonomic group for each phylogenetic marker gene found in the input metagenomic sample.

Proper citation: AmphoraNet (RRID:SCR_005009) Copy   

•   Source: SciCrunch Registry

http://mutationassessor.org/

A web server that predicts the functional impact of amino-acid substitutions in proteins, such as mutations discovered in cancer or nonsynonymous polymorphisms. The functional impact is assessed based on evolutionary conservation of the affected amino acid in protein homologs. The method has been validated on a large set (51k) of disease associated (OMIM) and polymorphic variants., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: MutationAssessor (RRID:SCR_005762) Copy   

•   Source: SciCrunch Registry

http://www.bumc.bu.edu/busm-pathology/pathology-core-services/biospecimen-archive-research-core-barc/

Biospecimen repository of normal and diseased human material from a variety of tissues and conditions along with clinical annotation. Both frozen aliquots and paraffin embedded tissue are available. Biospecimens are available to qualified researchers with IRB approval. * Preliminary inquires please contact Cheryl Spencer at cheryl.spencer (at) bmc.org

Proper citation: Boston University Biospecimen Archive Research Core (RRID:SCR_005363) Copy   

•   Source: SciCrunch Registry

http://www.compbio.dundee.ac.uk/gotcha/gotcha.php

GOtcha provides a prediction of a set of GO terms that can be associated with a given query sequence. Each term is scored independently and the scores calibrated against reference searches to give an accurate percentage likelihood of correctness. These results can be displayed graphically. Why is GOtcha different to what is already out there and why should you be using it? * GOtcha uses a method where it combines information from many search hits, up to and including E-values that are normally discarded. This gives much better sensitivity than other methods. * GOtcha provides a score for each individual term, not just the leaf term or branch. This allows the discrimination between confident assignments that one would find at a more general level and the more specific terms that one would have lower confidence in. * The scores GOtcha provides are calibrated to give a real estimate of correctness. This is expressed as a percentage, giving a result that non-experts are comfortable in interpreting. * GOtcha provides graphical output that gives an overview of the confidence in, or potential alternatives for, particular GO term assignments. The tool is currently web-based; contact David Martin for details of the standalone version. Platform: Online tool

Proper citation: GOtcha (RRID:SCR_005790) Copy   

•   Source: SciCrunch Registry

http://www.donatelifenm.org/

New Mexico Donor Services (NMDS) is committed to saving and improving lives, connecting one life to another through donation and transplantation. NMDS and New Mexico hospitals share responsibility to ensure that an individual''s decision to be a donor is followed or their family is given the option to donate organs and/or tissue. Hospitals identify potential donors, make timely referrals, and manage the patients to allow NMDS to evaluate the patient for donor suitability and check donor status on their driver''s license or ID. Organs are distributed to waiting recipients through the national organ transplant list maintained by the United Network for Organ Sharing (UNOS) based on medical factors such as blood type, size and tissue match. It is illegal to distribute organs based on wealth or celebrity status. Tissue is distributed based on patient need, medical criteria and availability.

Proper citation: NMDS - New Mexico Donor Services (RRID:SCR_005033) Copy   

•   Source: SciCrunch Registry

http://xldb.fc.ul.pt/biotools/rebil/goa/

A tool for assisting the GO annotation of UniProt entries by linking the GO terms present in the uncurated annotations with evidence text automatically extracted from the documents linked to UniProt entries. Platform: Online tool

Proper citation: GoAnnotator (RRID:SCR_005792) Copy   

•   Source: SciCrunch Registry

http://med.brown.edu/neurology/brainbank/index.html

A tissue resource center which facilitates research into the relationship between Alzheimer's disease and other brain disorders such as strokes and mental illnesses. Most donations have been obtained from Alzheimer's patients. Normal controls are available, many of which are from subjects with close relatives with Alzheimer's. The Brown BTRC also supports a collection of brain tumor cases that were harvested from patients who underwent surgery and who were enrolled in a clinical trial for the development of new treatments for brain cancer.

Proper citation: Brown Brain Tissue Resource Center (RRID:SCR_005392) Copy   

•   Source: SciCrunch Registry

http://www.lifelineofohio.org/

An independent, non-profit organization, Lifeline of Ohio (LOOP), promotes and coordinates the donation of human organs and tissue for transplantation. Its mission is to educate and empower central and southeastern Ohioans about organ and tissue donation while also facilitating the donation process. Lifeline of Ohio, a Donate Life Organization, has been approved by the Centers for Medicare and Medicaid Services (CMS) as the designated organ procurement organization (OPO) serving 37 Ohio counties along with Wood and Hancock counties in West Virginia. Accredited by both the Association of Organ Procurement Organizations (AOPO) and the American Association of Tissue Banks (AATB), Lifeline of Ohio provides services to 70 hospitals and the communities they serve through its procurement and tissue coordinators, and other professional staff.

Proper citation: Lifeline of Ohio (RRID:SCR_005027) Copy   

•   Source: SciCrunch Registry

http://agbase.msstate.edu/cgi-bin/tools/goslimviewer_select.pl

Service to summarize the GO function associated with a data set using prepared GO Slim sets. The input is a tab separated list of gene product IDs and GO IDs.

Proper citation: GOSlimViewer (RRID:SCR_005665) Copy   

•   Source: SciCrunch Registry