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http://sourceforge.net/projects/mutascope/

Software suite to analyze data from high throughput sequencing of PCR amplicons, with an emphasis on normal-tumor comparison for the accurate and sensitive identification of low prevalence mutations.

Proper citation: Mutascope (RRID:SCR_001265) Copy   

•   Source: SciCrunch Registry

http://mugsy.sourceforge.net/

Software resource for multiple whole genome alignment. It uses Nucmer, a custom graph-based segmentation procedure, for pairwise alignment, and the Seqan:TCoffee's multiple alignment strategy.

Proper citation: Mugsy (RRID:SCR_001414) Copy   

•   Source: SciCrunch Registry

http://www.immunetolerance.org/

International clinical research consortium dedicated to the clinical evaluation of novel tolerogenic approaches for the treatment of autoimmune diseases, asthma and allergic diseases, and the prevention of graft rejection. They aim to advance the clinical application of immune tolerance by performing high quality clinical trials of emerging therapeutics integrated with mechanism-based research. In particular, they aim to: * Establish new tolerance therapeutics * Develop a better understanding of the mechanisms of immune function and disease pathogenesis * Identify new biomarkers of tolerance and disease Their goals are to identify and develop treatment game changers for tolerance modulating therapies for the treatment of immune mediated diseases and disabling conditions, and to conduct high quality, innovative clinical trials and mechanistic studies not likely to be funded by other sources or to be conducted by private industry that advance our understanding of immunological disorders. In the Immune Tolerance Network's (ITN) unique hybrid academic/industry model, the areas of academia, government and industry are integral to planning and conducting clinical studies. They develop and fund clinical trials and mechanistic studies in partnership. Their development model is a unique, interactive process. It capitalizes on their wide-ranging, multidisciplinary expertise provided by an advisory board of highly respected faculty from institutions worldwide. This model gives investigators special insight into developing high quality research studies. The ITN is comprised of leading scientific and medical faculty from more than 50 institutions in nine countries worldwide and employs over 80 full-time staff at the University of California San Francisco (UCSF), Bethesda, Maryland and Benaroya Research Institute in Seattle, Washington.

Proper citation: Immune Tolerance Network (ITN) (RRID:SCR_001535) Copy   

•   Source: SciCrunch Registry

https://repository.niddk.nih.gov/study/81

Multi-center, randomized controlled study designed to determine if continuing interferon long term over several years will suppress the Hepatitis C virus, prevent progression to cirrhosis, prevent liver cancer and reduce the need for liver transplantation. Patient enrollment began in 2000 and was completed in 2003 at 10 clinical centers, which were supported by a data coordinating center, virological testing center, and central sample repository. Patients with chronic hepatitis C and advanced fibrosis or cirrhosis on liver biopsy who failed to respond to a previous course of interferon alfa were enrolled in this study. Patients were initially treated with a 24-week course of peginterferon alfa-2a and ribavirin. Patients who remained hepatitis C virus RNA positive were then randomized to receive maintenance, low-dose peginterferon or to be followed on no treatment. Liver biopsies were done before enrollment and after 2 and 4 years of treatment or follow-up. The endpoints were development of cirrhosis, hepatic decompensation, hepatocellular carcinoma, death, or liver transplantation. 1050 patients were randomized and followed through the 4 year randomized phase of the trial and as long as 4 years off treatment. Serum samples collected at multiple time points, DNA and liver tissue are available for scientific investigation.

Proper citation: HALT-C Trial (RRID:SCR_001534) Copy   

•   Source: SciCrunch Registry

http://www.ucdavis.edu/

Proper citation: University of California at Davis; California; USA (RRID:SCR_012713) Copy   

•   Source: SciCrunch Registry

https://www.rarelens.org/

Artificial intelligence platform designed to assist clinicians with rare diseases across screening, diagnosis, treatment planning, and prognosis. It uses coordinated AI modules to handle complex medical decision-making for over 7,000 rare conditions. AI-Driven Rare Disease Clinical Decision Support.

Proper citation: RareLens (RRID:SCR_028824) Copy   

•   Source: SciCrunch Registry

https://ndriresource.org/for-researchers/services-capabilities-sample/htorr

NDRI’s Human Tissue and Organs for Research Resource (HTORR) Program has been funded by the National Institutes of Health (NIH) for over 30 consecutive years to support research programs across multiple disciplines. It is through the HTORR program that NDRI provides academic biomedical investigators with donated normal and diseased human tissues and organs recovered from a diverse donor pool using customized procurement, processing, and preservation and distribution protocols. Our HTORR Program supports academic biomedical research investigators needs by providing: Access to a wide array of human biospecimens from any body system * Customized procurement in a variety of preservation formats including fresh, frozen, and fixed suitable for various analytical techniques * Reduced costs for tissue procurement * Technical support to design your studies utilizing human biospecimens * Letters of support and budgetary information for grant applications

Proper citation: Human Tissue and Organ for Research Resource (HTORR) (RRID:SCR_002859) Copy   

•   Source: SciCrunch Registry

http://www.azcc.arizona.edu/research/shared-services/tacmass/tissue-acquisition

TACMASS collects, preserves, and banks biospecimens obtained from Arizona Cancer Center surgical patients who are seen by University Medical Center surgeons and oncologists. Biospecimens collected at the time of surgery include fresh surgical tissue, blood and urine. Serum, plasma and genomic DNA are harvested from the whole blood. AZCC Members and collaborators may request the use of banked biospecimens through TACMASS. The patient's surgeon or oncologist is responsible for consenting the patient for submission of surgical specimens to the AZCC BioRepository (IRB #06-0609-04, Setsuko Chambers, PI). The surgeon and the Department of Pathology attending physicians and residents are responsible for identifying appropriate tissue for banking that will not compromise pathological diagnosis. Tumor and/or normal adjacent tissue, identified by gross examination, that will not be needed for pathological diagnosis are preserved by fixing in formalin, snap freezing, and/or fixing in RNALater. Histological diagnosis is rendered on each piece of formalin-fixed and snap frozen tissue by Hematoxylin and Eosin staining (H&E). Everyone involved in submitting specimens to the Tumor Bank must maintain a current CITI Certification.

Proper citation: Arizona Cancer Center Tumor Bank (RRID:SCR_003544) Copy   

•   Source: SciCrunch Registry

http://www.cancer.duke.edu/modules/TissueProcurement29/index.php?id=1

THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 16, 2013. Over 10,000 patient consents, 5,000 banking events, and 40,000 biospecimens have been processed to date with storage of both formalin fixed paraffin embedded (FFPE) tissue and frozen tissue located within multiple freezers spanning temperatures in the range of -80 degrees to -180 degrees C depending on protocol requirements. Considerable effort continues to be expended to assure compliance with IRB, NIH and HIPAA best practices and guidelines on banking human tissues. The biorepository in place today is the result of the combined efforts of the Duke Cancer Institute (DCI) Breast SPORE, DCI Shared Resource for Tissue and Blood Procurement, and the Duke University School of Medicine Research Foundation (DUSOM-RF). The DCI and the School of Medicine Research Foundation (SOMRF) have funded the collection of frozen and fixed tissues, both malignant and benign, under an ?????????????????excess tissue????????????????? protocol that utilizes freshly excised tissue that is available for research after the needs of the pathologic workup are met. This program procures tissues from many anatomic sites including breast. Recently Duke''s Institute of Genome Science & Policy (IGSP), under the direction of Drs. Geoff Ginsburg and Tom Burke, initiated a blood collection program that spans several departments and institutes. The Breast SPORE blood collection program served as the pilot for this much larger effort. The Breast SPORE tissue and blood collection effort utilizes much of the same infrastructure and personnel that are also supported by the DCI, SOMRF, and IGSP.

Proper citation: DCI Tissue and Blood Procurement Shared Resource (RRID:SCR_004116) Copy   

•   Source: SciCrunch Registry

https://www.ctrnet.ca/

The Canadian Tumour Repository Network (CTRNet) is a not-for-profit consortium of leading provincial tumor banks and programs that furthers Canadian health research. CTRNet provides interested researchers with a streamlined process to obtain quality human tissue and human tissue products from member tumor banks. The benefits of working with CTRNet.ca include: * The ability for researchers to search for quality controlled tissue samples from Canada''''s leading tumor banks in one central location and for biobanks to display and make their biospecimens available for research users. * Learning opportunities in tissue handling, research design and relevant technology training and innovations. * Invitation to CTRNet workshops and conferences. * A resource for current news links and discussion forums about cancer research and tumor banking. The vision of CTRNet is to create new opportunities for translational cancer research that will improve cancer outcomes in Canada and beyond. Through the creation and maintenance of an online pan-Canadian network, researchers will gain unprecedented access to a new and comprehensive source of tissue and clinical data. The network is a sustainable resource and operates according to the highest scientific and ethical standards for research to benefit all Canadians. Currently CTRNet has the following member banks: * CBCF Tumor Bank Alberta * Manitoba Tumour Bank * Ontario Tumour Bank * British Columbia Cancer Agency Tumour Tissue Repository (BCCA-TTR) * Le r��seau de recherche en cancer du FRSQ * NCIC Clinical Trials Group

Proper citation: Canadian Tumour Repository Network (RRID:SCR_004192) Copy   

•   Source: SciCrunch Registry

http://www.progeriaresearch.org/cell_tissue_bank.html

The PRF Cell & Tissue Bank provides medical researchers with genetic and biological material from Progeria patients and their families, so that research on Progeria and other age-related diseases can be performed. We''ve been hard at work with the families and their physicians to gather these precious biological materials. As you know, Hutchinson-Gilford Progeria Syndrome is an extremely rare condition. Thus while access to cell lines is essential for studying the biology and genetics of the disorder, there are very few cell lines in existence. Because an integral part of PRF''s mission is to stimulate interest in, and NIH funding opportunities for, Progeria research, there is an increased need for cell lines. The PRF Cell Bank will ensure that need is met! The goals of The PRF Cell & Tissue Bank are to promote: * Sufficient availability of cells for approved research projects * Incentive for new research projects * Study of the biochemical basis for Hutchinson-Gilford Progeria Syndrome * Discoveries leading to new treatments for children with Progeria * Discovery of a cure for Progeria

Proper citation: Progeria Cell and Tissue Bank (RRID:SCR_004194) Copy   

•   Source: SciCrunch Registry

http://neuronbank.org/wiki

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 28,2023. Platform for Neuroscientists to describe neurons and neural circuitry. Registered users may edit. The ultimate goal is advance the field of Neuromics by creating an encyclopedia of neurons and neural circuitry. NOTE: The database is no longer being maintained due to lack of funding.

Proper citation: NeuronBank (RRID:SCR_002004) Copy   

•   Source: SciCrunch Registry

http://www.gensat.org/retina.jsp

Collection of images from cell type-specific protein expression in retina using BAC transgenic mice. Images from cell type-specific protein expression in retina using BAC transgenic mice from GENSAT project.

Proper citation: Retina Project (RRID:SCR_002884) Copy   

•   Source: SciCrunch Registry

http://sunnybrook.ca/research/?page=sri_core_tbank_home

Sunnybrook Research Institute''s tumour bank provides a mechanism for the optimal collection, storage and distribution of human tissue for investigative purposes. We collect both freshly frozen and formalin-fixed paraffin-embedded tumour and normal samples, retrospectively and prospectively (informed consent and confidential consent is obtained from patients before sample collection). We offer the 1. Distribution of tissue and data to interested investigators after approval from the institutional research ethics board and 2. Collaboration with various research investigators. Our mandate is to design, implement and manage the structures and processes to ensure the timely provision of tissue samples and associated data. We are currently building bank on four disease sites: breast, prostate, colorectal, gynecological. We are also creating and maintaining a database with a tissue tracking and inventory system, using TissueMetrix software.

Proper citation: Sunnybrook Tumour Bank (RRID:SCR_004138) Copy   

•   Source: SciCrunch Registry

http://www.lerner.ccf.org/gmi/gmb/

A biorepository is a place where investigators can deposit and store biological material, in this case samples derived from patients. Moreover, the Genomic Medicine Institute (GMI) takes this basic concept and elevates it to make the Genomic Medicine Biorepository (GMB) a full-service processing and banking laboratory that serves as the foundation for evidence-based research for the GMI, the Cleveland Clinic, and our collaborators. The process relies on a team of multi-disciplinary professionals coordinating their efforts in order to streamline medical research. This begins with dedicated physicians and genetic counselors identifying individuals with specific medical conditions indicating the possibility of genetic involvement. Once identified, biological material (e.g. blood, tissue, or saliva) is collected under the care of the patient''s doctor or by our clinicians and sent to the GMB. Once in the lab, the patient and their samples are assigned a unique identifier (to protect the patient''s personal information) and logged into a central database. This unique identifier accompanies all samples processed and banked for that individual. The specimens are then processed into research-relevant samples using proven laboratory techniques and state-of-the-art quality control practices. These samples include the isolation of DNA and RNA from white blood cells for genetic studies; collection of plasma for proteomic studies; and initiated immortalized cell lines from lymphocytes for in-vitro studies and biochemical research. These cell lines are able to be indefinitely stored in cryogenic suspension and are invaluable as a renewable resource for genetic and biochemical research. The GMB also processes genetic material from various tissues (both fresh and archived). Charis Eng, MD, PhD, Chair and Director of the GMI, has been the faculty oversight person of a human biorepository for the last eight years. Since then, our biorepository has received, cataloged, processed, and banked, in excess of 25,000 specimens. These samples are of numerous tissue types from patients and their family members located all over the world. Our biorepository has managed samples that have resulted in more than 150 original peer reviewed articles and greater than $25 million total direct costs in extramural funding over the last four years alone.

Proper citation: Cleveland Clinic Genomic Medicine Biorepository (RRID:SCR_004136) Copy   

•   Source: SciCrunch Registry

https://www.bips-institut.de/en/research/biobank.html

Biobank that contains more than 50,000 blood, urine and saliva samples as well as tissue materials from epidemiological field studies. The samples and DNA collected in various studies are increasingly being used for the investigation of genetic, environmental and life-style associated factors in the etiology and prognosis of cancer and other chronic diseases such as obesity, diabetes and metabolic syndrome.

Proper citation: Leibniz Institute for Prevention Research and Epidemiology Biobank (RRID:SCR_004094) Copy   

•   Source: SciCrunch Registry

http://www.escholarship.org/

Provides comprehensive publication services for Univeristy of California affiliated departments, research units, publishing programs, and individual scholars who seek to publish original, open access journals, books, conference proceedings, and other scholarship. Content is delivered via research platform and is available to scholars worldwide.

Proper citation: eScholarship (RRID:SCR_002624) Copy   

•   Source: SciCrunch Registry

http://www.lionseyeinstitute.org/about-us/

A nonprofit ocular research center with the largest eye bank in the world that provides eye tissue for research and transplantation to ophthalmic specialists and surgeons nationwide. They empower researchers to conduct real-time studies of healthy and diseased ocular tissue leading to a greater understanding of the events that lead to blindness. Their mission is to improve visual outcomes and quality of life for those who are blind or visually impaired through innovative ocular endeavors.

Proper citation: Lions Eye Institute for Transplant and Research (RRID:SCR_004008) Copy   

•   Source: SciCrunch Registry

http://www.lifesharing.org/index.php?option=com_content&view=article&id=5:tissue-bank&catid=4:tissue-bank&Itemid=6

Lifesharing Tissue Services provides the opportunity to improve and extend lives through the procurement, processing, storage and distribution of human tissue for transplantation and research. Originally established in 1984 to support the Burn Center at UCSD Medical Center, Lifesharing Tissue Services is a non-profit organization serving San Diego and Imperial counties in Southern California. The majority of tissues recovered by Lifesharing Tissue Services stay in this region to enable physicians to provide the best possible care for critically ill patients. Tissue grafting not only reduces pain and speeds recovery, but it also improves a patient''s quality of life. Fully accredited by the American Association of Tissue Banks (AATB) and the Food and Drug Administration (FDA), Lifesharing Tissue Services works to ensure the highest quality of tissue and technical service. Lifesharing is a member of the United Network for Organ Sharing (UNOS).

Proper citation: Lifesharing Tissue Services (RRID:SCR_004325) Copy   

•   Source: SciCrunch Registry

http://www.alabamaorgancenter.org

The Alabama Organ Center (AOC) is the federally designated organ procurement organization for the state of Alabama. We work with all of the hospitals in the state to coordinate their donation services. Like all organ procurement organizations, the AOC is a non-profit organization. We provide a variety of services: * Hospital education * Public education * Screening of potential donors * Coordination of the donation process * Family support The AOC is committed to providing a better quality of life for those who require an organ or tissue transplant, while respecting the families who share the gift of life.

Proper citation: Alabama Organ Center (RRID:SCR_004721) Copy   

•   Source: SciCrunch Registry