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http://caties.cabig.upmc.edu/

The Cancer Text Information Extraction System (caTIES) provides tools for de-identification and automated coding of free-text structured pathology reports. It also has a client that can be used to search these coded reports. The client also supports Tissue Banking and Honest Broker operations. caTIES focuses on two important challenges of bioinformatics * Information extraction (IE) from free text * Access to tissue. Regarding the first challenge, information from free-text pathology documents represents a vital and often underutilized source of data for cancer researchers. Typically, extracting useful data from these documents is a slow and laborious manual process requiring significant domain expertise. Application of automated methods for IE provides a method for radically increasing the speed and scope with which this data can be accessed. Regarding the second challenge, there is a pressing need in the cancer research community to gain access to tissue specific to certain experimental criteria. Presently, there are vast quantities of frozen tissue and paraffin embedded tissue throughout the country, due to lack of annotation or lack of access to annotation these tissues are often unavailable to individual researchers. caTIES has three goals designed to solve these problems: * Extract coded information from free text Surgical Pathology Reports (SPRs), using controlled terminologies to populate caBIG-compliant data structures. * Provide researchers with the ability to query, browse and create orders for annotated tissue data and physical material across a network of federated sources. With caTIES the SPR acts as a locator to tissue resources. * Pioneer research for distributed text information extraction within the context of caBIG. caTIES focuses on IE from SPRs because they represent a high-dividend target for automated analysis. There are millions of SPRs in each major hospital system, and SPRs contain important information for researchers. SPRs act as tissue locators by indicating the presence of tissue blocks, frozen tissue and other resources, and by identifying the relationship of the tissue block to significant landmarks such as tumor margins. At present, nearly all important data within SPRs are embedded within loosely-structured free-text. For these reasons, SPRs were chosen to be coded through caTIES because facilitating access to information contained in SPRs will have a powerful impact on cancer research. Once SPR information has been run through the caTIES Pipeline, the data may be queried and inspected by the researcher. The goal of this search may be to extract and analyze data or to acquire slides of tissue for further study. caTIES provides two query interfaces, a simple query dashboard and an advanced diagram query builder. Both of these interfaces are capable of NCI Metathesaurus, concept-based searching as well as string searching. Additionally, the diagram interface is capable of advanced searching functionalities. An important aspect of the interface is the ability to manage queries and case sets. Users are able to vet query results and save them to case sets which can then be edited at a later time. These can be submitted as tissue orders or used to derive data extracts. Queries can also be saved, and modified at a later time. caTIES provides the following web services by default: MMTx Service, TIES Coder Service

Proper citation: caTIES - Cancer Text Information Extraction System (RRID:SCR_003444) Copy   

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http://www.leaddiscovery.co.uk/

LeadDiscovery was founded by life scientists to expedite drug discovery and pharmaceutical development. Based on a solid background of experience from within the pharmaceutical research and development sector, the aim of this resource is to help companies optimize drug discovery and product pipelines through the identification of breaking research and the in depth and expert evaluation of selected therapeutic areas. At the same time it also provides a showcase for pharmaceutical, biotechnology and academic organizations wishing to increase the exposure of their research to the drug development community. LeadDiscovery sits at the center of this sector helping companies to identify commercially viable R&D options from within small biotechs and the public sector. Additionally, it supports the drug discovery and pharmaceutical development community through three key services: DailyUpdates, UpdatesPlus and PharmaReports - DailyUpdates: Launched in 2002 this popular e-mail alert service delivers information on breaking research, new clinical trials, drug development news and recently published market research and pipeline analysis reports. Registration to receive the service is available here - UpdatesPlus: Developed in 2007 as an extension of DailyUpdates, UpdatesPlus provides a monthly in depth analysis of breaking research and development activity in high profile therapeutic areas. - PharmaReports: LeadDiscovery offers a wide range of in depth pharmaceutical reports. It''s reports include market research reports and pipeline analyses. You can search our entire portfolio using LeadDiscovery''s search engine. Alternatively as it are one of the few information providers that has extensive research and development experience, LeadDiscovery occupys a unique position of being able to source reports that accurately meet your needs. If we don''t have a report that fits your requirements, it can produce one through its pharmaceutical consultancy services. LeadDiscovery offers full reports in selected areas of the pharmaceutical and biotech sector. Each of the reports below has been especially selected by LeadDiscovery and categorized into relevant areas: - Oncology - Cancer Immunotherapy - Immunology & Inflammatory Diseases - Infectious Diseases - Psychiatric, Addictive & Sleep Disorders - Pain - Neurodegenerative & Neuroelectrophysiological Disorders - Metabolic & Hormonal Disorders - Cardiovascular Disorders - GenitoUrinary Tract Disorders - Technology - Diagnostics & Devices - Other Theraputic Areas, Pharmaceutical Strategy and Development

Proper citation: LeadDiscovery: Providing Information to the Drug Discovery Sector (RRID:SCR_006464) Copy   

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http://www.cdc.gov/genomics/default.htm

The Office of Public Health Genomics (OPHG) aims to integrate genomics into public health research, policy, and programs. Doing so could improve interventions designed to prevent and control the country''s leading chronic, infectious, environmental, and occupational diseases. OPHG''s efforts focus on conducting population-based genomic research, assessing the role of family health history in disease risk and prevention, supporting a systematic process for evaluating genetic tests, translating genomics into public health research and programs, and strengthening capacity for public health genomics in disease prevention programs. Goals: To improve public health interventions of diseases of major public health importance, including chronic, infectious, environmental, and occupational diseases, through six major initiatives: * Evaluation of Genomic Applications in Practice and Prevention (EGAPP), * Human Genome Epidemiology Network (HuGENet), * NHANES Collaborative Genomics Project, * Family History Public Health Initiative, * Genomics Translation Research and Programs, and, * Genomic Applications in Practice and Prevention Network (GAPPNet).

Proper citation: Public Health Genomics (RRID:SCR_006462) Copy   

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http://www.nichd.nih.gov/research/supported/seccyd/Pages/overview.aspx

It is the most comprehensive child care study conducted to date to determine how variations in child care are related to children''s development. The NICHD SECCYD is a longitudinal study initiated by The National Institute of Child Health and Human Development (NICHD) in 1989 to answer the many questions about the relationship between child care experiences and characteristics and children''s developmental outcomes. After a thorough scientific review, the NICHD selected a research team located at universities across the U.S., and at the NICHD, together providing multiple perspectives on and interests in child care research. The network was led and managed by a Steering Committee which included an independent chairperson, one representative from each of the grantee sites, one representative from the data center and one representative from NICHD. The Steering Committee established policies and procedures that governed the operations of the network, including its publication procedures. The progress of the study was monitored by NICHD and by the Steering Committee with guidance from an Advisory Board which was nominated by the Director of NICHD. This team of researchers worked cooperatively to design and implement the study, and in 1991, enrolled a very diverse sample of children and their families at 10 locations across the U.S. The NICHD SECCYD is characterized by a complex and detailed study design which takes into account many variables, including characteristics of the child care and the family environment. Researchers assessed children''s development using multiple methods (trained observers, interviewers, questionnaires, and testing) and measuring many facets of children''s development (social, emotional, intellectual, language development, behavioral problems and adjustment, and physical health). The 1,364 children and their families enrolled in the study were followed from birth to age 3 years during Phase I of the study from 1991-1994. Phase II of the study was conducted between 1995-2000 to follow the 1226 children and families continuing to participate from age 54 months through their second year in school. Phase III of the study was conducted between 2000 - 2005 to follow over 1100 of the children through their seventh year in school. Phase IV was conducted between 2006 2007 to follow over 1000 of the original families through age 15. The NICHD SECCYD was conducted by a network of investigators, the NICHD Early Child Care Research Network. You may view information regarding data assessments, study publications, as well as a listing of the study researchers and committee members on the study website located at http://secc.rti.org. Qualified researchers are able to become affiliates with the study to utilize data from all phases of the study. As of January 2009, the Inter-University Consortium for Political and Social Research (ICPSR) at the University of Michigan assumed responsibility for the administration of data use agreements for the Phase I IV data. The ICPSR Data Use Agreement can be found at the following location: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/21940/documentation. If you have questions regarding the ICPSR process, please contact Russel Hathaway at rhataway (at) umich.edu.

Proper citation: NICHD SECCYD (RRID:SCR_006920) Copy   

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http://painconsortium.nih.gov/

The NIH Pain Consortium was established to enhance pain research and promote collaboration among researchers across the many NIH Institutes and Centers that have programs and activities addressing pain. To this end, the following goals have been identified for the Pain Consortium: * To develop a comprehensive and forward-thinking pain research agenda for the NIH - one that builds on what we have learned from our past efforts. * To identify key opportunities in pain research, particularly those that provide for multidisciplinary and trans-NIH participation. * To increase visibility for pain research - both within the NIH intramural and extramural communities, as well as outside the NIH. The latter audiences include our various pain advocacy and patient groups who have expressed their interests through scientific and legislative channels. * To pursue the pain research agenda through Public-Private partnerships, wherever applicable. This underscores a key dynamic that has been reinforced and encouraged through the Roadmap process.

Proper citation: NIH Pain Consortium (RRID:SCR_006767) Copy   

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http://thompsoncenter.missouri.edu/

The mission of the Thompson Center is to improve the lives of individuals and families affected by autism and neurodevelopmental disorders through world class programs that integrate research, clinical service delivery, education and public policy. The Thompson Center''s vision is to become a recognized national center of excellence that serves as a model of interdisciplinary practice, research and training in the field of autism and neurodevelopmental disorders. At the MU Thompson Center, education and training activities are a key part of our mission. Our goal is to teach others about the needs of persons with autism and other neurodevelopmental disorders and their families. In addition, we strive to help learners acquire skills needed to improve the outcomes of individuals with developmental differences. These skills include evidence-based assessment and intervention strategies, interdisciplinary approaches to service delivery, research methods, and policy development. The Thompson Center offers a range of health, educational and behavioral services in one location for individuals with autism and other developmental concerns. Professionals from different disciplines strive to deliver family-centered care that is comprehensive and coordinated. Autism recently has been recognized as a national public health concern, and federal research funding in this area has increased substantially. Faculty members engage in research that will lead to early identification, treatment and ultimately prevention of autism spectrum disorders (ASD). How findings may eventually translate into improved outcomes in clinical and community settings is a primary goal of our research.

Proper citation: Thompson Center for Autism and Neurodevelopmental Disorders (RRID:SCR_006812) Copy   

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http://med.stanford.edu/narcolepsy.html

The Stanford Center for Narcolepsy was established in the 1980s as part of the Department of Psychiatry and Behavioral Sciences. Today, it is the world leader in narcolepsy research with more than 100 articles on narcolepsy to its name. The Stanford Center for Narcolepsy was the first to report that narcolepsy-cataplexy is caused by hypocretin (orexin) abnormalities in both animal models and humans. Under the direction of Drs. Emmanuel Mignot and Seiji Nishino, the Stanford Center for Narcolepsy today treats several hundred patients with the disorder each year, many of whom participate in various research protocols. Other research protocols are conducted in animal models of narcolespy. We are always looking for volunteers in our narcolepsy research studies. We are presently recruiting narcoleptic patients for genetic studies, drug clinical trials, hypocretin measurement studies in the CSF and functional MRI studies. Monetary gifts to the Center for Narcolepsy are welcome. If you wish to make the ultimate gift, please consider participating in our Brain Donation Program. To advance our understanding of the cause, course, and treatment of narcolepsy, in 2001 Stanford University started a program to obtain human brain tissue for use in narcolepsy research. Donated brains provide an invaluable resource and we have already used previously donated brains to demonstrate that narcolepsy is caused by a lack of a very specific type of cell in the brain, the hypocretin (orexin) neuron. While the brain donations do not directly help the donor, they provide an invaluable resource and a gift to others. The real answers as to what causes or occurrs in the brain when one has narcolepsy will only be definitively understood through the study of brain tissue. Through these precious donations, narcolepsy may eventually be prevented or reversible. We currently are seeking brains from people with narcolepsy (with cataplexy and without), idiopathic hypersomnia and controls or people without a diagnosed sleep disorder of excessive sleepiness. Control brains are quite important to research, as findings must always be compared to tissue of a non-affected person. Friends and loved ones of people who suffer with narcoleps may wish to donate to our program to help fill this very important need. Refer to the Movies tab for movies of Narcolepsy / Cataplexy.

Proper citation: Stanford Center for Narcolepsy (RRID:SCR_007021) Copy   

•   Source: SciCrunch Registry

http://chao.stat.nthu.edu.tw/

This portal takes you to the website of Professor Anne Chao of the National Tsing Hua University, China. She studies birds. The portal offers Software, course information, publications and teaching. There are about 458 bird species in Taiwan. We have observed 155 species in our neighboring Ker-Yar estuary. We would estimate the total number of species in this area to be 180 including those unobserved. The more we discover about birds, the more we realize how intimately and closely our lives are entwined with those of birds. When the habitats of birds are destroyed and birds become extinct, we human beings are losing the land....

Proper citation: Professor Anne Chaos Website (RRID:SCR_007205) Copy   

•   Source: SciCrunch Registry

http://www.azcert.org

Arizona CERT is an independent research and education center whose mission is to improve therapeutic outcomes and reduce adverse events caused by drug interactions and drugs that prolong the QT interval, especially those affecting women. The CERTs mission is to conduct research and provide education that will advance the optimal use of drugs, medical devices, and biological products The Arizona CERT is a program of the Critical Path Institute in collaboration with the Center for Health Outcomes and PharmacoEconomic Research at The University of Arizona College of Pharmacy. It is one of 14 national CERTs funded by the U.S. Agency for Healthcare Research and Quality (AHRQ).

Proper citation: Arizona Center for Education and Research on Therapeutics (RRID:SCR_007201) Copy   

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http://www.visionnetwork.nei.nih.gov/

The National Eye Institute (NEI) created the VISION Public Information Network for the purpose of communicating with public information officers at NEI grantee institutions. The Network''s primary mission is to work with the NEI in disseminating research results to the national and local media. The Network also works to inform the public of the mission of the National Institutes of Health (NIH) to improve the health of America through medical research. The NEI is part of the NIH, U.S. Department of Health and Human Services (DHHS). General information portal for eye and vision related resources for the public. Sponsors: This resource is supported by the National Eye Institute.

Proper citation: Vision Public Information Network (RRID:SCR_007340) Copy   

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http://www.nichd.nih.gov/research/supported/pages/tbi.aspx

The National Center for Medical Rehabilitation Research (NCMRR) established a multi-center network of sites that are working together to design clinical intervention protocols and measures of outcome for TBI. Through rigorous patient evaluation, using common protocols and interventions designed for multiple points of care����??including the accident scene, emergency room, intensive care unit, rehabilitation and long-term follow-up����??the NCMRR TBI Clinical Trials Network can study the required numbers of patients to provide answers more rapidly than individual centers acting alone. This interdisciplinary research Network is designed to evaluate the relationship among acute care practice, rehabilitation strategies, and the long-term functional outcome of TBI patients����??that is, to identify which intervention variables result in improvements in long-term outcomes. Taking advantage of the network model structure has allowed TBI research to progress toward a number of clinical research goals. Specifically, the NCMRR wants to highlight two major achievements to date. First, the TBI Network created a profile of its typical patient to determine the number of patients with different clinical features who might be eligible for future studies and to help estimate recruitment times necessary. Second, Network researchers are developing clinical treatment guidelines and procedures for all points in the continuum of care, including TBI Clinical Trials Network Guidelines for surgical care, systems-based protocol for severe and moderate TBI patients, deep-vein thrombosis prophylaxis procedures, and rehabilitation guidelines for physical therapy, speech-language pathology, occupational therapy, and neuropsychology.

Proper citation: Traumatic Brain Injury Clinical Trials Network (RRID:SCR_013165) Copy   

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http://www.kennedykrieger.org/kki_2nd_inside.jsp?pid=3

Kennedy Krieger Institute is an institution dedicated to improving the lives of children and adolescents with pediatric developmental disabilities through patient care, special education, research, and professional training. Kennedy Kriegers clinical programs offer an interdisciplinary approach in treatment tailored to the individual needs of each child. Services include over 40 outpatient clinics; neurobehavioral, rehabilitation, and pediatric feeding disorders inpatient units; plus several home and community programs providing services to assist families. At Kennedy Krieger, there is no shortage of clinical programs to meet the specialized needs of children and adolescents with developmental disabilities. More than 35 different outpatient clinics, three inpatient units, several home and community programs and clinical laboratories all address the specific conditions of children with a wide range of disorders. Kennedy Krieger is recognized for its range of services in areas including autism, cerebral palsy, spina bifida, neurorehabilitation and feeding disorders. Kennedy Krieger school, is a nationally recognized Blue Ribbon School of Excellence, and is a leader in providing model programs of innovative education for children, adolescents and young adults with a wide range of learning, emotional, physical, neurological, and developmental disabilities. Faculty at Kennedy Krieger are among some of the worlds leading experts in this field and are attuned to the special needs of this population. These faculty have made crucial medical discoveries leading to innovative treatments and have improved the lives of individuals with disabilities. In addition to providing evaluation, rehabilitation, educational services and cutting edge research on behalf of children with brain related disabilities, Kennedy Krieger also provides professional training by renowned experts dedicated to increasing the number of qualified specialists in the United States and abroad. Children treated at Kennedy Krieger are seen by a variety of health care professionals working together in one or more of the Institutes clinical disciplines or departments. These highly trained professionals work directly with the Institutes medical staff to provide coordinated, interdisciplinary care tailored to the special needs of each child. This interdisciplinary approach puts Kennedy Krieger at the forefront in providing patient care for individuals with multiple developmental disabilities. Additionally, Kennedy Krieger Institutes Department of Special Education includes a number of programs that offer service to children with disabilities in a variety of settings. Kennedy Krieger School programs offer special education and related services to students aged 3-21 in three day-school settings and in partnership settings within public schools. For your convenience, a list of diagnoses/disorders treated at Kennedy Krieger Institute has been compiled to provide helpful related information for each diagnosis/disorder and include definitions, symptoms, treatment programs available at Kennedy Krieger, research being conducted at Kennedy Krieger, press releases, Potential articles and links to other helpful additional resources and websites outside the Institute.

Proper citation: Kennedy Krieger Institute: Diagnoses/Disorders (RRID:SCR_013260) Copy   

•   Source: SciCrunch Registry

http://www.viprbrc.org/brc/home.do?decorator=vipr

Provides searchable public repository of genomic, proteomic and other research data for different strains of pathogenic viruses along with suite of tools for analyzing data. Data can be shared, aggregated, analyzed using ViPR tools, and downloaded for local analysis. ViPR is an NIAID-funded resource that support the research of viral pathogens in the NIAID Category A-C Priority Pathogen lists and those causing (re)emerging infectious diseases. It provides a dedicated gateway to SARS-CoV-2 data that integrates data from external sources (GenBank, UniProt, Immune Epitope Database, Protein Data Bank), direct submissions, analysis pipelines and expert curation, and provides a suite of bioinformatics analysis and visualization tools for virology research.

Proper citation: Virus Pathogen Resource (ViPR) (RRID:SCR_012983) Copy   

•   Source: SciCrunch Registry

http://www.ritsumei.ac.jp/~akitaoka/index-e.html

This portal describes Professor Kitaoka Akiyoshi''s research in the science of visual illusions. Working as an associate professor at the Ritsumeiken University, Department of Psychology, he is one of the few researchers in Japan to be actively researching in this field of study. Professor Kitaoka defines an illusion as a misperception of a real object, adding that defining what is real is a difficult task that depends on recognition and epistemology. An illusion is formed when the perceived characteristics of the object differ from the physical characteristics. Professor Kitaoka first started studying visual illusions when working at the Tokyo Metropolitan Institute for Neuroscience, before coming to RU. He currently researches geometrical, color, lightness, and motion illusions and visual completion, and has become a prominent expert in the field, publishing a wide range of articles on the subject as well as the popular books Trick Eyes, Trick Eyes 2, Trick Eyes Graphics, and the Handbook of the Science of Illusion. To create his illusions, Professor Kitaoka uses graphic design software such as CorelDRAW, Adobe Illustrator, and the drawing software included in Microsoft Word in addition to making use of programming languages like Borland Delphi (Pascal). All of the images set out to test hypotheses that serve to advance his study of illusions and their applications for other visual functions. The goal of his research is to test visual mechanisms through visual illusions.

Proper citation: Akiyoshis illusion pages (RRID:SCR_013187) Copy   

•   Source: SciCrunch Registry

Ratings or validation data are available for this resource

http://www.olympus-lifescience.com/en/software/cellsens/

Software suite for image acquisition and analysis. The software can be paired with high-quality cameras to maximize output quality and export it for sharing and research applications.

Proper citation: Olympus cellSens Software (RRID:SCR_014551) Copy   

•   Source: SciCrunch Registry

http://derc.yale.edu

University-affiliated center that promotes research in diabetes and related metabolic and endocrine disorders at Yale University.

Proper citation: Yale Diabetes Research Center (RRID:SCR_015142) Copy   

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https://www.niddk.nih.gov/research-funding/research-programs/kidney-disease-centers

Research program whose aim is to make state-of-the art technologies and resources accessible to a broad spectrum of investigators pursuing studies in kidney research areas.

Proper citation: O'Brien Kidney Centers (RRID:SCR_015270) Copy   

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https://www.med.upenn.edu/idom/

NIDDK center that serves diabetes-oriented investigators from University of Pennsylvania as well as additional institutions from the mid-Atlantic region. The Penn DRC represents many basic science and clinical departments at Penn and the other institutions, and supports research in diabetes and obesity via Scientific Cores, a Pilot and Feasibility Grant Program, and a series of seminars, retreats, and other academic enrichment activities.

Proper citation: University of Pennsylvania Diabetes Research Center (RRID:SCR_015732) Copy   

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http://digestivediseasescenters.org/content/ddrc-emory-university-overview

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 5th,2023. Center for pathobiology research development.

Proper citation: Emory Epithelial Pathobiology Research Development Center (RRID:SCR_015916) Copy   

•   Source: SciCrunch Registry

http://www.mscenter.org/research/tissue-bank/

Scientists throughout the world depend on the Rocky Mountain MS Center Tissue Bank to supply high quality human brain tissue and cerebral spinal fluid to support their research. Funded in part by the National MS Society, the Tissue Bank is one of only four MS-related tissue banks in the nation. The Tissue Bank has distributed specimens to more than 160 investigators worldwide and over 1,600 people have consented to be donors after death. Tissue banks provide a unique bridge between those who live with MS and the scientific community. Studies conducted with samples from the Center have led to several important discoveries and 130 publications. While deeply personal, the decision to donate has far-reaching effects as scientists unlock the mysteries of multiple sclerosis. If you would like to donate, arrangements must be made in advance because it is important that tissue is taken within a few hours of death. For more information on making a donation, visit the How To Donate section of this website and contact the Rocky Mountain MS Center Tissue Bank at 303.788.4030 x111.

Proper citation: Rocky Mountain MS Center Tissue Bank (RRID:SCR_004361) Copy   

•   Source: SciCrunch Registry