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http://snyderome.stanford.edu/

Data set generated by personal omics profiling of Dr. Michael Snyder at Stanford University. It combines genomic, transcriptomic, proteomic, metabolomic, and autoantibody profiles from a single individual over a 14 month period. The analysis revealed various medical risks, including type II diabetes. It also uncovered extensive, dynamic changes in diverse molecular components and biological pathways across healthy and diseased conditions.

Proper citation: iPOP (RRID:SCR_008991) Copy   

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http://wwwcf.nlm.nih.gov/hsrr_search/view_hsrr_record_table.cfm?TITLE_ID=475&PROGRAM_CAME=toc_with_source2.cfm

A data set designed to provide a cross-sectional description of health, mental, and social status of the oldest-old segment of the elderly population in Israel, and to serve as a baseline for a multiple-stage research program to correlate demographic, health, and functional status with subsequent mortality, selected morbidity, and institutionalization. Study data are based on a sample of Jewish subjects aged 75+, alive and living in Israel on January 1, 1989, randomly selected from the National Population Register (NPR), a complete listing of the Israeli population maintained by the Ministry of the Interior. The NPR is updated on a routine basis with births, deaths, and in and out migration, and corrected by linkage with census data. The sample was stratified by age (five 5-year age groups: 75-79, 80-84, 85-89, 90-94, 95+), sex, and place of birth (Israel, Asia-Africa, Europe-America). One hundred subjects were randomly selected in each of the 30 strata. However, there were less than 100 individuals of each sex aged 95+ born in Israel, so all were selected for the sample. The total group included 2,891 individuals living both in the community and in institutions. A total of 1,820 (76%) of the 75-94 age group were interviewed during 1989-1992. An additional cognitive exam (Folstein) and a 24-hour dietary recall interview were added in the second round. Kibbutz Residents Sample The kibbutz is a social and economic unit based on equality among members, common property and work, collaborative consumption, and democracy in decision making. There are 250 kibbutzim in Israel, and their population constitutes about 3% of the country''s total population. All kibbutz residents in the country aged 85+, both members and parents, were selected for interviewing, of whom 80.4% (n=652) were interviewed. A matched sample aged 75-84 was selected, and 85.9% (n=674) were successfully interviewed. The original interview took approximately two hours to administer, and collected extensive information concerning the socio-demographic, physical, health, functioning, life events (including Holocaust), depression, mental status, and social network characteristics of the sample. The questionnaire used for kibbutz residents in the follow-up interview is identical to that utilized in the national random sample. Data Availability: Mortality data for both the national and kibbutz samples are available for analysis as a result of the linkage to the NPR file updated as of June 2000. The fieldwork for first follow up was completed as of September 1994 and for the second follow up as of December 2002. The data file of the three phases of the study is ready for analysis. * Dates of Study: 1989-1992 * Study Features: Longitudinal, International * Sample Size: 2,891

Proper citation: Cross-Sectional and Longitudinal Aging Study (RRID:SCR_008903) Copy   

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https://github.com/BRAINSia/BRAINSTools/tree/master/TestData

About 1.2GB of anonymized imaging data of many different file formats used by the BRAINS suite of tools (BRAINSFit, GTRACT, BRAINS, BRAINSTracer... and others) as a common set of anonymized data for nightly regression testing.

Proper citation: BRAINSTestData (RRID:SCR_009517) Copy   

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http://www.rand.org/labor/FLS/MHSS.html

A data set of the health and socioeconomic factors that affect the elderly in Matlab, a region of rural Bangladesh. The survey captures measurements and statistics such as adult survival, health status, health care utilization, resource flows between generations and the impact of community services and infrastructure on adult health care. Data was collected through surveys that touch on four topics: household and individual information; determinants of natural fertility; migration out of the community; and community and provider survey of healthcare and education infrastructure.

Proper citation: Matlab Health and Socio-Economic Survey (RRID:SCR_008942) Copy   

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http://webcache.googleusercontent.com/search?q=cache:srOrfTsktEsJ:https://portal.utpa.edu/portal/page/portal/80C547C751AC1698E04400306EF397E0+&cd=1&hl=en&ct=clnk&gl=us

A dataset of a longitudinal study of over 3,000 Mexican-Americans aged 65 or over living in five southwestern states. The objective is to describe the physical and mental health of the study group and link them to key social variables (e.g., social support, health behavior, acculturation, migration). To the extent possible, the study was modeled after the existing EPESE studies, especially the Duke EPESE, which included a large sample if African-Americans. Unlike the other EPESE studies that were restricted to small geographic areas, the Hispanic EPESE aimed at obtaining a representative sample of community-dwelling Mexican-American elderly residing in Texas, New Mexico, Arizona, Colorado, and California. Approximately 85% of Mexican-American elderly reside in these states and data were obtained that are generalizable to roughly 500,000 older people. The final sample of 3,050 subjects at baseline is comparable to those of the other EPESE studies. Data Availability: Waves I to IV are available through the National Archive of Computerized Data on Aging (NACDA), ICPSR. Also available through NACDA is the ����??Resource Book of the Hispanic Established Populations for the Epidemiologic Studies of the Elderly����?? which offers a thorough review of the data and its applications. All subjects aged 75 or older were interviewed for Wave V and 902 new subjects were added. Hemoglobin A1c test kits were provided to subjects who self-reported diabetes. Approximately 270 of the kits were returned for analyses. Wave V data are being validated and reviewed. A tentative timeline for the archiving of Wave V data is November 2006. Wave VI interviewing and data collection is scheduled to begin in Fall 2006. * Dates of Study: 1993-2006 * Study Features: Longitudinal, Minority oversamples, Anthropometric Measures * Sample Size: ** 1993-4: 3,050 (Wave I) ** 1995-6: 2,438 (Wave II) ** 1998-9: 1,980 (Wave III) ** 2000-1: 1,682 (Wave IV) ** 2004-5: 2,073 (Wave V) ** 2006-7: (Wave VI) Links: * ICPSR Wave 1: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/2851 * ICPSR Wave 2: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/3385 * ICPSR Wave 3: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/4102 * ICPSR Wave 4: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/4314 * ICPSR Wave 5: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/25041 * ICPSR Wave 6: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/29654

Proper citation: Longitudinal Study of Elderly Mexican American Health (RRID:SCR_008941) Copy   

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http://cnef.ehe.osu.edu/#sthash.WuGubz1D.dpuf

A dataset, 1970-2009, containing equivalently defined variables for the British Household Panel Study (BHPS), the Household Income and Labour Dynamics in Australia (HILDA), the Korea Labor and Income Panel Study (KLIPS) (new this year), the Panel Study of Income Dynamics (PSID), the Russia Longitudinal Monitoring Survey (RLMS-HSE) (new this year), the Swiss Household Panel (SHP), the Canadian Survey of Labour and Income Dynamics (SLID), and the German Socio-Economic Panel (SOEP). The data are designed to allow cross-national researchers not experienced in panel data analysis to access a simplified version of these panels, while providing experienced panel data users with guidelines for formulating equivalent variables across countries. The CNEF permit researchers to track yearly changes in the health and economic well-being of older people relative to younger people in the study countries. The equivalent file provides a set of constructed variables (for example pre- and post-government income and United States and international household equivalence weights) that are not directly available on the original surveys. Since the Cross-National Equivalent File 1970-2009 can be merged with the original surveys, PSID-CNEF users can easily incorporate these constructed variables into current analyses. The most recent release of the Equivalent File includes: * BHPS data from 1991 to 2005 on over 21,000 individuals and approximately 6,000 households. * GSOEP data from 1984 to 2007 on over 20,000 individuals and approximately 6,000 households in Germany. * HILDA data from 2001 to 2006 on over 19,000 individuals and 7,000 households. * PSID data from 1980 to 2005 on over 33,000 individuals and approximately 7,000 households. * SHP data from 1999 to 2006 on 12,900 individuals and 5,000 households. * SLID data from 1993 to 2006 on over 95,000 individuals and approximately 32,000 households. With one exception, the CNEF country data are available on CD-ROM from Cornell University for a fee. The Canadian SLID data are not distributed on the CD but are available to CNEF registered researchers through special arrangements with Statistics Canada. Complete instructions for obtaining CNEF data may be accessed on the project website. * Dates of Study: 1980-2007 * Study Features: International, Longitudinal * Sample Size: ** BHPS: 21,000+ ** PSID: 33,000+ ** SLID: 95,000+ ** GSOEP: 20,000+ ** HILDA: 19,000+ ** SHP: 12,900+ NACDA link: http://www.icpsr.umich.edu/icpsrweb/NACDA/studies/00145/detail

Proper citation: Cross-National Equivalent Files (RRID:SCR_008935) Copy   

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http://www.nitrc.org/projects/eegdataanimal

A collection of 32-channel data from 14 subjects (7 males, 7 females) acquired using the Neuroscan software. Subjects are performing a go-nogo categorization task and a go-no recognition task on natural photographs presented very briefly (20 ms). Each subject responded to a total of 2500 trials. Data is CZ referenced and is sampled at 1000 Hz (total data size is 4Gb; more details are given later).

Proper citation: EEG human categorization data (RRID:SCR_009468) Copy   

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http://www.nitrc.org/projects/diffusion-data

An open-data initiative for the distributation of common datasets for the evaluation and validation of diffusion MRI processing methods. http://www.dkfz.de/en/medphysrad/projectgroups/dwi/DTI_projects.html#inhalt3

Proper citation: Diffusion MRI - In-vivo and Phantom Data (RRID:SCR_009464) Copy   

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https://neuinfo.org/mynif/search.php?q=nlx_144644&t=indexable&list=cover&nif=nlx_144509-1

Dataset from an investigation of biochemical evidence of myocardial strain, oxidative stress, and cardiomyocyte injury in 55 acute KD subjects (30 with paired convalescent samples), 54 febrile control (FC), and 50 healthy control (HC) children by measuring concentrations of cardiovascular biomarkers. NT-proBNP and sST2 were elevated in acute KD subjects and correlated with impaired myocardial relaxation. These findings, combined with elevated levels of cTnI, suggest that both cardiomyocyte stress and cell death are associated with myocardial inflammation in acute KD.

Proper citation: Kawasaki Disease Dataset2 (RRID:SCR_008839) Copy   

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https://vpixx.com/products/viewpixx-3d/

VIEWPixx /3D (VPixx Technologies) is a 1920x1080 resolution, 120 Hz, calibrated research-grade LCD monitor. It is designed for stereoscopic (3D) stimulus presentation and other high-dynamic vision-science paradigms where deterministic timing and synchronized I/O are critical. It pairs fast-response industrial TN LCD glass with a custom VPixx panel/video controller and a scanning direct-RGB LED backlight engineered to reduce motion artifacts/ghosting/crosstalk, and to improve spatial uniformity, while bypassing consumer “enhancement” processing for predictable experimental output. For stereoscopic workflows, VIEWPixx /3D supports 120 Hz frame-sequential 3D (60 Hz/eye) when used with 3DPixx active shutter glasses (RF emitter + glasses kit), and it can provide a dual-link DVI console output to mirror the participant's view without adding GPU load. The system is also a synchronized display + acquisition toolbox: integrated button-box interface, 24-channel TTL triggers, stereo audio I/O, and a full analog I/O subsystem are implemented on the same board as video control to enable microsecond-precision synchronization to video refresh—useful for EEG triggers, reaction-time tasks, and other timing-sensitive paradigms.In terms of bit depth, the VIEWPixx /3D is native 8 bits per colour, with support fot 10-bit resolution per RGB channel via custom video modes.

Proper citation: VPixx: VIEWPixx /3D (RRID:SCR_009646) Copy   

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http://www.icpsr.umich.edu/icpsrweb/NACDA/studies/09813/version/1

A longitudinal study which follows the cohort of current residents and discharged residents sampled from the 1985 National Nursing Home Survey (NNHS), thus permitting study of nursing home and hospital utilization over time. The study was conducted in three waves. To supplement the current and discharged resident components, the 1985 NNHS included a new component - the Next-of-Kin (NOK). The NOK, using a Computer Assisted Telephone Interviewing (CATI) system, was designed to collect information about current and former nursing home residents that is not generally available from patient records or other sources in the nursing home. The NNHSF obtains additional information on a portion of the residents for whom a Current Resident Questionnaire (CRQ) or a Discharged Resident Questionnaire (DRQ) was completed. In September 1994, the NNHSF Mortality Public Use Data Tape was released, covering the years 1984-1990. It contains the multiple cause-of-death information for 6,507 subjects from the NNHSF found to be deceased after linking and matching of files with the National Death Index. Information on the mortality tape includes the date of death, region of occurrence and residence, etc. All NNHSF tapes include a patient identification number common across files to allow linkage among them. Data Availability: Public Use data tapes for each wave and the mortality tape are available through the National Technical Information Office (NTIS), NACDA and the ICPSCR at the University of Michigan. The 1985 survey tape includes eight files: the facility questionnaire, nursing staff questionnaire, current resident questionnaire, discharged resident questionnaire, expense questionnaire, nursing staff sampling list, current resident sampling list, discharged resident sampling list. The next-of-kin questionnaire is available on a separate tape. * Dates of Study: 1987-1990 * Study Features: Longitudinal * Sample Size: ** 1987: 6,001 (Wave I) ** 1988: 3,868 (Wave II) ** 1990: 3,041 (Wave III) Links: * Wave I (ICPSR): http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/09813 * Wave II (ICPSR): http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/09838 * Wave III (ICPSR): http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06142

Proper citation: National Nursing Home Survey Follow-Up (RRID:SCR_008948) Copy   

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http://gero.usc.edu/CBPH/nujlsoa/index.htm

Longitudinal data set of a nationally representative sample of the population aged 65 and over in Japan, comparable to that collected in the US and other countries. The first two waves of data are now available to the international research community. The sample is refreshed with younger members at each wave so it remains representative of the population at each wave. The study was designed primarily to investigate health status of the Japanese elderly and changes in health status over time. An additional aim is to investigate the impact of long-term care insurance system on the use of services by the Japanese elderly and to investigate the relationship between co-residence and the use of long term care. While the focus of the survey is health and health service utilization, other topics relevant to the aging experience are included such as intergenerational exchange, living arrangements, caregiving, and labor force participation. The initial questionnaire was designed to be comparable to the (US) Longitudinal Study of Aging II (LSOAII), and to the Asset and Health Dynamics Among the Oldest Old (AHEAD, a pre-1924 birth cohort) sample of the Health and Retirement Study (HRS), which has now been merged with the HRS. The sample was selected using a multistage stratified sampling method to generate 340 primary sampling units (PSUs). The sample of individuals was selected for the most part by using the National Residents Registry System, considered to be universal and accurate because it is a legal requirement to report any move to local authorities within two weeks. From each of the 340 PSUs, 6-11 persons aged 65-74 were selected and 8-12 persons aged 75+ were sampled. The population 75+ was oversampled by a factor of 2. Weights have been developed for respondents to the first wave of the survey to reflect sampling probabilities. Weights for the second wave are under development. With these weights, the sample should be representative of the 65+ Japanese population. In fall 1999, 4,997 respondents aged 65+ were interviewed, 74.6 percent of the initial target. Twelve percent of responses were provided by proxies, because of physical or mental health problems. The second wave of data was collected in November 2001. The third wave was collected in November 2003. Questionnaire topics include family structure, and living arrangements; subjects'''' parents/spouse''''s parents/children; socioeconomic status; intergenerational exchange; health behaviors, chronic conditions, physical functioning; activities of daily living and instrumental activities of daily living; functioning in the community; mental health depression measures; vision and hearing; dental health; health care and other service utilization. A CD is available which include the codebook and data files for the first and second waves of the national sample. The third wave of data will be released at a later date. * Dates of Study: 1999-2003 * Study Features: Longitudinal, International * Sample Size: ** 4,997 Nov/Dec 1999 Wave 1 ** 3,992 Nov 2001 Wave 2 ** Nov 2003 Wave 3 Link: * ICPSR: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/00156

Proper citation: Nihon University Japanese Longitudinal Study of Aging (RRID:SCR_008974) Copy   

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http://human-phenotype-ontology.github.io/

The Disease Ontology group has developed a set of standard representations of phenotypes associated with diseases useful in bioinformatics applications. These are formalized into an ontological structure and are encoded in OWL. Neurodegenerative diseases have a wide and complex range of biological and clinical symptoms. While neurodegenerative diseases share many pathological features in common, they also contain unique signatures. Animal models of these disorders are key to translational research. However, animal models typically replicate only a subset of disease features or display features that are only indirectly related to a given disorder, whose relationship to the human condition may be across several diseases. Matching animal models to human diseases is therefore a significant informatics challenge. We have been working to develop ontologies that capture essential features of neurodegenerative diseases and associated animal models in a way that allows more flexible matching of animal models to human disorders and in a way that makes explicit commonalities and differences among animal models and human neurodegenerative disease. Creating ontologies for diseases and disorders is a very challenging task (Gupta et al., 2003) because of the complexity of the disorders and because of the limitations of current ontology formalisms. In order to simplify the approach and make it practical for use in information systems, we have focused on formal descriptions of phenotypes associated with diseases and animal models rather than on a formal model of the disease process itself. We employ the modular ontologies developed as part of the Neuroscience Information Framework (NIF: http://nif.nih.gov) and the Phenotype and Trait Ontology (PATO), an ontology of qualities associated with biological phenotypes, to create a flexible template for creating phenotypic statements at the class and instance levels. We show how these phenotypes can be used to look for commonalities across multiple neurodegenerative conditions and animal models.

Proper citation: Disease Phenotype Ontology (RRID:SCR_008687) Copy   

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http://purl.bioontology.org/ontology/BOF

An ontology of biodiversity of INPA

Proper citation: Biodiversity Ontology (RRID:SCR_010204) Copy   

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http://purl.bioontology.org/ontology/GEXO

An application ontology for the domain of gene expression. The ontology integrates fragments of GO and MI with data from GOA, IntAct, UniProt, NCBI, KEGG and orthology relations.

Proper citation: Gene Expression Ontology (RRID:SCR_010326) Copy   

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http://purl.bioontology.org/ontology/GFO

A top-level ontology integrating objects and processes.

Proper citation: General Formal Ontology (RRID:SCR_010328) Copy   

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http://purl.bioontology.org/ontology/GFO-BIO

A biological core ontology built on the General Formal Ontology.

Proper citation: General Formal Ontology for Biology (RRID:SCR_010329) Copy   

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http://purl.bioontology.org/ontology/COGAT

Ontology that characterizes the state of current thought in cognitive science. It defines a set of mental concepts along with a set of mental tasks, and the measurement relations between those classes.

Proper citation: Cognitive Atlas Ontology (RRID:SCR_010295) Copy   

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http://purl.bioontology.org/ontology/CTCAE

A coding system for reporting adverse events that occur in the course of cancer therapy. It was derived from the Common Toxicity Criteria (CTC) v2.0 and is maintained by the Cancer Therapy Evaluation Program (CTEP) at the National Cancer Institution (NCI).

Proper citation: Common Terminology Criteria for Adverse Events (RRID:SCR_010296) Copy   

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http://sourceforge.net/apps/mediawiki/cdao/

A formalization of concepts and relations relevant to evolutionary comparative analysis, such as phylogenetic trees, OTUs (operational taxonomic units) and compared characters (including molecular characters as well as other types). CDAO is being developed by scientists in biology, evolution, and computer science

Proper citation: Comparative Data Analysis Ontology (RRID:SCR_010297) Copy   

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