Dbgap fhs

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Framingham Heart Study (FHS) dbGaP …

  • Framingham Heart Study (FHS) dbGaP Acknowledgment Statements
  • Your acknowledgment of the FHS data should always include the FHS contract (component I below) AND any relevant dataset(s) listed under component II below
  • In addition, if any FHS phenotypic dataset(s) used in your analysis were derived from non-contract supported studies, …

Ncbi.nlm.nih.gov   DA: 20 PA: 32 MOZ Rank: 53

Framingham Heart Study (FHS) Data Use Certification …

  • FHS May 24, 2011 version Page 4 of 8 handle the requested dataset(s) according to the current dbGaP Security Best Practices, including its detailed description of requirements for security and encryption
  • These include, but are not limited to: o all Approved Users have completed all required computer security training required by their

Dbgap.ncbi.nlm.nih.gov   DA: 22 PA: 11 MOZ Rank: 35

Framingham Heart Study (FHS) NHLBI, NIH

Researchers also can request FHS genetic data, along with information about major disease risk factors (e.g., systolic blood pressure, cholesterol levels, cigarette use), in the database of Genotypes and Phenotypes (dbGaP).

Nhlbi.nih.gov   DA: 17 PA: 35 MOZ Rank: 55

Application instructions & Data Use Certification for

A Framingham Heart Study Investigator (FHS INVESTIGATOR) is an individual who - is employed by the NHLBI to work on the FHS, - has a current and active consulting agreement with the NHLBI, or - has a current and active employment contract or consulting agreement with a contractor to the NHLBI to work on the FHS.

Dbgap.ncbi.nlm.nih.gov   DA: 22 PA: 11 MOZ Rank: 37

Unharmonized TOPMed study phenotypes on dbGaP

  • TOPMed studies on dbGaP •Most TOPMed studies already had data from previous projects in dbGaP •Each dbGaP study is assigned a unique accession number (phs) •e.g
  • Framingham Heart Study (FHS) is phs 7 (link)

Topmed.nhlbi.nih.gov   DA: 20 PA: 50 MOZ Rank: 75

NIH Launches dbGaP, a Database of Genome Wide …

  • "The dbGaP project marks a new milestone in data sharing," said NLM Director Donald A
  • "Researchers, students and the public will have access to a level of study detail that was not previously available and to genotype-phenotype associations that should provide a wealth of hypothesis-generating leads," he said.

Nih.gov   DA: 11 PA: 50 MOZ Rank: 67

The Framingham Heart Study 100K SNP genome-wide

  • We have created a full-disclosure resource of results, posted on the dbGaP website, from a genome-wide association study in the FHS
  • Because we used three analytical approaches to examine the association and linkage of 987 phenotypes with thousands of SNPs, our results must be considered hypothesis- …

Pubmed.ncbi.nlm.nih.gov   DA: 23 PA: 10 MOZ Rank: 40

Services Included in a Distribution Fee School of Medicine

  • If the research produces new data on FHS participants, the fees also cover the following items regarding data returned to FHS for distribution to dbGaP, BioLINCC, etc
  • Follow-up with investigators at preliminary data return, request reporting changes as needed
  • Return raw data sets, including images (if applicable) and measurements

Bumc.bu.edu   DA: 15 PA: 50 MOZ Rank: 73

A deep learning model for early risk prediction of heart

  • The FHS cohort were obtained from dbGaP website (accession: phs000007.v30.p11)
  • This study used DNA methylation data from phs000724.v7.p11, transcriptome mRNA and microRNA data from phs000363.v17.p11 on the dbGaP website.

Clinicalepigeneticsjournal.biomedcentral.com   DA: 44 PA: 36 MOZ Rank: 89

NIH Launches Extensive Open-Access Dataset of Genetic and

  • The Framingham Heart Study is a prospective, community-based, family study that began in 1948 among residents of Framingham, Mass
  • The original group of participants included 5,209 adults between the ages of 30 and 62 at enrollment who visited every two years for medical histories, physical exams, and laboratory tests.

Nih.gov   DA: 11 PA: 50 MOZ Rank: 71

SHHS Genetic Analyses

  • Note here that SHARe IDs are a secondary dbGaP ID set
  • You'd then need to work within dbGaP's ID structure
  • There are subject-sample mapping files that link a single participant ID to one or more sample IDs (e.g
  • FHS may have different sample IDs for Affy 500k, Omni 5M, etc
  • for the same person's unique dbGaP sample ID).

Sleepdata.org   DA: 13 PA: 34 MOZ Rank: 58

Framingham Heart Study

  • For data that cannot be obtained through the NIH BioLINCC and dbGaP repositories linked above, researchers must apply on the submit an application for access to the internal repository.
  • Research beyond the core aspects of the FHS mission can be initiated as ancillary studies and the study encourages collaboration with FHS investigators, though it is not required.

Datacatalog.med.nyu.edu   DA: 23 PA: 14 MOZ Rank: 49

Assessing the phenotypic effects in the general …

Phenotype information for the unselected cohorts was contained in the NHLBI Framingham cohort, dbGAP data set phs000007.v20.p8 (FHS), and the NHLBI Jackson Heart Study Candidate Gene Association

Nature.com   DA: 14 PA: 17 MOZ Rank: 44

NHLBI Trans-Omics for Precision Medicine WGS-About TOPMed

  • Genotypes for a set of 55k samples have been released on dbGaP (freeze 5) and a freeze release of >140k samples is expected by mid 2020 (freeze 8)
  • TOPMed WGS data are contained in study-specific accessions with names containing “NHLBI TOPMed”, while most phenotypic data are in parent study accessions.

Topmed.nhlbi.nih.gov   DA: 20 PA: 20 MOZ Rank: 54

NOT-LM-07-001: Genotype and Phenotype Data Now Available

  • dbGaP provides for two levels of access: open (available to anyone with no restrictions), and controlled (requiring preauthorization)
  • NCBI launched the database in December 2006 with the open-access data on two studies; the open-access section allows users to view study documents, such as protocols, as well as summaries of the genotype and

Grants.nih.gov   DA: 14 PA: 45 MOZ Rank: 74

Phenotype and Exposure Data Harmonization

incorporated into dbGaP • Obtain new phenotypes and exposures on existing study participants with genetic data • For new projects, encourage use of a set of standardized Asthma FHS CARE_EX1_2S_V1_0108 B128 D203-006-ASTHMA Asthma FHS CARE_EX1_3S_V1_0108 C93 WHEEZING OR ASTHMA IN INTERIM Asthma FHS

Genome.gov   DA: 14 PA: 50 MOZ Rank: 80

NCBI GAIN in dbGaP GAIN in dbGaP 110101 Updating and

Adobe Acrobat Professional - [Study Report phs000007 FHS VI pl.pdf] File Edit View Document Comments Tools Advanced Window Help Select Object Data Tool dbGaP Study Configuration Report The Framingham Heart Study Distribution Set General research use Note Tool Text Edits Stamp Tool Show

Genome.gov   DA: 14 PA: 50 MOZ Rank: 81

American Heart Association Cardiovascular Genome-Phenome

  • FHS dbGaP Phenotypic Data Sets for Genetic Research Framingham data sets and documentation are formatted according to dbGaP standards before submission
  • Each data set submission includes a dbGaP-formatted data set, a coding manual, a data collection protocol, related informed consents, an annotated data collection form, and a funding source

Ahajournals.org   DA: 19 PA: 38 MOZ Rank: 75

Opportunities for NIH cloud interoperability approaches

External controls (FHS/JHS) Explore gene expression profiles of most interesting genes Gene expression from many tissues in a small cohort (GTEx) Platform Datasets dbGaP Sample AnVIL GTEx phs000424.v8.p2 980 Kids First PCGC phs001138.v3.p2 699 BioData Catalyst TOPMed PCGC phs001735, phs001194.v2.p2 1,901 TOPMed FHS phs000974.v4.p3, phs000007

Nitrd.gov   DA: 13 PA: 50 MOZ Rank: 82

70-year legacy of the Framingham Heart Study Nature

  • The Framingham Heart Study (FHS) was established in 1948 to improve understanding of the epidemiology of coronary heart disease (CHD) in the USA
  • In 1961, seminal work identified major risk

Nature.com   DA: 14 PA: 27 MOZ Rank: 61

topmedphenotypes.org

  • Phenotype data from each study is downloaded from dbGaP and stored securely at the TOPMed DCC
  • Metadata (but not phenotype data values) are scanned and stored by PIE to facilitate browsing, searching, and tagging phenotypic variables and datasets
  • dbGaP accession numbers uniquely identify each study, dataset, and variable.

Topmedphenotypes.org   DA: 20 PA: 20 MOZ Rank: 61

Corresponding GWAS/ Sequencing dbGaP Dataset Name …

  • Data dbGaP Dataset Name Location phs Accession Corresponding GWAS/ Sequencing Dataset Consent Group Documentation of IRB Approval Required? FHS Exchange Area phs000300.v1.p1 phs000007.v12.p5 GRU/NPU Yes, full or expedited
  • ESP exome NHLBI GO-ESP: Heart Cohorts Exome Sequencing Project (HeartGO):JHS Exchange Area …

Esp.gs.washington.edu   DA: 21 PA: 50 MOZ Rank: 93

Framingham Heart Study Coding Manual

  • FRAMINGHAM HEART STUDY CODING MANUAL Hip Fractures COHORT: Original TIME INTERVAL: Cases reviewed through July 2012 DATASET NAME: vr_fxrev_2012_0_0746s # OBSERVATIONS: 593
  • Variables that define a unique record: SHAREID, FXDATE, Q2
  • This dataset replaces the dbGAP dataset hipfx0_2007s

Biolincc.nhlbi.nih.gov   DA: 22 PA: 50 MOZ Rank: 95

cannot decrypt · Issue #506 · ncbi/sra-tools · GitHub

Could this be an issue with the current key file on my dbGaP project? Thank you! The text was updated successfully, but these errors were encountered:

Github.com   DA: 10 PA: 26 MOZ Rank: 60

Design & scope of ongoing & Future Collaborations: The

Framingham Heart Study Biorepository • Core mission: Preservation, tracking/distribution and appropriate utilization of biological specimens collected from FHS participants • Compilation and QC of resulting measures for submission to central databases and for use by investigators (dbGaP and BioLINCC)

Chs-nhlbi.org   DA: 13 PA: 50 MOZ Rank: 88

FRAMINGHAM HEART STUDY: HISTORY, DESIGN AND …

Application reviewed by FHS committees Project approved by FHS, IRB, OSMB Project submitted and approved by sponsor Plans for integration of project with FHS teams detailed Project conducted Project reporting and QC carried out *or apply to …

Hartfordhealthcare.org   DA: 22 PA: 50 MOZ Rank: 98

Integrated genetic and epigenetic prediction of coronary

The Framingham Heart Study (FHS) (dbGAP study accession: phs000007) has been described in detail elsewhere.[17, 18] The clinical, genetic and epigenetic data included in this study is from the Offspring cohort who 1) attended the eighth examination cycle which was conducted between 2005 and 2008, 2) consented to genetics research, and 3) have

Journals.plos.org   DA: 17 PA: 16 MOZ Rank: 60

Data overview and access

TOPMed Data overview and access TOPMed Data Coordinating Center University of Washington October 26th, 2020 ASHG Ancillary Session

Topmed.nhlbi.nih.gov   DA: 20 PA: 50 MOZ Rank: 98

Integrated genetic and epigenetic prediction of coronary

The Framingham Heart Study (FHS) (dbGAP study accession: phs000007) has been described in detail elsewhere.[17, 18] The clinical, genetic and epigenetic data included in this study is from the Offspring cohort who 1) attended the eighth examination cycle which was con-

Journals.plos.org   DA: 17 PA: 21 MOZ Rank: 67

Columbia University

dbgap_accession genotype accessions JHS Heart Cohorts CARDIA CHS Heart Cohorts FHS Heart Cohorts WHI MESA Heart Cohorts ARIC Heart Cohorts COPDGene ESP LungGO LHS COPD PAH Lung Cohort Bronchiectasis Asthma Lung Cohort Aortic Disease Familial A-Fib Cystic Fibrosis Lung Cohort phs000402 phs000399 phs000400 phs000401 phs000281 phs000403 …

Redmine.igm.cumc.columbia.edu   DA: 29 PA: 50 MOZ Rank: 20

Frontiers Statin Use Associates With Risk of Type 2

  • Framingham Heart Study (FHS) The FHS follows several community dwelling generations of participants recruited in Framingham, MA, since 1948 (Dawber et al., 1951)
  • In 1971, 5124 offspring, self-identified as European ancestry, from the original cohort and spouses were recruited (Kannel et al., 1979)
  • In exam 8 (2005–2008) of this offspring

Frontiersin.org   DA: 19 PA: 39 MOZ Rank: 89

dbGaP Submissions QA

Genome&DataSharing&with&dbGaP&|&January&28,&2016&|&Q&A&!! 2! Do$we$have$to$submit$the$raw$data$to$SRA,$VCF$files$to$dbGAP$on$the$same$NGS$dataset?$

Ccrod.cancer.gov   DA: 16 PA: 50 MOZ Rank: 98

Framingham Cohort NCPI

  • Startup of Framingham Heart Study
  • Cardiovascular disease (CVD) is the leading cause of death and serious illness in the United States
  • In 1948, the Framingham Heart Study (FHS) -- under the direction of the National Heart Institute (now known as the National Heart, Lung, and Blood Institute, NHLBI) -- embarked on a novel and ambitious project in health research.

Anvilproject.org   DA: 16 PA: 29 MOZ Rank: 78

Association of Left Atrial Function Index with Atrial

  • Background: Left atrial (LA) size, a marker of atrial structural remodeling, is associated with increased risk for atrial fibrillation (AF) and cardiovascular disease (CVD)
  • LA function may also relate to AF and CVD, irrespective of LA structure
  • We tested the hypothesis that LA function index (LAFI), an echocardiographic index of LA structure and function, may better characterize …

Pubmed.ncbi.nlm.nih.gov   DA: 23 PA: 10 MOZ Rank: 67

National Health and Aging Trends Study (NHATS) National

  • The National Health and Aging Trends Study (NHATS) is a new resource for the scientific study of functioning in later life
  • The NHATS is being conducted by the Johns Hopkins University Bloomberg School of Public Health, with data collection by Westat, and support from the NIA
  • In design and content, NHATS is intended to foster research that will guide efforts to reduce …

Nia.nih.gov   DA: 15 PA: 50 MOZ Rank: 100

The Framingham Heart Study 100K SNP genome-wide

  • BACKGROUND:The Framingham Heart Study (FHS), founded in 1948 to examine the epidemiology of cardiovascular disease, is among the most comprehensively characterized multi-generational studies in the world
  • We have created a full-disclosure resource of results, posted on the dbGaP website, from a genome-wide association study in the FHS

Open.bu.edu   DA: 11 PA: 17 MOZ Rank: 64

A multi-ethnic polygenic risk score is associated with

Genome sequencing for "NHLBI TOPMed: Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study" (phs000974.v4.p3) was performed at the Broad Institute Genomics Platform (3R01HL092577-06S1, 3U54HG003067-12S2).

Medrxiv.org   DA: 15 PA: 38 MOZ Rank: 90

"Association of Body Mass Index with DNA Methylation and

  • The FHS methylation data are available at dbGaP under the accession number phs000724.v2.p9 and gene expression data at accession number phs000363.v3.p6
  • Lothian Birth Cohorts' methylation data have been submitted to the European Genome-phenome Archive under accession number EGAS00001000910; phenotypic data are available at dbGaP under the

Uknowledge.uky.edu   DA: 18 PA: 24 MOZ Rank: 80

NHLBI TOPMed: Whole Genome Sequencing and Related

  • The Framingham Heart Study (FHS) is a prospective cohort study of 3 generations of subjects who have been followed up to 65 years to evaluate risk factors for cardiovascular disease
  • Its large sample of ~15,000 men and women who have been extensively phenotyped with repeated examinations make it ideal for the study of genetic associations with

Anvilproject.org   DA: 16 PA: 29 MOZ Rank: 84

Frontiers Using Machine Learning to Predict Obesity

  • These data were obtained from dbGaP (https://dbgap.ncbi.nlm.nih.gov, study accession: phs000007.v25.p9 and phs000007.v28.p10; downloaded on September 27, 2017)
  • The age used was the age of an individual at exam 8.

Frontiersin.org   DA: 19 PA: 40 MOZ Rank: 99

Circulating testican-2 is a podocyte-derived marker of

  • All existing blood biomarkers of kidney function such as creatinine and cystatin C undergo renal clearance and are thus inversely correlated with estimated glomerular filtrate rate (eGFR)
  • Using a proteomic approach, we highlight the renal release of testican-2 among individuals undergoing invasive catheterization and show that higher blood testican-2 levels …

Pnas.org   DA: 12 PA: 21 MOZ Rank: 74

ESP-GO Meeting Oct 14th Washington, DC.

  • Eventual Cohort centric organization

Esp.gs.washington.edu   DA: 21 PA: 50 MOZ Rank: 8

NHLBI Framingham SNP Health Association Resource (SHARe

  • Framingham Heart Study SHARe Genome-Wide Association Study
  • In 2007, the FHS entered a new phase with the conduct of genotyping for the FHS SHARe project, for which genotyping was conducted using approximately 550,000 SNPs (Affymetrix 500K mapping array plus Affymetrix 50K supplemental array) in over 9,300 subjects from the three generations of

Ega-archive.org   DA: 15 PA: 24 MOZ Rank: 82

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