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deep [2020/02/24 09:59] trynke |
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====== DEEP/DAG1 ====== | ====== DEEP/DAG1 ====== | ||
- | Lifelines-DEEP, also known as DAG1, is one of Lifelines' [[additional assessments]] performed in collaboration with the UMCG [[https://www.systemsgenetics.nl/|department of genetics]] (see also: [[DAG2]] and [[DAG3]]). DAG is the abbreviation of DArmGezondheid, or "Gastrointestinal health" in Dutch.\\ | + | Lifelines-DEEP, also known as DAG1, is one of [[start|Lifelines]]' [[additional assessments]] performed in collaboration with the UMCG [[https://www.systemsgenetics.nl/|department of genetics]] (see also: [[DAG2]] and [[DAG3]]). DAG is the abbreviation of DArmGezondheid, or "Gastrointestinal health" in Dutch, a research project in which the microbiome is analysed in faecal samples.\\ |
The primary goal of the Lifelines-DEEP project is to get insight in the relations between [[https://en.wikipedia.org/wiki/Genome|genome]], [[https://en.wikipedia.org/wiki/epigenome|epigenome]], [[https://en.wikipedia.org/wiki/Transcriptome|transcriptome]], [[https://en.wikipedia.org/wiki/microbiome|microbiome]], [[https://en.wikipedia.org/wiki/metabolome|metabolome]], and other biological and phenotypic parameters. Lifelines-DEEP is an example of a ‘next- generation’ population cohort study—in which multiple molecular data levels are combined with observational research methods ((Tigchelaar EF et al. (2015) Cohort profile: LifeLines DEEP, a prospective, general population cohort study in the northern Netherlands: study design and baseline characteristics. BMJ Open 5(8): e006772)) | The primary goal of the Lifelines-DEEP project is to get insight in the relations between [[https://en.wikipedia.org/wiki/Genome|genome]], [[https://en.wikipedia.org/wiki/epigenome|epigenome]], [[https://en.wikipedia.org/wiki/Transcriptome|transcriptome]], [[https://en.wikipedia.org/wiki/microbiome|microbiome]], [[https://en.wikipedia.org/wiki/metabolome|metabolome]], and other biological and phenotypic parameters. Lifelines-DEEP is an example of a ‘next- generation’ population cohort study—in which multiple molecular data levels are combined with observational research methods ((Tigchelaar EF et al. (2015) Cohort profile: LifeLines DEEP, a prospective, general population cohort study in the northern Netherlands: study design and baseline characteristics. BMJ Open 5(8): e006772)) | ||
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* exhaled air, collected during [[1A Visit 2]] (n = ~1,400) | * exhaled air, collected during [[1A Visit 2]] (n = ~1,400) | ||
* faecal samples, collected by participants (n = ~1250) at home, immediately frozen at −20°C, and (within 2 weeks after [[1A Visit 2]]) picked up from their homes and transported to the Lifelines lab on dry-ice by research assistants. On arrival at the research location, the faecal samples were immediately stored at −80°C. | * faecal samples, collected by participants (n = ~1250) at home, immediately frozen at −20°C, and (within 2 weeks after [[1A Visit 2]]) picked up from their homes and transported to the Lifelines lab on dry-ice by research assistants. On arrival at the research location, the faecal samples were immediately stored at −80°C. | ||
- | * Gastrointestinal health (the [[Functional bowel symptoms (Rome III)|Rome III]] questionnaire) (n = ~1200) | + | * Self-reported gastrointestinal health (the [[Functional bowel symptoms (Rome III)|Rome III]] questionnaire) (n = ~1200) |
* Description of stool samples (the [[https://en.wikipedia.org/wiki/Bristol_stool_scale|Bristol Stool Scale]]). | * Description of stool samples (the [[https://en.wikipedia.org/wiki/Bristol_stool_scale|Bristol Stool Scale]]). | ||
+ | |||
+ | ===== Data availability ===== | ||
+ | ^ Type ^ N ^ Available? ^ | ||
+ | | Genomics (cytosnp) | +/- 1400 | Yes | | ||
+ | | Methylation | +/- 800 | Yes | | ||
+ | | RNAseq | +/- 1300 | Yes | | ||
+ | | MGS | +/- 1200 | Yes* | | ||
+ | | 16S | +/- 1000 | Yes* | | ||
+ | | Metabolomics | +/- 1400 | Yes | | ||
+ | | Cytokines | +/- 1100 | Yes | | ||
+ | | Proteomics | +/- 1100 | Yes | | ||
+ | | WES | +/- 1000 | Yes | | ||
+ | *Raw data is available; the processed data is not available yet | ||
===== Genomics ===== | ===== Genomics ===== |