dag3
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dag3 [2020/02/12 09:37] trynke |
dag3 [2022/05/13 09:41] trynke |
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| ===== Subcohort ===== | ===== Subcohort ===== | ||
| - | A total of 9500 participants were included in the DAG3 dataset: | + | A total of +-9500 participants were included in the DAG3 dataset: |
| * 700 were [[children]] aged 8-17 years | * 700 were [[children]] aged 8-17 years | ||
| * 400 participants were also included in the ([[DEEP]]) dataset | * 400 participants were also included in the ([[DEEP]]) dataset | ||
| Line 16: | Line 16: | ||
| * ~9000 participants were genotyped in the [[UGLI]] project. | * ~9000 participants were genotyped in the [[UGLI]] project. | ||
| - | Metagenomic sequencing of the Lifelines DAG3 samples is underway to assess taxonomy, strain diversity and functionality. Uniquely, not only are all individuals fully genotyped but glycerol aliquots of their microbiota are also stored to enable bacterial culture for further functional studies. Lifelines DAG3 will have the power to study host-microbe interactions and will also allow studies to move from association to causality ((Doestzada, M., Vich Vila, A., Zhernakova, A., Koonen, D. P. Y., Weersma, R. K., Touw, D. J., ... Fu, J. | + | Metagenomic sequencing of the Lifelines DAG3 samples was performed to assess taxonomy, strain diversity and functionality. Uniquely, not only are all individuals fully genotyped but glycerol aliquots of their microbiota are also stored to enable bacterial culture for further functional studies. Lifelines DAG3 will have the power to study host-microbe interactions and will also allow studies to move from association to causality ((Doestzada, M., Vich Vila, A., Zhernakova, A., Koonen, D. P. Y., Weersma, R. K., Touw, D. J., ... Fu, J. |
| (2018). Pharmacomicrobiomics: A novel route towards personalized medicine? Protein & cell, 9(5).)). | (2018). Pharmacomicrobiomics: A novel route towards personalized medicine? Protein & cell, 9(5).)). | ||
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| * 3 precoded cups to put stool in by means of a provided pipet | * 3 precoded cups to put stool in by means of a provided pipet | ||
| * 2 tubes with amysmedium and glycerol to put stool in with provided e-swabs, and two barcoded labels for the tubes | * 2 tubes with amysmedium and glycerol to put stool in with provided e-swabs, and two barcoded labels for the tubes | ||
| - | * a nontransparent bag to store the samples in the home freezer immediately after collection. | + | * a nontransparent bag to store the samples in the home freezer immediately after collection |
| + | * participants were instructed to fill in a questionnaire and stool diary in the week of stool collection | ||
| ===== Sample processing ===== | ===== Sample processing ===== | ||
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| ===== Collected samples ===== | ===== Collected samples ===== | ||
| - | The following additional samples have been collected for DAG3: | + | The following additional samples have been collected for DAG3 from +- 9500 participants: |
| * 9535 e-nat nose samples | * 9535 e-nat nose samples | ||
| * 9540 nose swab samples | * 9540 nose swab samples | ||
| - | * 28612 nose swab aliquots (glycerol) | + | * 28612 nose swab aliquots (glycerol)* |
| * 9425 throat e-nat samples | * 9425 throat e-nat samples | ||
| * 9421 throat swab samples | * 9421 throat swab samples | ||
| - | * 28245 throat swab aliquots (glycerol) | + | * 28245 throat swab aliquots (glycerol)* |
| - | * 16827 feces swab samples | + | * 16827 feces swab samples* |
| - | * 25376 feces cryo samples | + | * 25376 feces cryo samples* |
| * 8931 paxgene samples | * 8931 paxgene samples | ||
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| * 2482 incomplete diaries (i.e. may miss one or more days) | * 2482 incomplete diaries (i.e. may miss one or more days) | ||
| + | *Multiple samples from a single participant | ||
| + | ===== Papers based on DAG3 ===== | ||
| + | * Gacesa, R et al. (2022) Environmental factors shaping the gut microbiome in a Dutch population. Nature 604, 732–739 | ||
dag3.txt · Last modified: 2023/02/14 08:57 by kevin
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