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pqtl_holbaekstudy

https://github.com/llniu/pqtl_holbaekstudy

Science Score: 67.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
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    codemeta.json file
    Found codemeta.json file
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    .zenodo.json file
    Found .zenodo.json file
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    DOI references
    Found 3 DOI reference(s) in README
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    Academic publication links
    Links to: medrxiv.org, zenodo.org
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    Academic email domains
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    Institutional organization owner
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    JOSS paper metadata
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    Scientific vocabulary similarity
    Low similarity (7.3%) to scientific vocabulary
Last synced: 10 months ago · JSON representation ·

Repository

Basic Info
  • Host: GitHub
  • Owner: llniu
  • License: mit
  • Language: Jupyter Notebook
  • Default Branch: branch-dev
  • Size: 2.44 MB
Statistics
  • Stars: 2
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 4
Created about 3 years ago · Last pushed over 1 year ago
Metadata Files
Readme License Citation

README.md

pQTL_HolbaekStudy

DOI - Link to repository: github.com/llniu/pQTL_HolbaekStudy - Link to preprint on medRxiv: Plasma Proteome Variation and its Genetic Determinants in Children and Adolescents - GWAS summary statistics at GCST90452001-GCST90453000 and GCST90454001-GCST90455000 - Searchable results at proteomevariation.org - 2,147 individuals with normal weight and obesity aged 5-20 in the discovery cohort - 1,000 individuals with normal weight and obesity aged 5-20 in the replication cohort - 588 adults with alcohol-related liver diseasse in the replication cohort - Datasets generated and used in this study include SNP-based genotyping, plasma proteomics, clinical data and phenotypic data. - summary of custom scripts used for diverse analysis in the project

Contents

file | description ------------------------- | -------------------------------------- Phenotype-protein association analysis | Contains data pre-processing, association tests between levels of plasma proteins and age, sex and BMI SDS. Some functionality is loaded from src Genome-wide association analysis | Contains scripts used for genome wide association analyis and clumping precedure. Genome-wide association analysis - downstream | Contains custom scripts used for summarizing proteome-wide GWAS results.

Disclaimer

Complete individual level genotype-, proteomics- and clinical data cannot be made publicly available due to GDPR governance, but GWAS summary statistics and searchable results are available. For individual level data access please refer to data availability section of the published manuscript.

Summary of the study

alt text

Owner

  • Name: Lili Niu
  • Login: llniu
  • Kind: user
  • Location: Copenhagen, Denmark
  • Company: Novo Nordisk Foundation Center for Protein Research

Citation (CITATION.cff) 

cff-version: 1.1.0
message: "This repository can be cited as below."
authors:
- family-names: Niu
  given-names: Lili
orcid: https://orcid.org/0000-0003-4571-4368
title:llniu/pQTL_HolbaekStudy: Initial release
doi: 10.5281/zenodo.14426437
url: https://doi.org/10.5281/zenodo.14426437
version: v1.0.0
date-released: 2024-12-12

GitHub Events

Total
  • Release event: 7
  • Watch event: 1
  • Delete event: 1
  • Push event: 20
  • Create event: 5
Last Year
  • Release event: 7
  • Watch event: 1
  • Delete event: 1
  • Push event: 20
  • Create event: 5