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Genomicsena-DATASET-DTU-20-02-2017-20:47:48:841-649 - samples
Variants on the Y chromosome for 62 danish males in VCF format from the GenomeDenmark Phase 2 cohort. Variants were called using reference based approaches such as the haplotype-caller module from GATK and using alignment of denovo assemblies to the reference using ASMvar.
EGAD00001003186 | EGA
ProteomicsQuantitative proteomic study on whole protein TMT labeling of wheat samples
Protein extraction, Trypsin Hydrolysis, TMT labeling, LC-MS analysis, database search, mass spectrometry quality control detection and bioinformatics analysis were performed in each treatment group.
ORGANISM(S): Triticum aestivum (Wheat) 
2022-10-15 | PXD033767 | Pride
Wheat，tmt，proteomics 
GenomicsDe novo assembly of 150 Danish genomes reveals rich structural complexity
Most known genetic variation in human genomes has been called from comparison of short reads to the reference genome, an approach biased against finding complex variation. We sequenced 150 individuals from 50 parent-offspring trios with multiple insert-size libraries to very high coverage. We show t...
EGAS00001002108 | EGA
TranscriptomicsGene expression data of untreated and RA-treated wild type and RXRα-deficient mice liver
Our project focuses on retinoic acid (RA) effect on hepatic lipid homeostasis. Even though RA has more than one receptor including retinoids x receptor (RXR) and retinoic acid receptor (RAR), most probably, RA effect on lipid homeostasis is mediated by RXR and its partners such as PXR, FXR, and PPAR...
ORGANISM(S): Mus musculus 
2013-08-21 | E-GEOD-50028 | biostudies-arrayexpress
ProteomicsInvestigating the impact of GalNAc-T2 overexpression on proteomics and glycoproteomics in lung cell
GalNAc-T2 was identified as a novel antiviral factor that promotes viral clearance and contributes to reduced disease severity.This project aimed to investigate the impact of GalNAc-T2 overexpression on proteomics and glycoproteomics in lung cell. We employ SILAC labeling, lectin-based affinity enri...
ORGANISM(S): Homo sapiens (Human) 
2026-01-12 | PXD051101 | Pride
Galnac-t2 Glycoproteomics Lung Homo sapiens 
Genomicsena-DATASET-DTU-19-07-2017-19:09:46:884-206 - samples
The MHC vcf call set was generated using a modified AsmVar and BayesTyper pipeline. In contrast to the original pipeline, where variant calling is performed using alignment of collapsed assemblies to a reference genome, the MHC call set was produced using alignment of phased MHC haplotypes. Two iter...
EGAD00001003455 | EGA
Genomicsena-DATASET-DTU-01-02-2017-10:47:25:397-764 - samples
Alignment of Genome Denmark Phase II dataset to GRCh38. The dataset consists of 150 Danish individuals (50 trios) sequenced to 80X. The BAM-file contains data from multiple libraries created from one individual with libraries of 180, 500, 800, 2000, 5000, 10000 and 20000 bp. The libraries were creat...
EGAD00001003157 | EGA
Genomicsena-DATASET-DTU-19-07-2017-17:57:54:089-201 - samples
Validation of HLA variation of 8 individuals from the GenomeDenmark Phase 2 study. Validation is performed Sanger sequencing of selected amplicons (5-10 amplicons per sample).
EGAD00001003454 | EGA
Genomicsena-DATASET-DTU-22-02-2017-08:21:35:017-10 - samples
Variants and genotypes called in 50 danish parent-offspring trios from 80x Illumina sequencing data using BayesTyper. Data was produced using different insert size libraries of the sizes 180, 500, 800, 2000, 5000, 10000 and 20000 bp. The sample IDs for the fathers and mothers are TrioID-01 and TrioI...
EGAD00001003188 | EGA
GenomicsThe Danish Reference Genome - GenomeDenmark data access committee
Data Access Committee EGAC00001000562
EGAC00001000562 | EGA
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