EGAD00001000711 |
NA |
Illumina HiSeq 2000 |
42 |
EGAD00001000712 |
NA |
Illumina HiSeq 2000 |
72 |
EGAD00001000713 |
NA |
Illumina HiSeq 2000 |
12 |
EGAD00001000829 |
NA |
Illumina HiSeq 2000 |
16 |
EGAD00001000830 |
NA |
Illumina HiSeq 2000 |
14 |
EGAD00001000831 |
NA |
Illumina HiSeq 2000 |
30 |
EGAD00001000832 |
NA |
Illumina HiSeq 2000 |
16 |
EGAD00001000833 |
NA |
Illumina HiSeq 2000 |
10 |
EGAD00001000834 |
NA |
Illumina HiSeq 2000 |
20 |
EGAD00001000835 |
NA |
Illumina HiSeq 2000 |
8 |
EGAD00001001939 |
Mapped whole transcriptome RNA-Seq data from 476 human samples of early stage urothelial carcinoma. |
Illumina HiSeq 2000 |
476 |
EGAD00001001940 |
Un-mapped whole transcriptome RNA-Seq data from 476 human samples of early stage urothelial carcinoma. |
Illumina HiSeq 2000 |
476 |
EGAD00001001941 |
Variants derived from mapped whole transcriptome RNA-Seq data from 476 human samples of early stage urothelial carcinoma. |
|
476 |
EGAD00001002716 |
In this study we characterized genomic alterations in two to five metachronous bladder tumors from 29 patients initially diagnosed with early stage disease. Fourteen patients (32 tumors) had non progressive disease (NPD) and 15 patients (34 tumors) had progressive disease (PD). Whole exome sequencing (WES, ~50x mean read depth and whole transcriptome RNA-seq was performed (RNA was not advalible for 4 tumors)
Data provided here consist of 122 Bam files for WES (83 Tumors and 39 blood) |
Illumina HiSeq 2000 |
122 |
EGAD00001002717 |
In this study we characterized genomic alterations in two to five metachronous bladder tumors from 29 patients initially diagnosed with early stage disease. Fourteen patients (32 tumors) had non progressive disease (NPD) and 15 patients (34 tumors) had progressive disease (PD). Whole exome sequencing (WES, ~50x mean read depth and whole transcriptome RNA-seq was performed (RNA was not advalible for 4 tumors).
Data provided here consist of 71 unmapped Bam files form whole transcriptome RNA-seq. |
Illumina HiSeq 2000 |
71 |
EGAD00001002718 |
In this study we characterized genomic alterations in two to five metachronous bladder tumors from 29 patients initially diagnosed with early stage disease. Fourteen patients (32 tumors) had non progressive disease (NPD) and 15 patients (34 tumors) had progressive disease (PD). Whole exome sequencing (WES, ~50x mean read depth and whole transcriptome RNA-seq was performed (RNA was not advalible for 4 tumors).
Data provided here consist of 71 mapped Bam files form whole transcriptome RNA-seq. |
Illumina HiSeq 2000 |
71 |
EGAD00001002772 |
In this study we characterized genomic alterations in three bladder cancer patients with metastatic disease courses. Multiple regions were procured by laser microdissection or punctures from primary tumor, lymph node metastases and from distant metastases. Data provided here consist of 35 Bam files for WES (32 Tumors and 2 blood, 1 adjacent normal) |
NextSeq 500 |
35 |
EGAD00001003428 |
RNAseq data from the study: "Widespread DNA hypomethylation and differential gene expression in Turner syndrome". |
Illumina HiSeq 2000,NextSeq 500 |
37 |
EGAD00001003820 |
Whole transcriptome, strand-specific RNA-seq libraries were prepared from total RNA purified using RNeasy mini kit (Qiagen) using Ribo-Zero technology (Epicentre, an Illumina company) for depletion of rRNA followed by library preparation using ScriptSeq ScriptSeq RNA-Seq Library preparation Kit from Illumina. The paired raw sequence reads were processed using TopHat2 and mapped to the humane reference genome HG19. |
NextSeq 500 |
16 |
EGAD00001003821 |
WES was performed using the KAPA-Hyper prep kit from Illumina (Roche, Basel, Switzerland) for library construction, followed by exome capture using Niblegen SeqCap EZ Human Exome Library v3.0 (Roche). Reads were mapped using BWA MEM against the humane reference genome HG19. |
NextSeq 500 |
42 |
EGAD00001003823 |
Somatic mutations were called using whole exome Sequencing (WES) data from colorectal cancer samples (dataset EGAD00001003821) using MuTect2, with matched constitutional WES-data obtained from leukocytes samples as reference. |
|
37 |
EGAD00001006636 |
RNA sequencing of a total of 41 tumor biopsies taken from a total of 14 patients with colorectal cancer. Ribosomal RNA was removed using the Ribo-Zero Gold rRNA Removal Kit (Illumina, CA, USA) and Paired-end sequencing were performed using ScriptSeq v2 RNA-seq Library preparation Kit (Illumina). Data processing of the paired raw sequence reads was performed using TopHat2, with mapping to the human reference genome HG19. Forty-one BAM files with reads mapping the the human reference genome (HG19) is enclosed. |
NextSeq 500 |
41 |
EGAD00001008126 |
Bulk RNAseq of human skeletal muscle
RNAseq of FACS sorted human skeletal muscle cells
scRNAseq of human skeletal muscle |
Illumina HiSeq 2000,Illumina HiSeq 4000,NextSeq 500 |
41 |
EGAD00001010052 |
Samples of blood, muscle and fat were collected from individuals with TS (n = 33) and KS (n = 22) and from male (n = 16) and female (n = 44) controls. The RNA-seq libraries were multiplexed paired-end sequenced on an Illumina Novaseq 6000 (100 bp) and subjected to initial quality control using FastQC (BAbraham Bioinformatics). In addition to trimming of low-quality ends, adaptor removal was conducted using Trim Galore with default settings (BAbraham Bioinformatics). |
Illumina NovaSeq 6000 |
212 |
EGAD00001010078 |
RNA-sequencing profiling of leucocytes from peripheral blood samples from 9 KS patients, 9 control males and 13 female controls |
Illumina NovaSeq 6000 |
18 |
EGAD00010000508 |
Matched control samples using SNP 6.0 Array |
GenomeWideSNP_6-BirdseedV2 |
12 |
EGAD00010000510 |
Matched control samples using HumanOmni1-Quad |
GenomeWideSNP_6-BirdseedV2 |
12 |
EGAD00010000512 |
Case samples using HumanOmni1-Quad |
GenomeWideSNP_6-BirdseedV2 |
12 |
EGAD00010000514 |
Case samples using SNP 6.0 Array |
GenomeWideSNP_6-BirdseedV2 |
12 |
EGAD00010001260 |
DNAm Case samples using Illumina Infinium 450K |
Illumina 450K array |
33 |
EGAD00010001261 |
DNAm Case samples using Illumina Infinium 450K |
Illumina 450K array |
33 |
EGAD00010001262 |
DNAm Case samples using Illumina Infinium 450K |
Illumina 450K array |
32 |
EGAD00010001888 |
Illumina 450K DNA methylation profiles of 314 fresh-frozen colorectal mucosa, adenoma or adenocarcinoma samples. |
Illumina 450k |
314 |