Search Results - EGA European Genome-Phenome Archive

Gliomas, glioneuronal and neuronal tumors

The dataset represents a total of 85 DNA samples from 22 male and 20 female pediatric patients affected with gliomas, glioneuronal, and neuronal tumors. The samples were subject to whole genome sequencing, WGS, [71 samples, (representing 18 male and 17 female individuals)] and whole exome sequencing, WES, [14 samples, (representing 4 males and 3 female individuals)]. One tumor tissue sample and one peripheral blood sample were analyzed from each of 84 patients, whereas two tumor tissue samples and one peripheral blood sample were analyzed from one patient. The WGS samples were sequenced 2x150 bp paired-end on an Illumina HiSeqX v2.5 instrument, and the WES samples were sequenced 2x100 bp paired-end on an Illumina HiSeq 2500 instrument. The FASTQ files generated were aligned to the human reference genome sequence GRCh38/hg38 using bwa-mem, with the ALT-aware option turned on. Sorting of reads and marking of PCR duplicates was performed with GATK. Base quality score recalibration and joint realignment of reads around insertions and deletions (indels) were conducted using GATK tools. The dataset consists of 85 files in the CRAM format (lossless compression) with a total file size of ~13,3 TB. Additional genomic and molecular data (FASTQ, BAM, IDAT, and VCF files) and limited clinical data can be requested by ethically approved projects conducting research in the field of pediatric cancer.

Dataset EGAD50000000300

12213 results for "cancer rna-seq"

in 35.73 milliseconds.

Gliomas, glioneuronal and neuronal tumors

Genome and transcriptome sequence data from a glioblastoma multiforme patient

Genome and transcriptome sequence data from an ovarian adenocarcinoma patient

Genome and transcriptome sequence data from a chordoma patient

Genome and transcriptome sequence data from a liposarcoma patient

Genome and transcriptome sequence data from an endometrial adenocarcinoma patient

Genome and transcriptome sequence data from a pancreatic adenocarcinoma patient

Genome and transcriptome sequence data from a breast carcinoma patient

Genome and transcriptome sequence data from a metastatic adenoid cystic carcinoma of the palate patient

Genome and transcriptome sequence data from a metastatic rectal adenocarcinoma patient

Genome and transcriptome sequence data from a pleomorphic sarcomatoid epithelioid carcinoma patient

Genome and transcriptome sequence data from a metastatic myoepithelial carcinoma of parotid patient

Genome and transcriptome sequence data from a high grade serous carcinoma of the fallopian tube/ovary/peritoneum patient

Genome and transcriptome sequence data from a metastatic breast carcinoma patient

Genome and transcriptome sequence data from a peripheral T-cell lymphoma patient

Genome and transcriptome sequence data from a melanoma of the right buccal mucosa patient

Genome and transcriptome sequence data from a squamous cell carcinoma of the anus patient

Genome and transcriptome sequence data from a T-cell rich B cell lymphoma patient

Genome and transcriptome sequence data from a metastatic adenocarcinoma of the rectosigmoid patient

Genome and transcriptome sequence data from a metastatic pancreatic adenocarcinoma patient

Genome and transcriptome sequence data from a metastatic gastrointestinal stromal tumor patient

Genome and transcriptome sequence data from a metastatic uterine leiomyosarcoma patient

Genome and transcriptome sequence data from a spindle cell carcinoma of the left parotid patient

Genome and transcriptome sequence data from a metastatic pancreatic adenocarcinoma patient

Genome and transcriptome sequence data from an adenocarcinoma of the lung patient