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CCDI Data Catalog16/100

Whole-exome Sequencing of Intracranial Germ Cell Tumors performed at Human Genome Sequencing Center, Baylor College of Medicine

Intracranial germ cell tumors (IGCTs) are rare and biologically diverse tumors affecting mainly male adolescents with the highest incidence in Japan and other Asian countries. They are divided into two main groups, pure germinoma and nongerminomatous germ cell tumors (NGGCTs). Germinoma is the most common subtype. NGGCTs include teratoma, embryonal carcinoma, yolk sac tumor and choriocarcinoma. About 10% of germinomas and most NGGCTs remain refractory to multimodality therapy. Little is currently known about IGCTs except for KIT mutation or overexpression, observed in ~25% of pure germinomas and rarely seen in NGGCTs. As yet, there are no clues for the puzzle of onset during puberty, geographic and gender discrepancy in the incidence of IGCTs. With the collaboration of Texas Children's Hospital, Saitama Medical University Hospital, Kumamoto University Hospital, Nagoya University Hospital, Hokkaido University Hospital and Chinese University of Hong Kong, the Human Genome Sequencing Center at Baylor College of Medicine had access to 62 tumor specimens and 52 matched normal blood samples from 68 IGCT patients. We performed whole-exome sequencing, targeted deep sequencing and high-resolution SNP arrays to characterize the profile of somatic mutations, germline variants and DNA copy number alterations. The deposited BAM files record the sequence alignments used to generate the mutation data.

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Dataset results

Whole-exome Sequencing of Intracranial Germ Cell Tumors performed at Human Genome Sequencing Center, Baylor College of Medicine

Genome-wide hepatic miRNAome profiling in chronic hepatitis C patients using next-generation sequencing [miRNA-seq]

Whole genome bisulfite sequencing from primate brains (orthologous region to human BA46)

Whole genome bisulfite sequencing of arp6-5 and pie1-7 Arabidopsis mutants

RNA deep sequencing to compare genome-wide differences between PRMT5/knockdown and control AML cells

Genomic sequences and annotations for Solanum lycopersicum, Solanum pennellii and Solanum habrochaites

Aggregated variant data from whole-genome sequenced tinnitus patients (TIGER)

Whole-genome bisulfite sequencing (WGBS) for LKB1 overexpressing and NNMT knockdown A549 cells

Genome level identification of transcription start sites by nanoCAGE sequence in soybean (Glycine max).

Whole genome bisulfite sequencing data of Russian wheat aphid biotypes US-RWA1 (co-fed), US-RWA2 (co-fed) and US-RWA2 (isolated)

Genome-wide transcriptome sequencing at different stages of Drosophila development, RNA-seq

Whole genome bisulfite Sequencing data of four types mouse spermatogenesis

single-nucleotide resolution sequencing of N6-methyladenine in E. coli genomes and mammalian mitochondrial DNA

Integrative Analysis of Tamoxifen-resistant Cell Line Models Based on Sequencing Genomes, Transcriptomes and Epigenomes [aCGH]

Simultaneous Single-cell Genome and Transcriptome Sequencing with Digital Microfluidics Identifying Essential Driving Genes

Genome-wide total RNA and MBD-sequencing in HCT116 and DKO cells as a global re-expression model [MBD-Seq]

Genome-wide total RNA and MBD-sequencing in HCT116 and DKO cells as a global re-expression model

Whole genome sequencing of T-47D cell colonies overexpressed with APOBEC3B and hUGI

Genome-wide mapping cis-regulatory sequence elements in the human genome using Nuclease-Hypersensitive-CGH technique

Draft Genome sequences of Rhodotorula mucilaginosa isolated from the International space station

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Allen Brain Atlas

Annotated Behaviour and Observability Dataset (ABODe)

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International Brain Laboratory public data

OpenNeuro