title: Sample 33
organism: Homo sapiens
description: Protocols: Circulating DNA was isolated from 5 mL and 1 mL of plasma and serum, respectively, using the QIAamp Circulating Nucleic Acid Kit (Qiagen). Germline DNA was isolated from PBMC using the QIAamp DNA Mini Kit (Qiagen). DNeasy Blood & Tissue kit (Qiagen) was used to extract DNA from fresh frozen tissue, following the recommendations from the manufacturer. Extracted DNA was immediately aliquoted and stored at -20°C. The purified plasma DNA was run on bioanalyzer for size estimation and its concentration was estimated by fluorometric quantitation using Qubit (ThermoFisher). Indexed Illumina NGS libraries were prepared from plasma DNA, tumor tissue and PBMC (germline DNA). Sequence captures of 58-gene-exons from plasma DNA, tumor DNA and germline DNA libraries were carried out using the Biotinylated custom baits of Agilent SureSelect oligo pool (Agilent Cat # 5190-4808)
attributes.tag: ENA first public
attributes.value: 2018-04-29
attributes.tag: ENA last update
attributes.value: 2016-10-04
attributes.tag: External Id
attributes.value: SAMEA4476934
attributes.tag: INSDC center alias
attributes.value: Division of Liver Diseases, Icahn School of Medicine at Mount Sinai
attributes.tag: INSDC center name
attributes.value: Division of Liver Diseases, Icahn School of Medicine at Mount Sinai
attributes.tag: INSDC first public
attributes.value: 2018-04-29T17:02:51Z
attributes.tag: INSDC last update
attributes.value: 2016-10-04T11:50:01Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-5123:Sample 33
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: common name
attributes.value: human
attributes.tag: disease
attributes.value: hepatocellular carcinoma
attributes.tag: fraction
attributes.value: circulating free DNA
attributes.tag: individual
attributes.value: 1
attributes.tag: organism part
attributes.value: plasma and serum
attributes.tag: sample name
attributes.value: E-MTAB-5123:Sample 33