{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Amit Dutt"],"instrument_platform":["NextSeq 500"],"study_type":["exome sequencing"],"organism":["Homo sapiens"],"species":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14615"],"description":["The study involves whole exome sequencing of 21 paired and 8 orphan primary tumors obtained from papillary thyroid carcinoma patients of Indian origin. With this, we aim to  describe the mutational profile of this specific subset of papillary thyroid cancer patients. This knowledge will further allow us to gain an insight into potentially actionable genomic alterations prevalent in Indian papillary thyroid carcinoma."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - 49 fresh frozen samples (21 fresh frozen tumor and normal pairs and 7 fresh frozen orphan tumors) corresponding to 28 papillary thyroid cancer patients were collected retrospectively from tumor tissue repository at Tata Memorial Hospital, Mumbai. The sample collection and study protocols were approved by Institutional Review Board at TMC-ACTREC.","Nucleic Acid Extraction - The 49 fresh frozen paired and orphan tumor samples has been subjected to cyro-sectioning where ~20-30 cryo-sections of 10 um has been taken based on the tissue abundance for DNA extraction. The DNA extraction from cryo-sections has been performed according to standard protocol of Qiagen's DNeasy blood and tissue kits (cat. no. 69504). The DNA concentration was measured using Nanodrop 2000c spectrophotometer.","Sequencing - Sequencing was performed on Illumina NextSeq 500 platform according to manufacturer's instruction","Library Construction - Whole exome sequencing libraries have been prepared on 49 DNA samples using Agilent Sureselect V5 + UTR kit.Sequencing was performed on Illumina NextSeq 500 platform according to standard protocol using 150bp paired end reads."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Amit Dutt"],"additional_accession":[]},"is_claimable":false,"name":"Whole exome sequencing of papillary thyroid cancer of Indian origin","description":"The study involves whole exome sequencing of 21 paired and 8 orphan primary tumors obtained from papillary thyroid carcinoma patients of Indian origin. With this, we aim to  describe the mutational profile of this specific subset of papillary thyroid cancer patients. This knowledge will further allow us to gain an insight into potentially actionable genomic alterations prevalent in Indian papillary thyroid carcinoma.","dates":{"release":"2026-10-05T00:00:00Z","modification":"2026-10-05T08:52:32.068Z","creation":"2024-11-12T14:03:09.511Z"},"accession":"E-MTAB-14615","cross_references":{"ENA":["ERP166165"],"EFO":["EFO_0002944","EFO_0005396","EFO_0004170","EFO_0005518","EFO_0004184"]}}