Metadata record for the article: A multi-omics study links TNS3 and SEPT7 to long-term former smoking NSCLC survival
Creators: name: Shen, Sipeng
name: Wei, Yongyue
name: Li, Yi
name: Duan, Weiwei
name: Dong, Xuesi
name: Lin, Lijuan
name: You, Dongfang
name: Tardon, Adonina
name: Chen, Chu
name: K Field, John
name: Hung, Rayjean
J.
name: Liu, Geoffrey
name: Zhu, Dakai
name: Amos, Christopher I.
name: Su, Li
name: Zhao, Yang
name: Hu, Zhibing
name: Shen, Hongbing
name: Zhang, Ruyang
name: Chen, Feng
name: Christiani, David C
Publisher: name: figshare
Year: 2021
Subjects: Oncology and Carcinogenesis not elsewhere classified
Cancer Genetics

description: This metadata record provides details of the data supporting the claims of the related manuscript: “A multi-omics study links TNS3 and SEPT7 to long-term former smoking NSCLC survival”.The related study aimed to understand the genetic contribution of long-term smoking cessation on prognosis for non-small cell lung cancer (NSCLC) patients. This was investigated by a genome-wide association study on data from 1,299 individuals with NSCLC.<br>Type of data: Participant demographic and phenotype data; SNP genotype array data; noncoding genome annotations; proteomics data; expression quantitative trait loci dataSubject of data: long-term former smoker NSCLC patientsSample size: 1,299 individuals<br><b>Data access</b>De-identified participant phenotype data (OncoArray_Lung_Cancer_Subject_Phenotypes.txt) are available from the dbGap repository under the Phenotype Datasets tab of https://identifiers.org/dbgap:phs001273.v3.p2. Prospective users must apply for access to the data, and details of how to apply can be found on the dataset landing page.<br>SNP genotype array data are available from are available from the dbGap repository under the Molecular Datasets tab of https://identifiers.org/dbgap:phs001273.v3.p2. Prospective users must apply for access to the data, and details of how to apply can be found on the dataset landing page.<br>Functional prediction analyses of rs34211819 and rs1143149 as summarized in Supplemental table 4 of the related manuscript, are available by inputting the SNP rs numbers into HaploReg website https://pubs.broadinstitute.org/mammals/haploreg/haploreg.php.<br>De-identified
participant demographic and phenotype data for lung adenocarcinoma patients
(nationwidechildrens.org_clinical_patient_luad.txt) can be openly accessed from
the National Cancer Institute GDC Legacy Archive https://portal.gdc.cancer.gov/legacy-archive/files/0f56f656-18f5-4648-97d9-bdbb0f2184a2.<br>The data file with proteomics data from the Clinical Proteomic Tumor Analysis Consortium (CPTAC) (CPTAC_Pro.xlsx) can be openly accessed from the NCI Cancer Research Data Commons repository https://proteomic.datacommons.cancer.gov/pdc/study/PDC000153.<br>The data file with the expression quantitative trait loci (eQTL) data (GTEx_Analysis_v8_eQTL.tar) can be accessed directly from https://storage.googleapis.com/gtex_analysis_v8/single_tissue_qtl_data/GTEx_Analysis_v8_eQTL.tar, or downloaded from the GTEx Portal home page (https://www.gtexportal.org/home/datasets).<b><br></b><b>Corresponding author(s) for this study</b>Sipeng Shen (shensipeng@126.com)David C. Christiani (dchris@hsph.harvard.edu)<br><b>Study approval </b>All participants provided written informed consent. All studies were reviewed and approved by institutional ethics review committees at the involved institutions.<br>