ID

45506

Description

Principal Investigator: Matthew Meyerson, MD, PhD, Broad Institute, Cambridge MA, Dana Farber Cancer Institute, Boston MA, USA MeSH: Carcinoma, Non-Small-Cell Lung https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000488 Lung carcinoma is the leading cause of cancer death in the United States and world-wide; lung adenocarcinoma is the most common cause of lung cancer. Pilot studies of lung adenocarcinoma with hybrid-capture based whole exome sequencing will enable us to identify new targets for therapy and improve diagnosis. We will analyze a blend of whole exome and whole genome sequencing data as well as copy number and somatic mutation calls for 200 tumor and matched normal controls. When completed this study will represent the most comprehensive lung adenocarcinoma genome dataset to date.

Link

dbGap study = phs000488

Keywords

  1. 11/9/22 11/9/22 - Dr. med. Lucy Kessler
  2. 12/13/22 12/13/22 - Kristina Keller
Copyright Holder

Matthew Meyerson, MD, PhD, Broad Institute, Cambridge MA, Dana Farber Cancer Institute, Boston MA, USA

Uploaded on

December 13, 2022

DOI

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License

Creative Commons BY 4.0

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dbGaP phs000488 Genomic Sequencing of Lung Adenocarcinoma

Subject ID, age, ethnicity, pathological diagnosis of tumors, tumor stage, and smoking status of participants with lung adenocarcinoma and involved in the "Genomic Sequencing of Lung Adenocarcinoma" project.

pht002911
Description

pht002911

Alias
UMLS CUI [1,1]
C3846158
Smoking status of participant at time of tumor resection [Current Smoker, Ex Smoker, Never Smoker, Not reported]
Description

Smoking Status

Data type

string

Alias
UMLS CUI [1,1]
C1519386
Participant's age
Description

Age

Data type

text

Measurement units
  • Years
Alias
UMLS CUI [1,1]
C0001779
Years
Stage at tumor resection [Lung Cancer; IA, IB, IIA, IIB, IIIA, IIIB, IV, Not reported]
Description

Stage

Data type

string

Alias
UMLS CUI [1,1]
C1300072
UMLS CUI [1,2]
C0728940
Imputed ethnicity using principal component analysis on 1000-Genomes SNP data
Description

Ethnicity

Data type

text

Alias
UMLS CUI [1,1]
C0015031
UMLS CUI [1,2]
C2699638
Unique participant identifier
Description

SUBJECT_ID

Data type

string

Alias
UMLS CUI [1,1]
C3165543
Pack year quantification of participant at tumor resection. Number of reported cigarette packs smoked per day x number of years of reported smoking
Description

Smoking Pack Years

Data type

text

Measurement units
  • Pack Years
Alias
UMLS CUI [1,1]
C1277691
Pack Years
For patients with TRUE value, PFS value represents time point when patient was lost to follow-up
Description

Censored

Data type

text

Alias
UMLS CUI [2,1]
C0242792
Progression free survival measured as number of months until local or distant lung adenocarcinoma recurrence
Description

PFS

Data type

text

Measurement units
  • Months
Alias
UMLS CUI [1,1]
C0242792
Months
Histological classification based on expert pathology re-review [LCNEC, Lung adenocarcinoma, NSCLC, favor adeno, NSCLC, favor LCNEC, NSCLC, favor squamous, NSCLC, NOS, Other - Basaloid variant of large cell, Other - Carcinosarcoma, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Spindle cell CA, Other - Typical carcinoid, Unknown]
Description

Histology

Data type

text

Alias
UMLS CUI [1,1]
C0205462
UMLS CUI [1,2]
C0678257
UMLS CUI [2,1]
C0919553
Sample was included in final Imielinski et al analysis [TRUE, FALSE, NA]
Description

Data Freeze Included

Data type

text

Alias
UMLS CUI [1,1]
C0370003
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C1704324

Similar models

Subject ID, age, ethnicity, pathological diagnosis of tumors, tumor stage, and smoking status of participants with lung adenocarcinoma and involved in the "Genomic Sequencing of Lung Adenocarcinoma" project.

Name
Type
Description | Question | Decode (Coded Value)
Data type
Alias
Item Group
pht002911
C3846158 (UMLS CUI [1,1])
Smoking Status
Item
Smoking status of participant at time of tumor resection [Current Smoker, Ex Smoker, Never Smoker, Not reported]
string
C1519386 (UMLS CUI [1,1])
Age
Item
Participant's age
text
C0001779 (UMLS CUI [1,1])
Stage
Item
Stage at tumor resection [Lung Cancer; IA, IB, IIA, IIB, IIIA, IIIB, IV, Not reported]
string
C1300072 (UMLS CUI [1,1])
C0728940 (UMLS CUI [1,2])
Item
Imputed ethnicity using principal component analysis on 1000-Genomes SNP data
text
C0015031 (UMLS CUI [1,1])
C2699638 (UMLS CUI [1,2])
Code List
Imputed ethnicity using principal component analysis on 1000-Genomes SNP data
CL Item
Not available (NA)
SUBJECT_ID
Item
Unique participant identifier
string
C3165543 (UMLS CUI [1,1])
Smoking Pack Years
Item
Pack year quantification of participant at tumor resection. Number of reported cigarette packs smoked per day x number of years of reported smoking
text
C1277691 (UMLS CUI [1,1])
Censored
Item
For patients with TRUE value, PFS value represents time point when patient was lost to follow-up
text
C0242792 (UMLS CUI [2,1])
PFS
Item
Progression free survival measured as number of months until local or distant lung adenocarcinoma recurrence
text
C0242792 (UMLS CUI [1,1])
Histology
Item
Histological classification based on expert pathology re-review [LCNEC, Lung adenocarcinoma, NSCLC, favor adeno, NSCLC, favor LCNEC, NSCLC, favor squamous, NSCLC, NOS, Other - Basaloid variant of large cell, Other - Carcinosarcoma, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Combined SCLC & squamous, Other - Spindle cell CA, Other - Typical carcinoid, Unknown]
text
C0205462 (UMLS CUI [1,1])
C0678257 (UMLS CUI [1,2])
C0919553 (UMLS CUI [2,1])
Data Freeze Included
Item
Sample was included in final Imielinski et al analysis [TRUE, FALSE, NA]
text
C0370003 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C1704324 (UMLS CUI [1,3])

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