Lce: an open web portal to explore gene expression and clinical associations in lung cancer

Ling Cai; ShinYi Lin; Luc Girard; Yunyun Zhou; Lin Yang; Bo Ci; Qinbo Zhou; Danni Luo; Bo Yao; Hao Tang; Jeffrey Allen; Kenneth Huffman; Adi Gazdar; John Heymach; Ignacio Wistuba; Guanghua Xiao; John Minna; Yang Xie

doi:10.1038/s41388-018-0588-2

Lce: an open web portal to explore gene expression and clinical associations in lung cancer

Ling Cai
, ShinYi Lin
, Luc Girard
, Yunyun Zhou
, Lin Yang
, Bo Ci
, Qinbo Zhou
, Danni Luo
, Bo Yao
, Hao Tang
, Jeffrey Allen
, Kenneth Huffman
, Adi Gazdar
, John Heymach
, Ignacio Wistuba
, Guanghua Xiao
, John Minna
, Yang Xie

UT Southwestern Medical Center
University of Texas Southwestern Medical Center
Quantitative Biomedical Research Center
Department of Clinical Sciences
Department of Data Science
University of Mississippi Medical Center
University of Texas MD Anderson Cancer Center

Research output: Contribution to journal › Article › peer-review

104 Scopus citations

Abstract

We constructed a lung cancer-specific database housing expression data and clinical data from over 6700 patients in 56 studies. Expression data from 23 genome-wide platforms were carefully processed and quality controlled, whereas clinical data were standardized and rigorously curated. Empowered by this lung cancer database, we created an open access web resource-the Lung Cancer Explorer (LCE), which enables researchers and clinicians to explore these data and perform analyses. Users can perform meta-analyses on LCE to gain a quick overview of the results on tumor vs non-malignant tissue (normal) differential gene expression and expression-survival association. Individual dataset-based survival analysis, comparative analysis, and correlation analysis are also provided with flexible options to allow for customized analyses from the user.

Original language	English
Pages (from-to)	2551-2564
Number of pages	14
Journal	Oncogene
Volume	38
Issue number	14
DOIs	https://doi.org/10.1038/s41388-018-0588-2
State	Published - Apr 4 2019

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Gene Expression/genetics
Gene Expression Profiling/methods
Genome-Wide Association Study/methods
Genomics/methods
Humans
Lung Neoplasms/genetics
Survival Analysis

Access to Document

10.1038/s41388-018-0588-2

Cite this

@article{e324ee106c1447d19d2d12890ba8cd57,

title = "Lce: an open web portal to explore gene expression and clinical associations in lung cancer",

abstract = "We constructed a lung cancer-specific database housing expression data and clinical data from over 6700 patients in 56 studies. Expression data from 23 genome-wide platforms were carefully processed and quality controlled, whereas clinical data were standardized and rigorously curated. Empowered by this lung cancer database, we created an open access web resource-the Lung Cancer Explorer (LCE), which enables researchers and clinicians to explore these data and perform analyses. Users can perform meta-analyses on LCE to gain a quick overview of the results on tumor vs non-malignant tissue (normal) differential gene expression and expression-survival association. Individual dataset-based survival analysis, comparative analysis, and correlation analysis are also provided with flexible options to allow for customized analyses from the user.",

keywords = "Gene Expression/genetics, Gene Expression Profiling/methods, Genome-Wide Association Study/methods, Genomics/methods, Humans, Lung Neoplasms/genetics, Survival Analysis",

author = "Ling Cai and ShinYi Lin and Luc Girard and Yunyun Zhou and Lin Yang and Bo Ci and Qinbo Zhou and Danni Luo and Bo Yao and Hao Tang and Jeffrey Allen and Kenneth Huffman and Adi Gazdar and John Heymach and Ignacio Wistuba and Guanghua Xiao and John Minna and Yang Xie",

note = "Publisher Copyright: {\textcopyright} 2018, The Author(s).",

year = "2019",

month = apr,

day = "4",

doi = "10.1038/s41388-018-0588-2",

language = "English",

volume = "38",

pages = "2551--2564",

journal = "Oncogene",

issn = "0950-9232",

publisher = "Springer Nature",

number = "14",

}

TY - JOUR

T1 - Lce

T2 - an open web portal to explore gene expression and clinical associations in lung cancer

AU - Cai, Ling

AU - Lin, ShinYi

AU - Girard, Luc

AU - Zhou, Yunyun

AU - Yang, Lin

AU - Ci, Bo

AU - Zhou, Qinbo

AU - Luo, Danni

AU - Yao, Bo

AU - Tang, Hao

AU - Allen, Jeffrey

AU - Huffman, Kenneth

AU - Gazdar, Adi

AU - Heymach, John

AU - Wistuba, Ignacio

AU - Xiao, Guanghua

AU - Minna, John

AU - Xie, Yang

PY - 2019/4/4

Y1 - 2019/4/4

N2 - We constructed a lung cancer-specific database housing expression data and clinical data from over 6700 patients in 56 studies. Expression data from 23 genome-wide platforms were carefully processed and quality controlled, whereas clinical data were standardized and rigorously curated. Empowered by this lung cancer database, we created an open access web resource-the Lung Cancer Explorer (LCE), which enables researchers and clinicians to explore these data and perform analyses. Users can perform meta-analyses on LCE to gain a quick overview of the results on tumor vs non-malignant tissue (normal) differential gene expression and expression-survival association. Individual dataset-based survival analysis, comparative analysis, and correlation analysis are also provided with flexible options to allow for customized analyses from the user.

AB - We constructed a lung cancer-specific database housing expression data and clinical data from over 6700 patients in 56 studies. Expression data from 23 genome-wide platforms were carefully processed and quality controlled, whereas clinical data were standardized and rigorously curated. Empowered by this lung cancer database, we created an open access web resource-the Lung Cancer Explorer (LCE), which enables researchers and clinicians to explore these data and perform analyses. Users can perform meta-analyses on LCE to gain a quick overview of the results on tumor vs non-malignant tissue (normal) differential gene expression and expression-survival association. Individual dataset-based survival analysis, comparative analysis, and correlation analysis are also provided with flexible options to allow for customized analyses from the user.

KW - Gene Expression/genetics

KW - Gene Expression Profiling/methods

KW - Genome-Wide Association Study/methods

KW - Genomics/methods

KW - Humans

KW - Lung Neoplasms/genetics

KW - Survival Analysis

UR - https://www.scopus.com/pages/publications/85058186904

U2 - 10.1038/s41388-018-0588-2

DO - 10.1038/s41388-018-0588-2

M3 - Article

C2 - 30532070

SN - 0950-9232

VL - 38

SP - 2551

EP - 2564

JO - Oncogene

JF - Oncogene

IS - 14

ER -

Lce: an open web portal to explore gene expression and clinical associations in lung cancer

Abstract

UN SDGs

Keywords

Access to Document

Other files and links

Fingerprint

Cite this