Cited by 9Radiomics and Machine Learning in Medical ImagingCancer Genomics and DiagnosticsAI in cancer detection

INTEGRATIVE ANALYSIS FOR LUNG ADENOCARCINOMA PREDICTS MORPHOLOGICAL FEATURES ASSOCIATED WITH GENETIC VARIATIONS

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WANG, CHAO, SU, HAI, YANG, LIN, HUANG, KUN·2017·Biocomputing 2017

Abstract

Lung cancer is one of the most deadly cancers and lung adenocarcinoma (LUAD) is the most common histological type of lung cancer. However, LUAD is highly heterogeneous due to genetic difference as well as phenotypic differences such as cellular and tissue morphology. In this paper, we systematically examine the relationships between histological features and gene transcription. Specifically, we calculated 283 morphological features from histology images for 201 LUAD patients from TCGA project and identified the morphological feature with strong correlation with patient outcome. We then modeled the morphology feature using multiple co-expressed gene clusters using Lasso-regression. Many of the gene clusters are highly associated with genetic variations, specifically DNA copy number variations, implying that genetic variations play important roles in the development cancer morphology. As far as we know, our finding is the first to directly link the genetic variations and functional genomics to LUAD histology. These observations will lead to new insight on lung cancer development and potential new integrative biomarkers for prediction patient prognosis and response to treatments.

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Authors
WANG, C., SU, H., YANG, L., & HUANG, K.
Affiliations
  • The Ohio State University (US)
  • University of Florida (US)
Venue
Biocomputing 2017
Published
2016-11-22
Volume
22
Pages
82-93
OpenAlex
W2557229296
Cited by
9
References
27
Citations by year
2022: 1 · 2021: 3 · 2020: 2 · 2019: 2 · 2018: 1
FWCI
1.97
Type
conference paper
Language
en
Open access
Licence
cc-by
Locations
  • Pacific Symposium on Biocomputing (PSB) (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
National Cancer Institute (U01CA188547)
Topics
  • Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Radiomics and Machine Learning in Medical Imaging
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer Genomics and Diagnostics
  • Physical Sciences › Computer Science › Artificial Intelligence › AI in cancer detection
Keywords
lung adenocarcinoma, histomorphology, gene expression, copy number variation, co-expressed gene clusters, prognosis, histopathology image analysis, TCGA
MeSH terms
Adenocarcinoma of Lung, Adenocarcinoma, Algorithms, Multigene Family, Humans, Lung Neoplasms, Prognosis, Regression Analysis, Biomarkers, Tumor, Genetic Variation, Computational Biology, Gene Expression Profiling, Gene Regulatory Networks

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