TY - JOUR
T1 - ESCC ATLAS: A population wide compendium of biomarkers for Esophageal Squamous Cell Carcinoma
AU - Tungekar, Asna
AU - Mandarthi, Sumana
AU - Mandaviya, Pooja Rajendra
AU - Gadekar, Veerendra P
AU - Tantry, Ananthajith
AU - Kotian, Sowmya
AU - Reddy, Jyotshna
AU - Prabha, Divya
AU - Bhat, Sushma
AU - Sahay, Sweta
AU - Mascarenhas, Roshan
AU - Badkillaya, Raghavendra Rao
AU - Nagasampige, Manoj Kumar
AU - Yelnadu, Mohan
AU - Pawar, Harsh
AU - Hebbar, Prashantha
AU - Kashyap, Manoj Kumar
PY - 2018/8/24
Y1 - 2018/8/24
N2 - Esophageal cancer (EC) is the eighth most aggressive malignancy and its treatment remains a challenge due to the lack of biomarkers that can facilitate early detection. EC is identified in two major histological forms namely - Adenocarcinoma (EAC) and Squamous cell carcinoma (ESCC), each showing differences in the incidence among populations that are geographically separated. Hence the detection of potential drug target and biomarkers demands a population-centric understanding of the molecular and cellular mechanisms of EC. To provide an adequate impetus to the biomarker discovery for ESCC, which is the most prevalent esophageal cancer worldwide, here we have developed ESCC ATLAS, a manually curated database that integrates genetic, epigenetic, transcriptomic, and proteomic ESCC-related genes from the published literature. It consists of 3475 genes associated to molecular signatures such as, altered transcription (2600), altered translation (560), contain copy number variation/structural variations (233), SNPs (102), altered DNA methylation (82), Histone modifications (16) and miRNA based regulation (261). We provide a user-friendly web interface ( http://www.esccatlas.org , freely accessible for academic, non-profit users) that facilitates the exploration and the analysis of genes among different populations. We anticipate it to be a valuable resource for the population specific investigation and biomarker discovery for ESCC.
AB - Esophageal cancer (EC) is the eighth most aggressive malignancy and its treatment remains a challenge due to the lack of biomarkers that can facilitate early detection. EC is identified in two major histological forms namely - Adenocarcinoma (EAC) and Squamous cell carcinoma (ESCC), each showing differences in the incidence among populations that are geographically separated. Hence the detection of potential drug target and biomarkers demands a population-centric understanding of the molecular and cellular mechanisms of EC. To provide an adequate impetus to the biomarker discovery for ESCC, which is the most prevalent esophageal cancer worldwide, here we have developed ESCC ATLAS, a manually curated database that integrates genetic, epigenetic, transcriptomic, and proteomic ESCC-related genes from the published literature. It consists of 3475 genes associated to molecular signatures such as, altered transcription (2600), altered translation (560), contain copy number variation/structural variations (233), SNPs (102), altered DNA methylation (82), Histone modifications (16) and miRNA based regulation (261). We provide a user-friendly web interface ( http://www.esccatlas.org , freely accessible for academic, non-profit users) that facilitates the exploration and the analysis of genes among different populations. We anticipate it to be a valuable resource for the population specific investigation and biomarker discovery for ESCC.
KW - BARRETTS-ESOPHAGUS
KW - CANCER
KW - CPG ISLAND HYPERMETHYLATION
KW - FALSE DISCOVERY RATE
KW - GENE-EXPRESSION PROFILES
KW - GROWTH-FACTOR RECEPTOR
KW - PATHWAY GENES
KW - RISK-FACTORS
KW - SINGLE NUCLEOTIDE POLYMORPHISMS
KW - UP-REGULATION
U2 - 10.1038/s41598-018-30579-3
DO - 10.1038/s41598-018-30579-3
M3 - Article
C2 - 30143675
SN - 2045-2322
VL - 8
JO - Scientific Reports
JF - Scientific Reports
IS - 1
M1 - 12715
ER -