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List of works by Sudhir Varma

A Gene Expression Signature Associated with Overall Survival in Patients with Hepatocellular Carcinoma Suggests a New Treatment Strategy.

scientific article published on 14 December 2015

A brain proteomic signature of incipient Alzheimer's disease in young <i>APOE</i> ε4 carriers identifies novel drug targets

scientific article published on 10 November 2021

A new whole genome amplification method for studying clonal evolution patterns in malignant colorectal polyps ⬇️

scientific article published on February 15, 2012

Abnormal brain cholesterol homeostasis in Alzheimer's disease-a targeted metabolomic and transcriptomic study

scientific article published on 01 June 2021

Alterations of DNA repair genes in the NCI-60 cell lines and their predictive value for anticancer drug activity.

scientific article

Aneuploidy-dependent massive deregulation of the cellular transcriptome and apparent divergence of the Wnt/beta-catenin signaling pathway in human rectal carcinomas.

scientific article published on January 2006

Asparagine synthetase is a predictive biomarker of L-asparaginase activity in ovarian cancer cell lines.

scientific article

Bias in error estimation when using cross-validation for model selection

scientific article

Blind estimation and correction of microarray batch effect

scientific article published on 09 April 2020

Calculating confidence intervals for prediction error in microarray classification using resampling

scientific article published in March 2008

CellMiner: A Web-Based Suite of Genomic and Pharmacologic Tools to Explore Transcript and Drug Patterns in the NCI-60 Cell Line Set ⬇️

scientific article published on July 15, 2012

CellMiner: a relational database and query tool for the NCI-60 cancer cell lines

scientific article published on 23 June 2009

Chromosomal copy number changes of locally advanced rectal cancers treated with preoperative chemoradiotherapy

scientific article published on August 2009

Circulating cortisol-associated signature of glucocorticoid-related gene expression in subcutaneous fat of obese subjects

scientific article

Clinical relevance of multidrug resistance gene expression in ovarian serous carcinoma effusions.

scientific article published on 15 July 2011

Construct and Compare Gene Coexpression Networks with DAPfinder and DAPview.

scientific article

Cytidine Deaminase Deficiency Reveals New Therapeutic Opportunities against Cancer

scientific article published on 6 September 2016

DNA fingerprinting of the NCI-60 cell line panel

scientific article

DNA methylome profiling identifies novel methylated genes in African American patients with colorectal neoplasia

scientific article

Effectiveness of gene expression profiling for response prediction of rectal adenocarcinomas to preoperative chemoradiotherapy.

scientific article

Epigenetic inactivation of the putative DNA/RNA helicase SLFN11 in human cancer confers resistance to platinum drugs

scientific article published on 27 November 2015

Exclusion of the 750-kb genetically unstable region at Xq27 as a candidate locus for prostate malignancy in HPCX1-linked families.

scientific article

G4 motifs correlate with promoter-proximal transcriptional pausing in human genes.

scientific article

Gene network reconstruction reveals cell cycle and antiviral genes as major drivers of cervical cancer ⬇️

scientific article published on January 1, 2013

Genome and transcriptome profiles of CD133-positive colorectal cancer cells.

scientific article

Genome-wide Analysis of Novel Splice Variants Induced by Topoisomerase I Poisoning Shows Preferential Occurrence in Genes Encoding Splicing Factors ⬇️

scientific article published on September 3, 2010

High recombination rates and hotspots in a Plasmodium falciparum genetic cross

scientific article published on 4 April 2011

High resolution copy number variation data in the NCI-60 cancer cell lines from whole genome microarrays accessible through CellMiner

scientific article

Identification of novel mutations by exome sequencing in African American colorectal cancer patients

scientific article

Iterative class discovery and feature selection using Minimal Spanning Trees

scientific article

Metabolic network failures in Alzheimer's disease: A biochemical road map.

scientific article published on 21 March 2017

Microarray-based analysis of differential gene expression between infective and noninfective larvae of Strongyloides stercoralis

scientific article

Multidrug resistance in relapsed acute myeloid leukemia: Evidence of biological heterogeneity ⬇️

scientific article published on May 14, 2013

NCI-60 whole exome sequencing and pharmacological CellMiner analyses

scientific article (publication date: 2014)

Next-generation sequencing in African Americans with colorectal cancer

scientific article published on 4 May 2015

Peril beyond the winner's curse: A small sample size is the bane of biomarker discovery

scientific article published on 21 January 2017

Predicting cisplatin and trabectedin drug sensitivity in ovarian and colon cancers

Putative DNA/RNA helicase Schlafen-11 (SLFN11) sensitizes cancer cells to DNA-damaging agents

scientific article

Redefining the relevance of established cancer cell lines to the study of mechanisms of clinical anti-cancer drug resistance

scientific article published on 8 November 2011

Reduced Representation Bisulfite Sequencing Determination of Distinctive DNA Hypermethylated Genes in the Progression to Colon Cancer in African Americans

scientific article published on September 2016

Regulation and expression of the ATP-binding cassette transporter ABCG2 in human embryonic stem cells.

scientific article

Regulation of Global Gene Expression in Human Loa loa Infection Is a Function of Chronicity ⬇️

scientific article published on February 28, 2012

SLFN11 Is a Transcriptional Target of EWS-FLI1 and a Determinant of Drug Response in Ewing Sarcoma.

scientific article

Targeted Exome Sequencing Outcome Variations of Colorectal Tumors within and across Two Sequencing Platforms

scientific article published on 14 March 2016

Targeted exome sequencing reveals distinct pathogenic variants in Iranians with colorectal cancer.

scientific article published on 16 December 2016

The NCI-60 Methylome and Its Integration into CellMiner

scientific article

The clinical relevance of cancer cell lines.

scientific article published on 21 February 2013

Transcription Poisoning by Topoisomerase I Is Controlled by Gene Length, Splice Sites, and miR-142-3p ⬇️

scientific article published on June 20, 2013

Using CellMiner 1.6 for Systems Pharmacology and Genomic Analysis of the NCI-60

scientific article

Using drug response data to identify molecular effectors, and molecular "omic" data to identify candidate drugs in cancer

scientific article

rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R

scientific article published on 03 December 2015

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