List of works - Manoj Bhasin

A hybrid approach for predicting promiscuous MHC class I restricted T cell epitopes.

scientific article published in January 2007

A metabolic prosurvival role for PML in breast cancer.

scientific article

A20 modulates lipid metabolism and energy production to promote liver regeneration

scientific article

A20 regulates atherogenic interferon (IFN)-γ signaling in vascular cells by modulating basal IFNβ levels.

scientific article

Analysis and prediction of affinity of TAP binding peptides using cascade SVM.

scientific article published in March 2004

Analysis of host gene expression changes reveals distinct roles for the cytoplasmic domain of the Epstein-Barr virus receptor/CD21 in B-cell maturation, activation, and initiation of virus infection.

scientific article published on 5 March 2014

Analysis of multiple sarcoma expression datasets: implications for classification, oncogenic pathway activation and chemotherapy resistance

scientific article

Anti-S1P Antibody as a Novel Therapeutic Strategy for VEGFR TKI-Resistant Renal Cancer.

scientific article published on 14 January 2015

Bench-to-bedside review: future novel diagnostics for sepsis - a systems biology approach

scientific article

BhairPred: prediction of beta-hairpins in a protein from multiple alignment information using ANN and SVM techniques.

scientific article

Binding of the WASP/N-WASP-interacting protein WIP to actin regulates focal adhesion assembly and adhesion

scientific article

Bioinformatic identification and characterization of human endothelial cell-restricted genes

scientific article

Cardiopulmonary Bypass Decreases Activation of the Signal Transducer and Activator of Transcription 3 (STAT3) Pathway in Diabetic Human Myocardium

scientific article published on 28 July 2015

Classification of nuclear receptors based on amino acid composition and dipeptide composition.

scientific article published on 23 March 2004

Combinatorial effect of non-steroidal anti-inflammatory drugs and NF-κB inhibitors in ovarian cancer therapy

scientific article

Computational repositioning and preclinical validation of pentamidine for renal cell cancer.

scientific article

Correction: Relaxation Response Induces Temporal Transcriptome Changes in Energy Metabolism, Insulin Secretion and Inflammatory Pathways

scientific article published on 21 February 2017

Curative and beta cell regenerative effects of alpha1-antitrypsin treatment in autoimmune diabetic NOD mice.

scholarly article

Detecting Microbial Dysbiosis Associated with Pediatric Crohn Disease Despite the High Variability of the Gut Microbiota

scientific article published on 19 January 2016

ERG is required for the differentiation of embryonic stem cells along the endothelial lineage

scientific article published on 23 December 2009

ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST.

scientific article published on July 2004

Evidence for a role of the histone deacetylase SIRT6 in DNA damage response of multiple myeloma cells

scientific article published on 16 December 2015

Functional and Transcriptomic Characterization of Peritoneal Immune-Modulation by Addition of Alanyl-Glutamine to Dialysis Fluid.

scientific article published on 24 July 2017

GPCRpred: an SVM-based method for prediction of families and subfamilies of G-protein coupled receptors.

scientific article published on July 2004

GPCRsclass: a web tool for the classification of amine type of G-protein-coupled receptors

scientific article

Gene expression analysis of embryonic stem cells expressing VE-cadherin (CD144) during endothelial differentiation

scientific article

Gene expression profile of mouse prostate tumors reveals dysregulations in major biological processes and identifies potential murine targets for preclinical development of human prostate cancer therapy.

scientific article

Genomic and clinical effects associated with a relaxation response mind-body intervention in patients with irritable bowel syndrome and inflammatory bowel disease

scientific article published on 30 April 2015

Genomic counter-stress changes induced by the relaxation response

scientific article

HIV-1 infection impairs regulatory T-cell suppressive capacity on a per-cell basis.

scientific article published on 23 March 2014

High dose intermittent sorafenib shows improved efficacy over conventional continuous dose in renal cell carcinoma.

scientific article published on 21 December 2011

Identification of key regulators of pancreatic cancer progression through multidimensional systems-level analysis

scientific article published on 3 May 2016

Identification of the transcription factor single-minded homologue 2 as a potential biomarker and immunotherapy target in prostate cancer

scientific article

Induced Human Decidual NK-Like Cells Improve Utero-Placental Perfusion in Mice

scientific article

Inhibition of ALK1 signaling with dalantercept combined with VEGFR TKI leads to tumor stasis in renal cell carcinoma.

scientific article published on 26 May 2016

MHCBN 4.0: A database of MHC/TAP binding peptides and T-cell epitopes

scientific article

MHCBN: a comprehensive database of MHC binding and non-binding peptides

scientific article (publication date: 22 March 2003)

MSC-regulated microRNAs converge on the transcription factor FOXP2 and promote breast cancer metastasis

scientific article published on 16 October 2014

Meta-analysis of transcriptome data identifies a novel 5-gene pancreatic adenocarcinoma classifier

scientific article

Mitochondrial Dysfunction in Atrial Tissue of Patients Developing Postoperative Atrial Fibrillation

scientific article published on 28 July 2017

Multicenter Analysis of Immune Biomarkers and Heart Transplant Outcomes: Results of the Clinical Trials in Organ Transplantation-05 Study

scientific article published on 10 August 2015

Multicenter evaluation of a standardized protocol for noninvasive gene expression profiling

scientific article (publication date: July 2013)

Novel non-invasive biomarkers that distinguish between benign prostate hyperplasia and prostate cancer.

scientific article published on 11 April 2015

Optimizing a proteomics platform for urine biomarker discovery

scientific article

Overcoming Memory T-Cell Responses for Induction of Delayed Tolerance in Nonhuman Primates ⬇️

scientific article published on November 4, 2011

PGC-1α promotes recovery after acute kidney injury during systemic inflammation in mice

scientific article

PGC1α drives NAD biosynthesis linking oxidative metabolism to renal protection.

scientific article

PSLpred: prediction of subcellular localization of bacterial proteins

scientific article published on 04 February 2005

Pentraxin-3 is a PI3K signaling target that promotes stem cell-like traits in basal-like breast cancers.

scientific article

Prediction of promiscuous and high-affinity mutated MHC binders.

scientific article published in August 2003

Preliminary biomarkers for identification of human ascending thoracic aortic aneurysm.

scientific article

Prevention of nonimmunologic loss of transplanted islets in monkeys.

scientific article published on 9 June 2014

Quantitative proteomic analysis in HCV-induced HCC reveals sets of proteins with potential significance for racial disparity.

scientific article published on October 2013

Recognition and classification of histones using support vector machine

scientific article

Reduced PDEF expression increases invasion and expression of mesenchymal genes in prostate cancer cells.

scientific article published on May 2007

Relaxation response induces temporal transcriptome changes in energy metabolism, insulin secretion and inflammatory pathways

scientific article

Requirement of the epithelium-specific Ets transcription factor Spdef for mucous gland cell function in the gastric antrum.

scientific article

RhoJ is an endothelial cell-restricted Rho GTPase that mediates vascular morphogenesis and is regulated by the transcription factor ERG.

scientific article

SB225002 Induces Cell Death and Cell Cycle Arrest in Acute Lymphoblastic Leukemia Cells through the Activation of GLIPR1

scientific article

SVM based method for predicting HLA-DRB1*0401 binding peptides in an antigen sequence.

scientific article published on 22 January 2004

Searching and mapping of T-cell epitopes, MHC binders, and TAP binders

scientific article published on 01 January 2007

Significant lethality following liver resection in A20 heterozygous knockout mice uncovers a key role for A20 in liver regeneration

scientific article published on 15 May 2015

Single cell analysis reveals an antiviral network that controls Zika virus infection in human dendritic cells

scientific article published on 21 January 2024

Specific Transcriptome Changes Associated with Blood Pressure Reduction in Hypertensive Patients After Relaxation Response Training

scientific article published on 4 April 2018

Support vector machine-based method for subcellular localization of human proteins using amino acid compositions, their order, and similarity search

scientific article

TAPPred prediction of TAP-binding peptides in antigens.

scientific article published in January 2007

Temporal network based analysis of cell specific vein graft transcriptome defines key pathways and hub genes in implantation injury

scientific article (publication date: 2012)

Temporal retinal transcriptome and systems biology analysis identifies key pathways and hub genes in Staphylococcus aureus endophthalmitis

scientific article published on 11 February 2016

The KDM3A-KLF2-IRF4 axis maintains myeloma cell survival

scientific article published on 5 January 2016

The effects of transfection reagent polyethyleneimine (PEI) and non-targeting control siRNAs on global gene expression in human aortic smooth muscle cells

scientific article published on 5 January 2016

The receptor tyrosine kinase Axl is an essential regulator of prostate cancer proliferation and tumor growth and represents a new therapeutic target.

scientific article

The role of TNF-α in mice with type 1- and 2- diabetes

scientific article (publication date: 2012)

Transcriptional patterns in peritoneal tissue of encapsulating peritoneal sclerosis, a complication of chronic peritoneal dialysis

scientific article

Transcriptomic and proteomic analysis of global ischemia and cardioprotection in the rabbit heart.

scientific article

Upregulation of inflammatory gene transcripts in periosteum of chronic migraineurs: Implications for extracranial origin of headache.

scientific article published on 18 April 2016

Vemurafenib-resistance via de novo RBM genes mutations and chromosome 5 aberrations is overcome by combined therapy with palbociclib in thyroid carcinoma with BRAFV600E.

scientific article published on 24 September 2017

p16Ink4a or p19Arf loss contributes to Tal1-induced leukemogenesis in mice

scientific article published on 01 May 2006

List of works by Manoj Bhasin

A hybrid approach for predicting promiscuous MHC class I restricted T cell epitopes.

A metabolic prosurvival role for PML in breast cancer.

A20 modulates lipid metabolism and energy production to promote liver regeneration

A20 regulates atherogenic interferon (IFN)-γ signaling in vascular cells by modulating basal IFNβ levels.

Analysis and prediction of affinity of TAP binding peptides using cascade SVM.

Analysis of host gene expression changes reveals distinct roles for the cytoplasmic domain of the Epstein-Barr virus receptor/CD21 in B-cell maturation, activation, and initiation of virus infection.

Analysis of multiple sarcoma expression datasets: implications for classification, oncogenic pathway activation and chemotherapy resistance

Anti-S1P Antibody as a Novel Therapeutic Strategy for VEGFR TKI-Resistant Renal Cancer.

Bench-to-bedside review: future novel diagnostics for sepsis - a systems biology approach

BhairPred: prediction of beta-hairpins in a protein from multiple alignment information using ANN and SVM techniques.

Binding of the WASP/N-WASP-interacting protein WIP to actin regulates focal adhesion assembly and adhesion

Bioinformatic identification and characterization of human endothelial cell-restricted genes

Cardiopulmonary Bypass Decreases Activation of the Signal Transducer and Activator of Transcription 3 (STAT3) Pathway in Diabetic Human Myocardium

Classification of nuclear receptors based on amino acid composition and dipeptide composition.

Combinatorial effect of non-steroidal anti-inflammatory drugs and NF-κB inhibitors in ovarian cancer therapy

Computational repositioning and preclinical validation of pentamidine for renal cell cancer.

Correction: Relaxation Response Induces Temporal Transcriptome Changes in Energy Metabolism, Insulin Secretion and Inflammatory Pathways

Curative and beta cell regenerative effects of alpha1-antitrypsin treatment in autoimmune diabetic NOD mice.

Detecting Microbial Dysbiosis Associated with Pediatric Crohn Disease Despite the High Variability of the Gut Microbiota

ERG is required for the differentiation of embryonic stem cells along the endothelial lineage

ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST.

Evidence for a role of the histone deacetylase SIRT6 in DNA damage response of multiple myeloma cells

Functional and Transcriptomic Characterization of Peritoneal Immune-Modulation by Addition of Alanyl-Glutamine to Dialysis Fluid.

GPCRpred: an SVM-based method for prediction of families and subfamilies of G-protein coupled receptors.

GPCRsclass: a web tool for the classification of amine type of G-protein-coupled receptors

Gene expression analysis of embryonic stem cells expressing VE-cadherin (CD144) during endothelial differentiation

Gene expression profile of mouse prostate tumors reveals dysregulations in major biological processes and identifies potential murine targets for preclinical development of human prostate cancer therapy.

Genomic and clinical effects associated with a relaxation response mind-body intervention in patients with irritable bowel syndrome and inflammatory bowel disease

Genomic counter-stress changes induced by the relaxation response

HIV-1 infection impairs regulatory T-cell suppressive capacity on a per-cell basis.

High dose intermittent sorafenib shows improved efficacy over conventional continuous dose in renal cell carcinoma.

Identification of key regulators of pancreatic cancer progression through multidimensional systems-level analysis

Identification of the transcription factor single-minded homologue 2 as a potential biomarker and immunotherapy target in prostate cancer

Induced Human Decidual NK-Like Cells Improve Utero-Placental Perfusion in Mice

Inhibition of ALK1 signaling with dalantercept combined with VEGFR TKI leads to tumor stasis in renal cell carcinoma.

MHCBN 4.0: A database of MHC/TAP binding peptides and T-cell epitopes

MHCBN: a comprehensive database of MHC binding and non-binding peptides

MSC-regulated microRNAs converge on the transcription factor FOXP2 and promote breast cancer metastasis

Meta-analysis of transcriptome data identifies a novel 5-gene pancreatic adenocarcinoma classifier

Mitochondrial Dysfunction in Atrial Tissue of Patients Developing Postoperative Atrial Fibrillation

Multicenter Analysis of Immune Biomarkers and Heart Transplant Outcomes: Results of the Clinical Trials in Organ Transplantation-05 Study

Multicenter evaluation of a standardized protocol for noninvasive gene expression profiling

Novel non-invasive biomarkers that distinguish between benign prostate hyperplasia and prostate cancer.

Optimizing a proteomics platform for urine biomarker discovery

Overcoming Memory T-Cell Responses for Induction of Delayed Tolerance in Nonhuman Primates ⬇️

PGC-1α promotes recovery after acute kidney injury during systemic inflammation in mice

PGC1α drives NAD biosynthesis linking oxidative metabolism to renal protection.

PSLpred: prediction of subcellular localization of bacterial proteins

Pentraxin-3 is a PI3K signaling target that promotes stem cell-like traits in basal-like breast cancers.

Prediction of promiscuous and high-affinity mutated MHC binders.

Preliminary biomarkers for identification of human ascending thoracic aortic aneurysm.

Prevention of nonimmunologic loss of transplanted islets in monkeys.

Quantitative proteomic analysis in HCV-induced HCC reveals sets of proteins with potential significance for racial disparity.

Recognition and classification of histones using support vector machine

Reduced PDEF expression increases invasion and expression of mesenchymal genes in prostate cancer cells.

Relaxation response induces temporal transcriptome changes in energy metabolism, insulin secretion and inflammatory pathways

Requirement of the epithelium-specific Ets transcription factor Spdef for mucous gland cell function in the gastric antrum.

RhoJ is an endothelial cell-restricted Rho GTPase that mediates vascular morphogenesis and is regulated by the transcription factor ERG.

SB225002 Induces Cell Death and Cell Cycle Arrest in Acute Lymphoblastic Leukemia Cells through the Activation of GLIPR1

SVM based method for predicting HLA-DRB1*0401 binding peptides in an antigen sequence.

Searching and mapping of T-cell epitopes, MHC binders, and TAP binders

Significant lethality following liver resection in A20 heterozygous knockout mice uncovers a key role for A20 in liver regeneration

Single cell analysis reveals an antiviral network that controls Zika virus infection in human dendritic cells

Specific Transcriptome Changes Associated with Blood Pressure Reduction in Hypertensive Patients After Relaxation Response Training

Support vector machine-based method for subcellular localization of human proteins using amino acid compositions, their order, and similarity search

TAPPred prediction of TAP-binding peptides in antigens.

Temporal network based analysis of cell specific vein graft transcriptome defines key pathways and hub genes in implantation injury

Temporal retinal transcriptome and systems biology analysis identifies key pathways and hub genes in Staphylococcus aureus endophthalmitis

The KDM3A-KLF2-IRF4 axis maintains myeloma cell survival

The effects of transfection reagent polyethyleneimine (PEI) and non-targeting control siRNAs on global gene expression in human aortic smooth muscle cells

The receptor tyrosine kinase Axl is an essential regulator of prostate cancer proliferation and tumor growth and represents a new therapeutic target.

The role of TNF-α in mice with type 1- and 2- diabetes

Transcriptional patterns in peritoneal tissue of encapsulating peritoneal sclerosis, a complication of chronic peritoneal dialysis

Transcriptomic and proteomic analysis of global ischemia and cardioprotection in the rabbit heart.

Upregulation of inflammatory gene transcripts in periosteum of chronic migraineurs: Implications for extracranial origin of headache.

Vemurafenib-resistance via de novo RBM genes mutations and chromosome 5 aberrations is overcome by combined therapy with palbociclib in thyroid carcinoma with BRAFV600E.

p16Ink4a or p19Arf loss contributes to Tal1-induced leukemogenesis in mice