List of works - Sayan Mukherjee

A Cheeger-type inequality on simplicial complexes

scholarly article by John Steenbergen et al published May 2014 in Advances in Applied Mathematics

A comparative study of covariance selection models for the inference of gene regulatory networks.

scientific article published on 20 July 2013

A digital network approach to infer sex behavior in emerging HIV epidemics

scientific article

A predictive framework for integrating disparate genomic data types using sample-specific gene set enrichment analysis and multi-task learning

scientific article

A topological data analytic approach for discovering biophysical signatures in protein dynamics

scientific article published on 02 May 2022

Age-specific differences in oncogenic pathway deregulation seen in human breast tumors

scientific article

An oncogenic KRAS2 expression signature identified by cross-species gene-expression analysis

scientific article

Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles

scientific article

Androgen-induced differentiation and tumorigenicity of human prostate epithelial cells

scientific article published on December 2004

Assessing the radiation response of lung cancer with different gene mutations using genetically engineered mice.

scientific article published on 2 April 2013

Bayesian Approximate Kernel Regression With Variable Selection

scientific article published on 19 June 2018

Choosing Multiple Parameters for Support Vector Machines

Comparative study of gene set enrichment methods.

scientific article

Core and region-enriched networks of behaviorally regulated genes and the singing genome

scientific article

Cross species genomic analysis identifies a mouse model as undifferentiated pleomorphic sarcoma/malignant fibrous histiocytoma

scientific article

Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network

scientific article published on 2 February 2012

DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types

scientific article published on 8 May 2013

Decision Fusion of Circulating Markers for Breast Cancer Detection in Premenopausal Women

Detecting Epistasis with the Marginal Epistasis Test in Genetic Mapping Studies of Quantitative Traits

Discovering genetic variants in Crohn's disease by exploring genomic regions enriched of weak association signals

scientific article published on 15 March 2011

Dissecting High-Dimensional Phenotypes with Bayesian Sparse Factor Analysis of Genetic Covariance Matrices ⬇️

scientific article published on May 1, 2013

Distinct and overlapping sarcoma subtypes initiated from muscle stem and progenitor cells.

scientific article published on 14 November 2013

Do serum biomarkers really measure breast cancer?

scientific article

Dynamic linear models guide design and analysis of microbiota studies within artificial human guts

Estimating dataset size requirements for classifying DNA microarray data

scientific article

Estimating variable structure and dependence in multitask learning via gradients

article

Evidence of influence of genomic DNA sequence on human X chromosome inactivation

scientific article published on 17 July 2006

Evidence-ranked motif identification

scientific article published on 15 February 2010

Evolution of DNA methylation inPapiobaboons

Fréchet Means for Distributions of Persistence Diagrams

Gene expression changes and molecular pathways mediating activity-dependent plasticity in visual cortex

scientific article published on 23 April 2006

Gene expression programs of human smooth muscle cells: tissue-specific differentiation and prognostic significance in breast cancers

scientific article

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

scientific article

General conditions for predictivity in learning theory

scientific article published in March 2004

Genetic effects on mating success and partner choice in a social mammal

scientific article

Genetics of gene expression responses to temperature stress in a sea urchin gene network

scientific article

Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation

scientific article

Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation

scientific article published on 08 June 2009

Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets

scientific article published on 22 September 2011

Kernel Sliced Inverse Regression: Regularization and Consistency

Learning Subspaces of Different Dimensions

scientific article published on 8 December 2021

Learning gradients on manifolds

Learning theory: stability is sufficient for generalization and necessary and sufficient for consistency of empirical risk minimization

Localized Sliced Inverse Regression

Making Mountains out of Molehills: Moving from Single Gene to Pathway Based Models of Colon Cancer Progression

article

Modeling cancer progression via pathway dependencies

scientific article

Multiclass cancer diagnosis using tumor gene expression signatures ⬇️

scientific article (publication date: 18 December 2001)

Novel distal eQTL analysis demonstrates effect of population genetic architecture on detecting and interpreting associations

scientific article

On the reproducibility of results of pathway analysis in genome-wide expression studies of colorectal cancers

scientific article published on 29 September 2009

Optimal gene expression analysis by microarrays

scientific article

Partial Factor Modeling: Predictor-Dependent Shrinkage for Linear Regression

scholarly article by P. Richard Hahn et al published September 2013 in Journal of the American Statistical Association

Probability measures on the space of persistence diagrams

article

RS-SNP: a random-set method for genome-wide association studies

scientific article

Retracted: An Integrated Approach to the Prediction of Chemotherapeutic Response in Patients with Breast Cancer

retracted article

Risk bounds for mixture density estimation

Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanisms

scientific article (publication date: 2014)

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits

scientific article

The Use of Unlabeled Data in Predictive Modeling

article published in 2007

The accuracy of absolute differential abundance analysis from relative count data

scientific article published on 11 July 2022

List of works by Sayan Mukherjee

A Cheeger-type inequality on simplicial complexes

A comparative study of covariance selection models for the inference of gene regulatory networks.

A digital network approach to infer sex behavior in emerging HIV epidemics

A predictive framework for integrating disparate genomic data types using sample-specific gene set enrichment analysis and multi-task learning

A topological data analytic approach for discovering biophysical signatures in protein dynamics

Age-specific differences in oncogenic pathway deregulation seen in human breast tumors

An oncogenic KRAS2 expression signature identified by cross-species gene-expression analysis

Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles

Androgen-induced differentiation and tumorigenicity of human prostate epithelial cells

Assessing the radiation response of lung cancer with different gene mutations using genetically engineered mice.

Bayesian Approximate Kernel Regression With Variable Selection

Choosing Multiple Parameters for Support Vector Machines

Comparative study of gene set enrichment methods.

Core and region-enriched networks of behaviorally regulated genes and the singing genome

Cross species genomic analysis identifies a mouse model as undifferentiated pleomorphic sarcoma/malignant fibrous histiocytoma

Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network

DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types

Decision Fusion of Circulating Markers for Breast Cancer Detection in Premenopausal Women

Detecting Epistasis with the Marginal Epistasis Test in Genetic Mapping Studies of Quantitative Traits

Discovering genetic variants in Crohn's disease by exploring genomic regions enriched of weak association signals

Dissecting High-Dimensional Phenotypes with Bayesian Sparse Factor Analysis of Genetic Covariance Matrices ⬇️

Distinct and overlapping sarcoma subtypes initiated from muscle stem and progenitor cells.

Do serum biomarkers really measure breast cancer?

Dynamic linear models guide design and analysis of microbiota studies within artificial human guts

Estimating dataset size requirements for classifying DNA microarray data

Estimating variable structure and dependence in multitask learning via gradients

Evidence of influence of genomic DNA sequence on human X chromosome inactivation

Evidence-ranked motif identification

Evolution of DNA methylation inPapiobaboons

Fréchet Means for Distributions of Persistence Diagrams

Gene expression changes and molecular pathways mediating activity-dependent plasticity in visual cortex

Gene expression programs of human smooth muscle cells: tissue-specific differentiation and prognostic significance in breast cancers

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

General conditions for predictivity in learning theory

Genetic effects on mating success and partner choice in a social mammal

Genetics of gene expression responses to temperature stress in a sea urchin gene network

Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation

Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation

Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets

Kernel Sliced Inverse Regression: Regularization and Consistency

Learning Subspaces of Different Dimensions

Learning gradients on manifolds

Learning theory: stability is sufficient for generalization and necessary and sufficient for consistency of empirical risk minimization

Localized Sliced Inverse Regression

Making Mountains out of Molehills: Moving from Single Gene to Pathway Based Models of Colon Cancer Progression

Modeling cancer progression via pathway dependencies

Multiclass cancer diagnosis using tumor gene expression signatures ⬇️

Novel distal eQTL analysis demonstrates effect of population genetic architecture on detecting and interpreting associations

On the reproducibility of results of pathway analysis in genome-wide expression studies of colorectal cancers

Optimal gene expression analysis by microarrays

Partial Factor Modeling: Predictor-Dependent Shrinkage for Linear Regression

Probability measures on the space of persistence diagrams

RS-SNP: a random-set method for genome-wide association studies

Retracted: An Integrated Approach to the Prediction of Chemotherapeutic Response in Patients with Breast Cancer

Risk bounds for mixture density estimation

Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanisms

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits

The Use of Unlabeled Data in Predictive Modeling

The accuracy of absolute differential abundance analysis from relative count data

The topology of probability distributions on manifolds