Learning and Inference

Head:
Sayan Mukherjee

Phone:
+49 (0) 341 - 9959 - 50

Fax:
+49 (0) 341 - 9959 - 658

Address:
Inselstr. 22
04103 Leipzig

Publications Sayan Mukherjee

Journal Articles To top of page

Michele Caprio and Sayan Mukherjee: Ergodic theorems in dynamic imprecise probability kinematics
In: International journal of approximate reasoning, 152 (2023), p. 325-343
Bibtex DOI: 10.1016/j.ijar.2022.10.016 ARXIV: https://arxiv.org/abs/2003.06502
Repository Open Access

Samuel I. Berchuck ; Mark Janko ; Felipe A. Medeiros ; William Pan and Sayan Mukherjee: Bayesian non-parametric factor analysis for longitudinal spatial surfaces
In: Bayesian analysis, 17 (2022) 2, p. 435-464
Bibtex DOI: 10.1214/20-BA1253 ARXIV: https://arxiv.org/abs/1911.04337
Journal Open Access

Johannes R. Björk ; Mauna R. Dasari ; Kim Roche ; Laura Grieneisen ; Trevor J. Gould ; Jean-Christophe Grenier ; Vania Yotova ; Neil Gottel ; David Jansen ; Laurence R. Gesquiere ; Jacob B. Gordon ; Niki H. Learn ; Tim L. Wango ; Raphael S. Mututua ; J. Kinyua Warutere ; Lon'ida Siodi ; Sayan Mukherjee ; Luis B. Barreiro ; Susan C. Alberts ; Jack A. Gilbert ; Jenny Tung ; Ran Blekhman and Elizabeth A. Archie: Synchrony and idiosyncrasy in the gut microbiome of wild baboons
In: Nature ecology and evolution, 6 (2022) 7, p. 955-964
Bibtex DOI: 10.1038/s41559-022-01773-4 ARXIV: https://www.biorxiv.org/content/10.1101/2021.11.24.469913v2
Repository Open Access

Justin Curry ; Sayan Mukherjee and Katharine Turner: How many directions determine a shape and other sufficiency results for two topological transforms
In: Transactions of the American Mathematical Society / B, 9 (2022), p. 1006-1043
Bibtex DOI: 10.1090/btran/122 ARXIV: https://arxiv.org/abs/1805.09782
Journal Open Access

Kevin McGoff ; Sayan Mukherjee and Andrew Nobel: Gibbs posterior convergence and the thermodynamic formalism
In: The annals of applied probability, 32 (2022) 1, p. 461-496
Bibtex DOI: 10.1214/21-AAP1685 ARXIV: https://arxiv.org/abs/1901.08641
Repository Open Access

Kimberly E. Roche and Sayan Mukherjee: The accuracy of absolute differential abundance analysis from relative count data
In: PLoS computational biology, 18 (2022) 7, e1010284
Bibtex DOI: 10.1371/journal.pcbi.1010284 ARXIV: https://www.biorxiv.org/content/10.1101/2021.12.06.471397v2
Journal Open Access

Justin D. Silverman ; Kimberly Roche ; Zachary C. Holmes ; Lawrence A. David and Sayan Mukherjee: Bayesian multinomial logistic normal models through Marginally Latent Matrix-T processes
In: Journal of machine learning research, 23 (2022) 7, p. 1-42
Bibtex ARXIV: https://arxiv.org/abs/1903.11695 LINK: https://jmlr.org/papers/v23/19-882.html CODE: https://github.com/jsilve24/fido_paper_code
Journal Open Access

Brian St. Thomas ; Lizhen Lin ; Lek-Heng Lim and Sayan Mukherjee: Learning subspaces of different dimensions
In: Journal of computational and graphical statistics, 31 (2022) 2, p. 337-350
Bibtex DOI: 10.1080/10618600.2021.2000420 ARXIV: https://arxiv.org/abs/1404.6841 CODE: https://github.com/sayanmuk/Mixture-of-Subspaces
Repository Open Access

Wai Shing Tang ; Gabriel Monteiro da Silva ; Henry Kirveslahti ; Erin Skeens ; Bibo Feng ; Timothy Sudijono ; Kevin K. Yang ; Sayan Mukherjee ; Brenda Rubenstein and Lorin Crawford: A topological data analytic approach for discovering biophysical signatures in protein dynamics
In: PLoS computational biology, 18 (2022) 5, e1010045
Bibtex DOI: 10.1371/journal.pcbi.1010045 ARXIV: https://www.biorxiv.org/content/10.1101/2021.07.28.454240v2
Journal Open Access

Mikael Vejdemo-Johansson and Sayan Mukherjee: Multiple hypothesis testing with persistent homology
In: Foundations of data science, 4 (2022) 4, p. 667-705
Bibtex DOI: 10.3934/fods.2022018 ARXIV: https://arxiv.org/abs/1812.06491
Journal Open Access

Jordan Bryan ; Arpita Mandan ; Gauri Kamat ; W. Kirby Gottschalk ; Alexandra Badea ; Kendra J. Adams ; J. Will Thompson ; Carol A. Colton ; Sayan Mukherjee and Michael W. Lutz: Likelihood ratio statistics for gene set enrichment in Alzheimer's disease pathways
In: Alzheimer's and dementia, 17 (2021) 4, p. 561-573
Bibtex DOI: 10.1002/alz.12223 CODE: https://github.com/j-g-b

Tingran Gao ; Jacek Brodzki and Sayan Mukherjee: The geometry of synchronization problems and learning group actions
In: Discrete and computational geometry, 65 (2021) 1, p. 150-211
Bibtex DOI: 10.1007/s00454-019-00100-2 ARXIV: https://arxiv.org/abs/1610.09051 CODE: https://github.com/trgao10/GOS-SynCut
Repository Open Access

Rachel A. Johnston ; Philippe Vullioud ; Jack Thorley ; Henry Kirveslahti ; Leyao Shen ; Sayan Mukherjee ; Courtney M. Karner ; Tim Clutton-Brock and Jenny Tung: Morphological and genomic shifts in mole-rat 'queens' increase fecundity but reduce skeletal integrity
Journal Open Access

Weiwei Li ; Jan Hannig and Sayan Mukherjee: Subspace clustering through sub-clusters
In: Journal of machine learning research, 22 (2021), 53
Bibtex ARXIV: https://arxiv.org/abs/1811.06580 LINK: https://www.jmlr.org/papers/v22/18-780.html
Journal Open Access

Bruce Wang ; Timothy Sudijono ; Henry Kirveslahti ; Tingran Gao ; Doug M. Boyer ; Sayan Mukherjee and Lorin Crawford: A statistical pipeline for identifying physical features that differentiate classes of 3D shapes
In: The annals of applied statistics :, 15 (2021) 2, p. 638-661
Bibtex DOI: 10.1214/20-AOAS1430 ARXIV: https://www.biorxiv.org/content/10.1101/701391v3
Journal Open Access

Lorin Crawford ; Anthea Monod ; Andrew X. Chen ; Sayan Mukherjee and Raúl Rabadán: Predicting clinical outcomes in glioblastoma : an application of topological and functional data analysis
In: Journal of the American Statistical Association, 115 (2020) 531, p. 1139-1150
Bibtex DOI: 10.1080/01621459.2019.1671198 ARXIV: https://arxiv.org/abs/1611.06818 CODE: https://github.com/lorinanthony/SECT
Repository Open Access

Justin D. Silverman ; Kimberly Roche ; Sayan Mukherjee and Lawrence A. David: Naught all zeros in sequence count data are the same
In: Computational and structural biotechnology journal, 18 (2020), p. 2789-2798
Bibtex DOI: 10.1016/j.csbj.2020.09.014 ARXIV: https://www.biorxiv.org/content/10.1101/477794v1
Journal Open Access

Samuel I. Berchuck ; Sayan Mukherjee and Felipe A. Medeiros: Estimating rates of progression and predicting future visual fields in glaucoma using a deep variational autoencoder
Journal Open Access

Merve Cakir ; Sayan Mukherjee and Kris C. Wood: Label propagation defines signaling networks associated with recurrently mutated cancer genes
Journal Open Access

Tauras Vilgalys ; Jeffrey Rogers ; Clifford J. Jolly ; Sayan Mukherjee and Jenny Tung: Evolution of DNA methylation in Papio baboons
In: Molecular biology and evolution, 36 (2019) 3, p. 527-540
Bibtex DOI: 10.1093/molbev/msy227 ARXIV: https://www.biorxiv.org/content/10.1101/400093v1
Journal Open Access

Alex D. Washburne ; Justin D. Silverman ; James T. Morton ; Daniel Becker ; Daniel Crowley ; Sayan Mukherjee ; Lawrence A. David and Raina K. Plowright: Phylofactorization : a graph partitioning algorithm to identify phylogenetic scales of ecological data
Repository Open Access

Feilun Wu ; Allison J. Lopatkin ; Daniel A. Needs ; Charlotte T. Lee ; Sayan Mukherjee and Lingchong You: A unifying framework for interpreting and predicting mutualistic systems
In: Nature communications, 10 (2019), 242
Bibtex DOI: 10.1038/s41467-018-08188-5
Journal Open Access

Scott Barish ; Sarah Nuss ; Ilya Strunilin ; Suyang Bao ; Sayan Mukherjee ; Corbin D. Jones and Pelin C. Volkan: Combinations of DIPs and Dprs control organization of olfactory receptor neuron terminals in Drosophila
Journal Open Access

Lorin Crawford ; Kris C. Wood ; Xiang Zhou and Sayan Mukherjee: Bayesian approximate kernel regression with variable selection
In: Journal of the American Statistical Association, 113 (2018) 524, p. 1710-1721
Bibtex DOI: 10.1080/01621459.2017.1361830 ARXIV: https://arxiv.org/abs/1508.01217 CODE: https://github.com/lorinanthony/BAKR
Repository Open Access

Tingran Gao ; Gabriel S. Yapuncich ; Ingrid Daubechies ; Sayan Mukherjee and Doug M. Boyer: Development and assessment of fully automated and globally transitive geometric morphometric methods, with application to a biological comparative dataset with high interspecific variation
In: The anatomical record : advances in integrative anatomy and evolutionary biology, 301 (2018) 4, p. 636-658
Bibtex DOI: 10.1002/ar.23700 ARXIV: https://www.biorxiv.org/content/10.1101/086280v1
Repository Open Access

Justin D. Silverman ; Heather K. Durand ; Rachael J. Bloom ; Sayan Mukherjee and Lawrence A. David: Dynamic linear models guide design and analysis of microbiota studies within artificial human guts
Journal Open Access

Shiwen Zhao ; Barbara E. Engelhardt ; Sayan Mukherjee and David B. Dunson: Fast moment estimation for generalized latent Dirichlet models
In: Journal of the American Statistical Association, 113 (2018) 524, p. 1528-1540
Bibtex DOI: 10.1080/01621459.2017.1341839 ARXIV: https://arxiv.org/abs/1603.05324 CODE: https://github.com/judyboon/MELD
Repository Open Access

Omer Bobrowski ; Sayan Mukherjee and Jonathan E. Taylor: Topological consistency via kernel estimation
In: Bernoulli, 23 (2017) 1, p. 288-328
Bibtex DOI: 10.3150/15-BEJ744 ARXIV: https://arxiv.org/abs/1407.5272
Repository Open Access

Lorin Crawford ; Sayan Mukherjee ; Sayan Mukherjee and Xiang Zhou: Detecting epistasis with the marginal epistasis test in genetic mapping studies of quantitative traits
Journal Open Access

Gregory Darnell ; Stoyan Georgiew ; Sayan Mukherjee and Barbara E. Engelhardt: Adaptive randomized dimension reduction on massive data
In: Journal of machine learning research, 18 (2017), 140
Bibtex ARXIV: https://arxiv.org/abs/1504.03183 LINK: https://jmlr.org/papers/v18/15-143.html CODE: https://github.com/gdarnell/arsvd
Journal Open Access

Simón Lunagómez ; Sayan Mukherjee ; Robert L. Wolpert and Edoardo M. Airoldi: Geometric representations of random hypergraphs
In: Journal of the American Statistical Association, 112 (2017) 517, p. 363-383
Bibtex DOI: 10.1080/01621459.2016.1141686 ARXIV: https://arxiv.org/abs/0912.3648
Repository Open Access

Joshua Lynch ; Karen Tang ; Sambhawa Priya ; Joanna Sands ; Margaret Sands ; Evan Tang ; Sayan Mukherjee ; Dan Knights and Ran Blekhaman: HOMINID : a framework for identifying associations between host genetic variation and microbiome composition
Journal Open Access

Justin D. Silverman ; Alex D. Washburne ; Sayan Mukherjee and Lawrence A. David: A phylogenetic transform enhances analysis of compositional microbiota data
Journal Open Access

Katherine R. Singleton ; Lorin Crawford ; Elisabeth Tsui ; Haley E. Manchester ; Ophelia Maertens ; Xiaojing Liu ; Maria Liberti ; Anniefer N. Magpusao ; Drew J. Adams ; Jason W. Locasale ; Karen Cichowski ; Sayan Mukherjee and Kris C. Wood: Melanoma therapeutic strategies that select against resistance by exploiting MYC-driven evolutionary convergence
In: Cell reports, 21 (2017) 10, p. 2796-2812
Bibtex DOI: 10.1016/j.celrep.2017.11.022
Journal Open Access

Shiquan Sun ; Michelle Hood ; Laura Scott ; Qinke Peng ; Sayan Mukherjee ; Jenny Tung and Xiang Zhou: Differential expression analysis for RNAseq using Poisson mixed models
In: Nucleic acids research, 45 (2017) 11, e106
Bibtex DOI: 10.1093/nar/gkx204 ARXIV: https://www.biorxiv.org/content/10.1101/073403v2
Journal Open Access

Alex D. Washburne ; Justin D. Silverman ; Jonathan W. Leff ; Doninic J. Bennett ; John L. Darcy ; Sayan Mukherjee ; Noah Fierer and Lawrence A. David: Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets
Journal Open Access

Kevin J. Galinsky ; Gaurav Bhatia ; Po-Ru Loh ; Stoyan Georgiew ; Sayan Mukherjee ; Nick J. Patterson and Alkes L. Price: Fast principal-component analysis reveals convergent evolution of ADH1B in Europe and East Asia
In: American journal of human genetics : AJHG, 93 (2016) 3, p. 456-472
Bibtex DOI: 10.1016/j.ajhg.2015.12.022 ARXIV: https://www.biorxiv.org/content/10.1101/018143v4 CODE: https://github.com/DReichLab/EIG
Repository Open Access

Sayan Mukherjee and John Steenbergen: Random walks on simplicial complexes and harmonics
In: Random structures and algorithms, 49 (2016) 2, p. 379-405
Bibtex DOI: 10.1002/rsa.20645 ARXIV: https://arxiv.org/abs/1310.5099
Journal Open Access

Noah Snyder-Mackler ; William H. Majoros ; Michael L. Yuan ; Amanda O. Shaver ; Jacob B. Gordon ; Gisela H. Kopp ; Stephen A. Schlebusch ; Jeffrey D. Wall ; Susan C. Alberts ; Sayan Mukherjee ; Xiang Zhou and Jenny Tung: Efficient genome-wide sequencing and low-coverage pedigree analysis from noninvasively collected samples
Repository Open Access

Shiwen Zhao ; Chuan Gao ; Sayan Mukherjee and Barbara E. Engelhardt: Bayesian group factor analysis with structured sparsity
In: Journal of machine learning research, 17 (2016), 196
Bibtex ARXIV: https://arxiv.org/abs/1411.2698 LINK: https://jmlr.org/papers/v17/14-472.html CODE: https://github.com/judyboon/BASS
Journal Open Access

Omer Bobrowski and Sayan Mukherjee: The topology of probability distributions on manifolds
In: Probability theory and related fields, 161 (2015) 3/4, p. 651-686
Bibtex DOI: 10.1007/s00440-014-0556-x ARXIV: https://arxiv.org/abs/1307.1123
Repository Open Access

Doug M. Boyer ; Jesus Puente ; Justin T. Gladman ; Chris Glynn ; Sayan Mukherjee ; Gabriel S. Yapuncich and Ingrid Daubechies: A new fully automated approach for aligning and comparing shapes
In: The anatomical record : advances in integrative anatomy and evolutionary biology, 298 (2015) 1, p. 249-276
Bibtex DOI: 10.1002/ar.23084 LINK: https://sayanmuk.github.io/Auto3DGM/ CODE: https://github.com/sayanmuk/Auto3DGM
Repository Open Access

Kevin McGoff ; Sayan Mukherjee ; Andrew Nobel and Natesh Pillai: Consistency of maximum likelihood estimation for some dynamical systems
In: The annals of statistics, 43 (2015) 1, p. 1-29
Bibtex DOI: 10.1214/14-AOS1259 ARXIV: https://arxiv.org/abs/1306.5603
Repository Open Access

Kevin McGoff ; Sayan Mukherjee and Natesh Pillai: Statistical inference for dynamical systems : a review
In: Statistics surveys, 9 (2015), p. 209-252
Bibtex DOI: 10.1214/15-SS111 ARXIV: https://arxiv.org/abs/1204.6265
Journal Open Access

Elizabeth Munch ; Katharine Turner ; Paul Bendich ; Sayan Mukherjee ; Jonathan C. Mattingly and John Harer: Probabilistic Fréchet means for time varying persistence diagrams
In: Electronic journal of statistics, 9 (2015) 1, p. 1173-1204
Bibtex DOI: 10.1214/15-EJS1030 ARXIV: https://arxiv.org/abs/1307.6530
Journal Open Access

Garvesh Raskutti and Sayan Mukherjee: The information geometry of mirror descent
In: IEEE transactions on information theory, 61 (2015) 3, p. 1451-1457
Bibtex DOI: 10.1109/TIT.2015.2388583 ARXIV: https://arxiv.org/abs/1310.7780
Repository Open Access

Laughlin Stewart ; Evan L. MacLean ; David Ivy ; Vanessa Woods ; Eliot Cohen ; Kerri Rodriguez ; Matthew McIntyre ; Sayan Mukherjee ; Josep Call ; Juliane Kaminski ; Miklósi Adáms ; Richard W. Wrangham and Brian Hare: Citizen science as a new tool in dog cognition research
In: PLOS ONE, 10 (2015) 9, e0135176
Bibtex DOI: 10.1371/journal.pone.0135176
Journal Open Access

Diana Fusco ; Timothy J. Barnum ; Andrew E. Bruno ; Joseph R. Luft ; Edward H. Snell ; Sayan Mukherjee and Patrick Charbonneau: Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanism
In: PLOS ONE, 9 (2014) 7, e101123
Bibtex DOI: 10.1371/journal.pone.0101123
Journal Open Access

Botong Huang ; Nicholas W. D. Jarrett ; Shivnath Babu ; Sayan Mukherjee and Jun Yang: Cumulon : cloud-based statistical analysis from users perspective
In: Bulletin of the Technical Committee on Data Engineering, 37 (2014) 3, p. 77-89
Bibtex LINK: http://sites.computer.org/debull/A14sept/p77.pdf
Journal Open Access

Abhinav Kapur ; John A. Schneider ; Daniel Heard ; Sayan Mukherjee ; Phil Schumm ; Ganesh Oruganti and Edward O. Laumann: A digital network approach to infer sex behavior in emerging HIV epidemics
In: PLOS ONE, 9 (2014) 7, e101416
Bibtex DOI: 10.1371/journal.pone.0101416
Journal Open Access

John Steenbergen ; Caroline Klivans and Sayan Mukherjee: A Cheeger-type inequality on simplicial complexes
In: Advances in applied mathematics, 56 (2014), p. 56-77
Bibtex DOI: 10.1016/j.aam.2014.01.002 ARXIV: https://arxiv.org/abs/1209.5091
Repository Open Access

Katharine Turner ; Yuriy Mileyko ; Sayan Mukherjee and John Harer: Fréchet means for distributions of persistence diagrams
In: Discrete and computational geometry, 52 (2014) 1, p. 44-70
Bibtex DOI: 10.1007/s00454-014-9604-7 ARXIV: https://arxiv.org/abs/1206.2790
Repository Open Access

Katharine Turner ; Sayan Mukherjee and Doug M. Boyer: Persistent homology transform for modeling shapes and surfaces
In: Information and inference, 3 (2014) 4, p. 310-344
Bibtex DOI: 10.1093/imaiai/iau011 ARXIV: https://arxiv.org/abs/1310.1030
Repository Open Access

Matthew Weiser ; Sayan Mukherjee and Terrence S. Furey: Novel distal eQTL analysis demonstrates effect of population genetic architecture on detecting and interpreting associations
Repository Open Access

Osceola Whitney ; Andreas R. Pfenning ; Jason T. Howard ; Charles A. Blatti ; Fang Liu ; James M. Ward ; Rui Wang ; Jean-Nicolas Audet ; Manolis Kellis ; Sayan Mukherjee ; Saurabh Sinha ; Alexander J. Hartemink ; Anne E. West and Erich D. Jarvis: Core and region-enriched networks of behaviorally regulated genes and the singing genome
In: Science, 346 (2014) 6215, 1256780
Bibtex DOI: 10.1126/science.1256780

Qing Xiong ; Sayan Mukherjee and Terrence S. Furey: GSAASeqSP : a toolset for gene set association analysis of RNA-seq data
In: Scientific reports, 4 (2014), 6347
Bibtex DOI: 10.1038/srep06347
Journal Open Access

Brian D. Bennett ; Qing Xiong ; Sayan Mukherjee and Terrence S. Furey: Correction [update acknowledgement]: 'A predictive framework for integrating disparate genomic data types using sample-specific gene set enrichment analysis and multi-task learning' [In: PLOS ONE, 7 (2012) 9 , e44635]
Journal Open Access

Jordan M. Blum ; Leonor Ano ; Zhizhong Li ; David Van Mater ; Brian D. Bennett ; Mohit Sachdeva ; Irina Lagutina ; Minsi Zhang ; Jeffrey K. Mito ; Christoph Lepper ; Corinne M. Linardic ; Sayan Mukherjee ; Gerad C. Grosveld ; Chen-Ming Fan and David G. Kirsch: Distinct and overlapping sarcoma subtypes initiated from muscle stem and progenitor cells
In: Cell reports, 5 (2013) 4, p. 933-940
Bibtex DOI: 10.1016/j.celrep.2013.10.020
Journal Open Access

Dina Hafez ; Ting Ni ; Sayan Mukherjee ; Jun Zhu and Uwe Ohler: Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation
In: Bioinformatics, 29 (2013) 13, p. i108-i116
Bibtex DOI: 10.1093/bioinformatics/btt233
Journal Open Access

P. Richard Hahn ; Carlos M. Carvalho and Sayan Mukherjee: Partial factor modeling : predictor-dependent shrinkage for linear regression
In: Journal of the American Statistical Association, 108 (2013) 503, p. 999-1008
Bibtex DOI: 10.1080/01621459.2013.779843 ARXIV: https://arxiv.org/abs/1011.3725 CODE: https://github.com/sayanmuk/Partial-factor
Repository Open Access

Molly Megraw ; Sayan Mukherjee and Uwe Ohler: Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits
In: Genome biology, 14 (2013), R85
Bibtex DOI: 10.1186/gb-2013-14-8-r85
Journal Open Access

Bradford A. Perez ; A. Paiman Ghafoori ; Chang-Lung Lee ; Samuel M. Johnston ; Yifan Li ; Jacob G. Moroshek ; Yan Ma ; Sayan Mukherjee ; Yongbaek Kim ; Christian T. Badea and David G. Kirsch: Assessing the radiation response of lung cancer with different gene mutations using genetically engineered mice
In: Frontiers in oncology, 3 (2013), 72
Bibtex DOI: 10.3389/fonc.2013.00072
Journal Open Access

Daniel E. Runcie and Sayan Mukherjee: Dissecting high-dimensional phenotypes with Bayesian sparse factor analysis of genetic covariance matrices
Repository Open Access

Laura A. Simmons Kovacs ; Michael B. Mayhew ; David A. Orlando ; Yuanjie Jin ; Qingyun Li ; Chenchen Huang ; Steven I. Reed ; Sayan Mukherjee and Steven B. Haase: Erratum: 'Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network' [In: Molecular cell, 45 (2012) 5, p. 669-679]
In: Molecular cell, 49 (2013) 6, p. 1177-1179
Bibtex DOI: 10.1016/j.molcel.2013.03.007

Patrizia Stifanelli ; Teresa M. Creanza ; Roberto Anglani ; Vania C. Liuzzi ; Sayan Mukherjee ; Francesco P. Schena and Nicola Ancona: A comparative study of covariance selection models for the inference of gene regulatory networks
In: Journal of biomedical informatics, 46 (2013) 5, p. 894-904
Bibtex DOI: 10.1016/j.jbi.2013.07.002
Journal Open Access

Deborah R. Winter ; Lingyun Song ; Sayan Mukherjee ; Terrence S. Furey and Gregory E. Crawford: DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types
In: Genome research, 23 (2013) 7, p. 1118-1129
Bibtex DOI: 10.1101/gr.150482.112 LINK: https://www.researchgate.net/publication/236665983
Repository Open Access

Qiang Wu ; Feng Liang and Sayan Mukherjee: Kernel sliced inverse regression : regularization and consistency
In: Abstract and applied analysis, 2013 (2013), 540725
Bibtex DOI: 10.1155/2013/540725 CODE: https://github.com/sayanmuk/Kernel-Sliced-Inverse-Regression
Journal Open Access

Brian D. Bennett ; Qing Xiong ; Sayan Mukherjee and Terrence S. Furey: A predictive framework for integrating disparate genomic data types using sample-specific gene set enrichment analysis and multi-task learning
In: PLOS ONE, 7 (2012) 9, e44635
Bibtex DOI: 10.1371/journal.pone.0044635
Journal Open Access

Daniel E. Runcie ; David A. Garfield ; Courtney C. Babbitt ; Jennifer A. Wygoda ; Sayan Mukherjee and Gregory A. Wray: Genetics of gene expression responses to temperature stress in a sea urchin gene network
In: Molecular ecology, 21 (2012) 18, p. 4547-4562
Bibtex DOI: 10.1111/j.1365-294X.2012.05717.x

Laura A. Simmons Kovacs ; Michael B. Mayhew ; David A. Orlando ; Yuanjie Jin ; Qingyun Li ; Chenchen Huang ; Steven I. Reed ; Sayan Mukherjee and Steven B. Haase: Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network
In: Molecular cell, 45 (2012) 5, p. 669-679
Bibtex DOI: 10.1016/j.molcel.2011.12.033

Jenny Tung ; Marie J. E. Charpentier ; Sayan Mukherjee ; Jeanne Altmann and Susan C. Alberts: Genetic effects on mating success and partner choice in a social mammal
In: The American naturalist, 180 (2012) 1, p. 113-129
Bibtex DOI: 10.1086/665993 LINK: https://hal.inrae.fr/hal-02079632v1
Repository Open Access

Qing Xiong ; Nicola Ancona ; Elizabeth R. Hauser ; Sayan Mukherjee and Terrence S. Furey: Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets
In: Genome research, 22 (2012) 2, p. 386-397
Bibtex DOI: 10.1101/gr.124370.111 LINK: http://gsaa.unc.edu/
Journal Open Access

Annarita D'Addabbo ; Orazio Palmieri ; Anna Latiano ; Vito Annese ; Sayan Mukherjee and Nicola Ancona: RS-SNP : a random-set method for genome-wide association studies
In: BMC genomics, 12 (2011), 166
Bibtex DOI: 10.1186/1471-2164-12-166
Journal Open Access

Annarita D'Addabbo ; Orazio Palmieri ; Rosalia Maglietta ; Anna Latiano ; Sayan Mukherjee ; Vito Annese and Nicola Ancona: Discovering genetic variants in Crohn's disease by exploring genomic regions enriched of weak association signals
In: Digestive and liver disease, 43 (2011) 8, p. 623-631
Bibtex DOI: 10.1016/j.dld.2011.02.010

Justin Guinney ; Qiang Wu and Sayan Mukherjee: Estimating variable structure and dependence in multitask learning via gradients
In: Machine learning, 83 (2011) 3, p. 265-287
Bibtex DOI: 10.1007/s10994-010-5217-4
Journal Open Access

Yuriy Mileyko ; Sayan Mukherjee and John Harer: Probability measures on the space of persistence diagrams
Repository Open Access

Sayan Mukherjee: Book reviw: 'Inference and prediction in large dimensions' by Dennis Bosq and Delphine Blanke, Wiley, 2007
In: Journal of the American Statistical Association, 106 (2011) 496, p. 1642-1643
Bibtex DOI: 10.1198/jasa.2011.br1112

Stoyan Georgiew ; Alan P. Boyle ; Karthik Jayasurya ; Xuan Ding ; Sayan Mukherjee and Uwe Ohler: Evidence-ranked motif identification
Journal Open Access

Rosalia Maglietta ; Angela Distaso ; Ada Piepoli ; Orazio Palumbo ; Massimo Carella ; Annarita D'Addabbo ; Sayan Mukherjee and Nicola Ancona: On the reproducibility of results of pathway analysis in genome-wide expression studies of colorectal cancers
In: Journal of biomedical informatics, 43 (2010) 3, p. 397-406
Bibtex DOI: 10.1016/j.jbi.2009.09.005

Sayan Mukherjee: Book reviw: 'Computational intelligence and feature selection: rough and fuzzy approaches' by Richard Jensen and Qiang Shen, Wiley, 2008
In: Journal of the American Statistical Association, 105 (2010) 489, p. 438-438
Bibtex DOI: 10.1198/jasa.2010.br1003

Sayan Mukherjee ; Qiang Wu and Ding-Xuan Zhou: Learning gradients on manifolds
In: Bernoulli, 16 (2010) 1, p. 181-207
Bibtex DOI: 10.3150/09-BEJ206 ARXIV: https://arxiv.org/abs/1002.4283
Repository Open Access

Qiang Wu ; Justin Guinney ; Mauro Maggioni and Sayan Mukherjee: Learning gradients : predictive models that infer geometry and dependence
In: Journal of machine learning research, 11 (2010), p. 2175-2198
Bibtex LINK: https://jmlr.org/papers/v11/wu10a.html
Journal Open Access

Qiang Wu ; Feng Liang and Sayan Mukherjee: Localized sliced inverse regression
In: Journal of computational and graphical statistics, 19 (2010) 4, p. 843-860
Bibtex DOI: 10.1198/jcgs.2010.08080 LINK: https://www.researchgate.net/publication/221619562 CODE: https://github.com/sayanmuk/Local-Sliced-Inverse-Regression
Repository Open Access

Luca Abatangelo ; Rosalia Maglietta ; Angela Distaso ; Annarita D'Addabbo ; Teresa Maria Creanza ; Sayan Mukherjee and Nicola Ancona: Comparative study of gene set enrichment methods
In: BMC bioinformatics, 10 (2009), 275
Bibtex DOI: 10.1186/1471-2105-10-275
Journal Open Access

David S. Hsu ; Chaitanya R. Acharya ; Bala S. Balakumaran ; Richard F. Riedel ; Mickey K. Kim ; Marvaretta Stevenson ; Sascha Tuchman ; Sayan Mukherjee ; William Barry ; Holly K. Dressman ; Joseph R. Nevins ; Scott Powers ; David Mu and Anil Potti: Characterizing the developmental pathways TTF-1, NKX2-8, and PAX9 in lung cancer
In: Proceedings of the National Academy of Sciences of the United States of America, 106 (2009) 13, p. 5312-5317
Bibtex DOI: 10.1073/pnas.0900827106 LINK: https://www.researchgate.net/publication/24194234
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Jonathan Lesneck ; Sayan Mukherjee ; Zoya Yurkovetsky ; Merlise Clyde ; Jeffrey R. Marks ; Anna E. Lokshin and Joseph Y. Lo: Do serum biomarkers really measure breast cancer?
In: BMC cancer, 9 (2009), 164
Bibtex DOI: 10.1186/1471-2407-9-164
Journal Open Access

Jeffrey K. Mito ; Richard F. Riedel ; Leslie Dodd ; Guy Lahat ; Alexander J. Lazar ; Rebecca D. Dodd ; Lars Stangenberg ; William C. Eward ; Francis J. Hornicek ; Sam S. Yoon ; Brian E. Brigman ; Tyler Jacks ; Dina Lev ; Sayan Mukherjee and David G. Kirsch: Cross species genomic analysis identifies a mouse model as undifferentiated Pleomorphic Sarcoma/Malignant Fibrous Histiocytoma
In: PLOS ONE, 4 (2009) 11, e8075
Bibtex DOI: 10.1371/journal.pone.0008075
Journal Open Access

Sayan Mukherjee: Book reviw: 'The probabilistic method' by Noga Alon and Joel H. Spencer, Wiley, 3rd ed., 2008
In: Journal of the American Statistical Association, 104 (2009) 488, p. 1723-1723
Bibtex DOI: 10.1198/jasa.2009.br0912

Jenny Tung ; Olivier Fédrigo ; Ralph Haygood ; Sayan Mukherjee and Gregory A. Wray: Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation
In: Molecular biology and evolution, 26 (2009) 9, p. 2047-2059
Bibtex DOI: 10.1093/molbev/msp113
Journal Open Access

Elena J. Edelman ; Justin Guinney ; Jen-Tsan Chi ; Phillip G. Febbo and Sayan Mukherjee: Modeling cancer progression via pathway dependencies
In: PLoS computational biology, 4 (2008) 2, e28
Bibtex DOI: 10.1371/journal.pcbi.0040028
Journal Open Access

Kelly H. Salter ; Chaitanya R. Acharya ; Kelli S. Walters ; Richard Redman ; Ariel Anguiano ; Katherine S. Garman ; Carey K. Anders ; Sayan Mukherjee ; Holly K. Dressman ; William T. Barry ; Kelly P. Marcom ; John Olson ; Joseph R. Nevins and Anil Potti: An integrated approach to the prediction of chemotherapeutic response in patients with breast cancer
In: PLOS ONE, 3 (2008) 4, e1908
Bibtex DOI: 10.1371/journal.pone.0001908
Journal Open Access

Zhong Wang ; Huntington F. Willard ; Sayan Mukherjee and Terrence S. Furey: Evidence of influence of genomic DNA sequence on human X chromosome inactivation
In: PLoS computational biology, 2 (2008) 9, e113
Bibtex DOI: 10.1371/journal.pcbi.0020113
Journal Open Access

Jen-Tsan Chi ; Edwin H. Rodriguez ; Zhen Wang ; Dimitry S. A. Nuyten ; Sayan Mukherjee ; Matt Van de Rijn ; Marc J. Van de Vijver ; Trevor Hastie and Patrick O. Brown: Gene expression programs of human smooth muscle cells : tissue-specific differentiation and prognostic significance in breast cancers
In: PloS genetics, 9 (2007) 3, e164
Bibtex DOI: 10.1371/journal.pgen.0030164
Journal Open Access

Elena Edelman ; Alessandro Porrello ; Justin Guinney ; Bala Balakumaran ; Andrea Bild ; Phillip G. Febbo and Sayan Mukherjee: Analysis of sample set enrichment scores : assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles
In: Bioinformatics, 22 (2007) 14, p. e108-e116
Bibtex DOI: 10.1093/bioinformatics/btl231 LINK: http://www2.stat.duke.edu/~sayan/assess/index.shtml
Journal Open Access

Liang Goh ; Susan K. Murphy ; Sayan Mukherjee and Terrence S. Furey: Genomic sweeping for hypermethylated genes
Repository Open Access

Feng Liang ; Sayan Mukherjee and Mike West: The use of unlabeled data in predictive modeling
In: Statistical science, 22 (2007) 2, p. 189-205
Bibtex DOI: 10.1214/088342307000000032 ARXIV: https://arxiv.org/abs/0710.4618
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Natesh S. Pillai ; Qiang Wu ; Feng Liang ; Sayan Mukherjee and Robert L. Wolpert: Characterizing the function space for Bayesian kernel models
In: Journal of machine learning research, 8 (2007), p. 1769-1797
Bibtex LINK: https://jmlr.csail.mit.edu/papers/v8/pillai07a.html
Journal Open Access

Sayan Mukherjee ; Partha Niyogi ; Tomaso Poggio and Ryan Rifkin: Learning theory : stability is sufficient for generalization and necessary and sufficient for consistency of empirical risk minimization
In: Advances in computational mathematics, 25 (2006) 1-3, p. 161-193
Bibtex DOI: 10.1007/s10444-004-7634-z LINK: https://www.researchgate.net/publication/220390884
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Sayan Mukherjee and Qiang Wu: Estimation of gradients and coordinate covariation in classification
In: Journal of machine learning research, 7 (2006), p. 2481-2514
Bibtex LINK: https://jmlr.csail.mit.edu/papers/v7/mukherjee06b.html
Journal Open Access

Sayan Mukherjee and Ding-Xuan Zhou: Learning coordinate covariances via gradients
In: Journal of machine learning research, 7 (2006), p. 519-549
Bibtex LINK: https://jmlr.csail.mit.edu/papers/v7/mukherjee06a.html
Journal Open Access

Daniela Tropea ; Gabriel Kreiman ; Alvin Lyckman ; Sayan Mukherjee ; Hongbo Yu ; Sam Horng and Mriganka Sur: Gene expression changes and molecular pathways mediating activity-dependent plasticity in visual cortex
In: Nature neuroscience, 9 (2006) 5, p. 660-668
Bibtex DOI: 10.1038/nn1689 LINK: https://www.researchgate.net/publication/7148155
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Alexander Rahkhlin ; Dimitry Panchenko and Sayan Mukherjee: Risk bounds for mixture density estimation
In: ESAIM : Probability and statistics, 9 (2005), p. 220-229
Bibtex DOI: 10.1051/ps:2005011
Journal Open Access

Alexander Rakhlin ; Sayan Mukherjee and Tomaso Poggio: Stability results in learning theory
In: Analysis and applications, 3 (2005) 4, p. 397-417
Bibtex DOI: 10.1142/S0219530505000650

Aravind Subramanian ; Pablo Tomayo ; Vamsi K. Mootha ; Sayan Mukherjee ; Benjamin L. Ebert ; Michael A. Gillette ; Amanda Paulovich ; Scott L. Pomeroy ; Tood R. Golub ; Eric S. Lander and Jill P. Mesirov: Gene set enrichment analysis : a knowledge-based approach for interpreting genome-wide expression profiles
In: Proceedings of the National Academy of Sciences of the United States of America, 102 (2005) 43, p. 15545-15550
Bibtex DOI: 10.1073/pnas.0506580102 CODE: https://www.gsea-msigdb.org/gsea/index.jsp

Alejandro Sweet-Cordero ; Sayan Mukherjee ; Aravind Subramanian ; Han You ; Jeffrey J. Roix ; Christine Ladd-Acosta ; Jill Mesirov ; Todd R. Golub and Tyler Jacks: An oncogenic KRAS2 expression signature identified by cross-species gene-expression analysis
In: Nature genetics, 37 (2005) 1, p. 48-55
Bibtex DOI: 10.1038/ng1490 LINK: https://www.researchgate.net/publication/8120756
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Raanan Berger ; Phillip G. Febbo ; Pradip K. Majumder ; Jean J. Zhao ; Sayan Mukherjee ; Sabina Signoretti ; K. Thirza Campbell ; William R. Sellers ; Thomas M. Roberts ; Massimo Loda ; Todd R. Golub and William C. Hahn: Androgen-induced differentiation and tumorigenicity of human prostate epithelial cells
In: Cancer research, 64 (2004) 24, p. 8867-8875
Bibtex DOI: 10.1158/0008-5472.CAN-04-2938

Sayan Mukherjee ; Pablo Tamayo ; Simon Rogers ; Ryan Rifkin ; Anna Engle ; Colin Campbell ; Todd R. Golub and Jill P. Mesirov: Estimating dataset size requirements for classifying DNA microarray data
In: Journal of computational biology, 10 (2004) 2, p. 119-142
Bibtex DOI: 10.1089/106652703321825928 LINK: https://www.researchgate.net/publication/10710727
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Tomaso Poggio ; Ryan Rifkin ; Sayan Mukherjee and Partha Niyogi: General conditions for predictivity in learning theory
In: Nature, 428 (2004), p. 419-422
Bibtex DOI: 10.1038/nature02341
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Ryan Rinfkin ; Sayan Mukherjee ; Pablo Tamayo ; Sridhar Ramaswamy ; Chen-Hsiang Yeang ; Michael Angelo ; Michael Reich ; Tomaso Poggio ; Eric S. Lander ; Todd R. Golub and Jill P. Mesirov: An analytical method for multiclass molecular cancer classification
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Olivier Chapelle ; Vladimir. Vapnik ; Olivier Bousquet and Sayan Mukherjee: Choosing multiple parameters for support vector machines
In: Machine learning, 46 (2002) 1-3, p. 131-159
Bibtex DOI: 10.1023/A:1012450327387 LINK: https://www.researchgate.net/publication/2374270
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Lance D. Miller ; Philip M. Long ; Limsson Wong ; Sayan Mukherjee ; Lisa M. McShane and Edison T. Liu: Optimal gene expression analysis by microarrays
In: Cancer cell, 2 (2002) 5, p. 353-361
Bibtex DOI: 10.1016/S1535-6108(02)00181-2

Scott Pomeroy ; Pablo Tamayo ; Michelle Gaasenbeek ; Lisa M. Sturla ; Michael Angelo ; Margaret E. McLaughlin ; John Y. H. Kim ; Liliana C. Goumnerova ; Peter M. Black ; Ching Lau ; Jeffrey Allen ; David Zagzag ; James M. Olson ; Tom Curran ; Dynthia Wetmore ; Jaclyn A. Biegel ; Tomaso Poggio ; Sayan Mukherjee ; Ryan Rifkin ; Andrea Califano ; Gustavo Stolovitzky ; David N. Louis ; Jill P. Mesirov ; Eric S. Lander and Tood R. Golub: Prediction of central nervous system embryonal tumour outcome based on gene expression
In: Nature, 415 (2002) 6870, p. 436-442
Bibtex DOI: 10.1038/415436a LINK: https://www.researchgate.net/publication/11550810
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Sridhar Ramaswamy ; Pablo Tomayo ; Ryan Rifkin ; Sayan Mukherjee ; Chen-Hsiang Yeang ; Michael Angelo ; Christine Ladd ; Michael Reich ; Eva Latulippe ; Jill P. Mesirov ; Tomaso Poggio ; William Gerald ; Massimo Loda ; Eric S. Lander and Todd R. Golub: Multiclass cancer diagnosis using tumor gene expression signatures
In: Proceedings of the National Academy of Sciences of the United States of America, 98 (2001) 26, p. 15149-15154
Bibtex DOI: 10.1073/pnas.211566398

Chen-Hsiang Yeang ; Sridhar Ramaswamy ; Pablo Tamayo ; Sayan Mukherjee ; Ryan Rifkin ; Michael Angelo ; Michael Reich ; Eric Lander ; Jill Mesirov and Todd Golub: Molecular classification of multiple tumor types
In: Bioinformatics, 17 (2001) Suppl. 1, p. S316-S322
Bibtex DOI: 10.1093/bioinformatics/17.suppl_1.S316 LINK: https://www.researchgate.net/publication/31409732
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Publications in Books and Conference Proceedings To top of page

Xiangyu Zhang ; Ramin Bashizade ; Yicheng Wang ; Sayan Mukherjee and Alvin R. Lebeck: Statistical robustness of Markov chain Monte Carlo accelerators
In: ASPLOS 2021 : Proceedings of the 26th ACM international conference on architectural support for programming languages and operating systems ; virtual ; April 19 - 23, 2021 / Tim Sherwood (ed.)
New York, NY : Association for Computing Machinery, 2021. - P. 959-974
Bibtex DOI: 10.1145/3445814.3446697 LINK: https://users.cs.duke.edu/~alvy/papers/robustness_asplos21.pdf
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Zilong Tan ; Kimberly Roche ; Xiang Zhou and Sayan Mukherjee: Scalable algorithms for learning high-dimensional linear mixed model
In: Proceedings of the Thirty-Fourth Conference on Uncertainty in Artificial Intelligence, {UAI} 2018, Monterey, California, USA, August 6-10, 2018 / Amir Globerson... (eds.)
Corvallis, Or. : AUAI Press, 2018. - P. 259-268
Bibtex ARXIV: https://arxiv.org/abs/1803.04431 LINK: http://auai.org/uai2018/proceedings/papers/99.pdf CODE: https://github.com/ztanml/arLMM
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Zilong Tan and Sayan Mukherjee: Partitioned tensor factorizations for learning mixed membership models
In: Proceedings of the 34th international conference on machine learning : 6-11 August 2017, International Convention Centre, Sydney, Australia / Doina Precup... (eds.)
Long Beach, California : PMLR, 2017. - P. 3358-3367
(Proceedings of machine learning research ; 70)
Bibtex ARXIV: https://arxiv.org/abs/1702.07933 LINK: http://proceedings.mlr.press/v70/tan17a.html CODE: https://github.com/ztanml/ptpqp
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Simón Lunagómez ; Sayan Mukherjee and Robert L. Wolpert: Priors on hypergraphical models via simplicial complexes
In: Current trends in Bayesian methodology with applications / Satyanshu Upadhyay... (eds.)
Boca Raton, FL : CRC Press, 2015. - P. 391-413
Bibtex LINK: https://www.taylorfrancis.com/chapters/edit/10.1201/b18502-26/priors-hypergraphical-models-via-simplicial-complexes

Garvesh Raskutti and Sayan Mukherjee: The information geometry of mirror descent
In: Geometric science of information : second international conference, GSI 2015, Palaiseau, France, October 28-30, 2015, proceedings / Frank Nielsen... (eds.)
Cham : Springer, 2015. - P. 359-368
(Lecture notes in computer science ; 9389)
Bibtex DOI: 10.1007/978-3-319-25040-3_39 ARXIV: https://arxiv.org/abs/1310.7780
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Wuzhou Zhang ; Pankaj K. Agarwal and Sayan Mukherjee: Contour trees of uncertain terrains
In: SIGSPATIAL '15 : Proceedings of the 23rd SIGSPATIAL international conference on advances in geographic information systems ; November 3 - 6, 2015 ; Washington, Seattle / Mohamed Ali... (eds.)
New York, NY : ACM, 2015
Bibtex DOI: 10.1145/2820783.2820823
Journal Open Access

Paul Bendich ; Bei Wang and Sayan Mukherjee: Local homology transfer and stratification learning
In: Proceedings of the 23rd annual ACM-SIAM symposium on discrete algorithms, SODA 2012, Kyoto, Japan, January 17-19, 2012
Philadelphia, PA : Society for Industrial and Applied Mathematics, 2012. - P. 1355-1370
Bibtex DOI: 10.1137/1.9781611973099.107
Journal Open Access

Elena Edelman ; Katherine Garman ; Anil Potti and Sayan Mukherjee: Making mountains out of molehills : moving from single gene to pathway based models of colon cancer progression
In: Medical biostatistics for complex diseases / Frank Emmert-Streib... (eds.)
Weinheim : Wiley-VCH, 2010. - P. 75-87
Bibtex DOI: 10.1002/9783527630332.ch4

Justin Guinney ; Philip Febbo ; Mauro Maggioni and Sayan Mukherjee: Multiscale factor models for molecular networks
In: JSM proceedings of the American Statistical Association : papers presented at the joint statistical meetings 2010
Alexandria, Va. : ASA, 2010. - P. 4887-4901
Bibtex LINK: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.161.5746
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Kai Mao ; Feng Liang and Sayan Mukherjee: Supervised dimension reduction using Bayesian mixture modeling
In: Proceedings of the thirteenth international conference on artificial intelligence and statistics
Long Beach, California : PMLR, 2010. - P. 501-508
(Proceedings of machine learning research ; 9)
Bibtex LINK: https://proceedings.mlr.press/v9/mao10a.html CODE: https://github.com/sayanmuk/Bayesian-Mixture-of-Inverses
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Qiang Wu ; Sayan Mukherjee and Feng Liang: Localized sliced inverse regression
In: Advances in neural information processing systems 21 : NIPS 2008
La Jolla, CA : Neural Information Processing Systems, 2008. - P. 1785-1792
Bibtex LINK: https://proceedings.neurips.cc/paper/2008/hash/e3796ae838835da0b6f6ea37bcf8bcb7-Abstract.html CODE: https://github.com/sayanmuk/Local-Sliced-Inverse-Regression
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Polina Golland ; Feng Liang ; Sayan Mukherjee and Dimitry Panchenko: Permutation tests for classification
In: Learning theory.: 18th annual conference on learning theory, COLT 2005, Bertinoro, Italy, June 27-30, 2005 ; proceedings / Peter Auer... (eds.)
Berlin : Springer, 2005. - P. 501-515
(Lecture notes in computer science ; 3559)
Bibtex DOI: 10.1007/11503415_34 LINK: http://cbcl.mit.edu/publications/ai-publications/2003/AIM-2003-019.pdf

Sayan Mukherjee: Classifying microarray data using support vector machines
In: A practical approach to microarray data analysis / Daniel P. Berrar... (eds.)
New York, NY : Kluwer Academic, 2003. - P. 166-185
Bibtex DOI: 10.1007/0-306-47815-3_9

Sayan Mukherjee ; Ryan Rifkin and Poggio Tomaso: Regression and classification with regularization
In: Nonlinear estimation and classification / David D. Denison... (eds.)
New York : Springer, 2003. - P. 111-128
(Lecture notes in statistics ; 171)
Bibtex DOI: 10.1007/978-0-387-21579-2_7 LINK: https://www.researchgate.net/publication/2856752
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Tomaso Poggio ; Sayan Mukherjee ; Ryan Rifkin ; Alexander Rakhlin and Alessandro Verri: B
In: Uncertainty in geometric computations / Joab Winkler... (eds.)
New York : Springer, 2002. - P. 131-141
(The Springer international series in engineering and computer science ; 704)
Bibtex DOI: 10.1007/978-1-4615-0813-7_11

Javid Sadr ; Sayan Mukherjee ; K. Thoresz and Pawan Sinha: The fidelity of local ordinal encoding
In: Advances in neural information processing systems 14 : NIPS 2001 ; proceedings of the 2001 neural information processing systems conference / Thomas G. Dietterich... (eds.)
Cambridge, Mass. : MIT Press, 2002. - P. 1279-1286
Bibtex LINK: https://papers.nips.cc/paper/2001/hash/84ddfb34126fc3a48ee38d7044e87276-Abstract.html
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Bernd Heisele ; Thomas Serre ; Sayan Mukherjee and Tomaso Poggio: Feature reduction and hierarchy of classifiers for fast object detection in video images
In: Proceedings of the 2001 IEEE computer society conference on computer vision and pattern recognition : CVPR 2001 ; Dec. 8 2001 to Dec. 14 2001 ; Kauai, Hawaii ; Volume 2
Piscataway, NJ : IEEE, 2001. - P. 18-24
Bibtex DOI: 10.1109/CVPR.2001.990919 LINK: https://www.researchgate.net/publication/3940805
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Leonid Peshkin and Sayan Mukherjee: Bounds on sample size for policy evaluation in Markov environments
In: Computational learning theory : 14th annual conference, COLT 2001, and 5th European conference, EuroCOLT 2001, Amsterdam, Netherlands, July 16-19, 2001 ; proceedings / David Helmbold... (eds.)
Berlin : Springer, 2001. - P. 616-629
(Lecture notes in computer science ; 2111)
Bibtex DOI: 10.1007/3-540-44581-1_41 ARXIV: https://arxiv.org/abs/cs/0105027
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Jason Weston ; Sayan Mukherjee ; Olivier Chapelle ; Massimiliano Pontil ; Tomaso Poggio and Vladimir. Vapnik: Feature selection for SVMs
In: Advances in neural information processing systems 13 : NIPS 2000 ; proceedings of the 2000 neural information processing systems conference / Todd K. Leen... (eds.)
Cambridge, Mass. : MIT Press, 2001. - P. 668-674
Bibtex LINK: https://papers.nips.cc/paper/2000/hash/8c3039bd5842dca3d944faab91447818-Abstract.html
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Massimiliano Pontil ; Sayan Mukherjee and Federico Girosi: On the noise model of support vector machines regression
In: Algorithmic learning theory : 11th international conference, ALT 2000, Sydney, Australia, December 11-13, 2000 ; proceedings / Hiroki Arimura... (eds.)
Berlin : Springer, 2000. - P. 316-324
(Lecture notes in computer science ; 1968)
Bibtex DOI: 10.1007/3-540-40992-0_24 LINK: https://www.researchgate.net/publication/2524195
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Vladimir. Vapnik and Sayan Mukherjee: Support vector method for multivariate density estimation
In: Advances in neural information processing systems 12 : NIPS 1999 ; proceedings of 1999 neural information processing systems conference / Sara A. Solla... (eds.)
Cambridge, Mass. : MIT Press, 2000. - P. 659-665
Bibtex LINK: https://papers.nips.cc/paper/1999/hash/207f88018f72237565570f8a9e5ca240-Abstract.html
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Preprints To top of page

Shreya Arya ; Justin Curry and Sayan Mukherjee: A sheaf-theoretic construction of shape space
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Michelle Pistner Nixon ; Jeffrey Letourneau ; Lawrence David ; Sayan Mukherjee and Justin D. Silverman: A statistical analysis of compositional surveys
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Ramin Bashizade ; Xiangyu Zhang ; Sayan Mukherjee and Alvin R. Lebeck: Accelerating markov random field inference with uncertainty quantification
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Michele Caprio ; Andrea Aveni and Sayan Mukherjee: Concerning three classes of non-Diophantine arithmetics
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Michele Caprio and Sayan Mukherjee: Extended probabilities and their application to statistical inference
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Henry Kirveslahti and Sayan Mukherjee: Representing fields without correspondences : the lifted Euler characteristic transform
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Langxuan Su and Sayan Mukherjee: A large deviation approach to posterior consistency in dynamical systems
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Anna K. Yanchenko ; Mohammadreza Soltani ; Robert J. Ravier ; Sayan Mukherjee and Vahid Tarokh: A methodology for exploring deep convolutional features in relation to hand-crafted features with an application to music audio modeling
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Michele Caprio and Sayan Mukherjee: Finite mixture models : a bridge with stochastic geometry and Choquet theory
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Ziyang Ding and Sayan Mukherjee: At the intersection of deep sequential model framework and state-space model framework : study on option pricing
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Nicolas Fraiman ; Sayan Mukherjee and Gugan Thoppe: The bulk and the extremes of minimal spanning acycles and persistence diagrams of random complexes
Repository Open Access

Didong Li and Sayan Mukherjee: Random Lie brackets that induce torsion : a model for noisy vector fields
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Anna K. Yanchenko and Sayan Mukherjee: Stanza : a nonlinear state space model for probabilistic inference in non-stationary time series
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Xiangyu Zhang ; Ramin Bashizade ; Yicheng Wang ; Cheng Lyu ; Sayan Mukherjee and Alvin R. Lebeck: Beyond application end-point results : quantifying statistical robustness of MCMC accelerators
Repository Open Access

Samuel I. Berchuck ; Felipe A. Medeiros and Sayan Mukherjee: Scalable modeling of spatiotemporal data using the variational autoencoder : an application in glaucoma
(The annals of applied statistics :)
Bibtex ARXIV: https://arxiv.org/abs/1908.09195
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Justin D. Silverman ; Rachael J. Bloom ; Sharon Jiang ; Heather K. Durand ; Sayan Mukherjee and Lawrence A. David: Measuring and mitigating PCR bias in microbiome data
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Zilong Zou ; Sayan Mukherjee ; Harbir Antil and Wilkins Aquino: Adaptive particle-based approximations of the Gibbs posterior for inverse problems
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Justin D. Silverman ; Liat Shenhav ; Eran Halperin ; Sayan Mukherjee and Lawrence A. David: Statistical considerations in the design and analysis of longitudinal microbiome studies
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Zilong Tan and Sayan Mukherjee: Learning integral representations of Gaussian processes
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Abbas Zaidi and Sayan Mukherjee: Gaussian process mixtures for estimating heterogeneous treatment effects
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Anna K. Yanchenko and Sayan Mukherjee: Classical music composition using state space models
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James E. Johndrow ; Jonathan C. Mattingly ; Sayan Mukherjee and David B. Dunson: Optimal approximating Markov chains for Bayesian inference
Repository Open Access

Paul Bendich ; Sayan Mukherjee and Bei Wang: Towards stratification learning through homology inference
Repository Open Access
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