Elham Azizi



In Preparation


Characterization of the tumor-immune microenvironment in breast cancer using single-cell RNA-seq
Modeling the Neurospora crassa clock regulatory network


Journal & Conference Papers

Elham Azizi*, Sandhya Prabhakaran*, Ambrose Carr, Dana Pe'er, Bayesian Inference for Single-cell Clustering and Imputing, Genomics and Computational Biology 3 (1), 46, 2017.

• Sandhya Prabhakaran*, Elham Azizi*, Ambrose Carr, Dana Pe'er, Dirichlet Process Mixture Model for Correcting Technical Variation in Single-Cell Gene Expression Data, Journal of Machine Learning Research, W&CP (ICML). 48, 1070–1079, 2016 (pdf, supplementary, R code).
(Recipient of Dataminr Poster Presentation Award, NYAS Machine Learning Symposium 2016).
*Authors contributed equally

• Rigzin Dekhang, Cheng Wu, Kristina Smith, Teresa Lamb, Matthew Peterson, Erin Bredeweg, Oneida Ibarra, Jillian Emerson, Nirmala Karunarathna, Anna Lyubetskaya, Elham Azizi, Jennifer Hurely, Jay Dunlap, James Galagan, Michael Freitag, Matthew Sachs, Deborah Bell-Pedersen The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell-Fusion, G3: Genes| Genomes| Genetics, 2016.

Elham Azizi, Edoardo M. Airoldi, James E. Galagan, Learning Modular Structures from Network Data and Node Variables, Journal of Machine Learning Research, W&CP (ICML). 32, 1440-1448, 2014 (Recipient of IBM Best Student Paper Award, NESS 2014) (pdf, Extended version).

• Antonio L. C. Gomes, Thomas Abeel, Matthew Peterson, Elham Azizi, Anna Lyubetskaya, Luís Carvalho & James E. Galagan, Decoding ChIP-Seq peaks with a double-binding signal refines binding peaks to single-nucleotide and predicts cooperative interaction, Genome Research 2014: gr. 161711.113 (pdf)

James E. Galagan, Kyle Minch*, Matthew Peterson*, Anna Lyubetskaya, Elham Azizi*, Linsday Sweet*, Antonio Gomes*, Tige Rustad, Gregory Dolganov, Irina Glotova, Thomas Abeel, Chris Mahwinney, Adam D Kennedy, René Allard, William Brabant, Andrew Krueger, Suma Jaini, Brent Honda, Wen-Han Yu, Mark J Hickey, Jeremy Zucker, Christopher Garay, Brian Weiner, Peter Sisk, Christian Stolte, Jessica K Winkler, Yves Van de Peer, Paul Iazzetti, Diogo Camacho, Jonathan Dreyfuss, Yang Liu, Anca Dorhoi, Hans-Joachim Mollenkopf, Paul Drogaris, Julie Lamontagne, Yiyong Zhou, Julie Piquenot, Sang Tae Park, Sahadevan Raman, Stefan HE Kaufmann, Robert P Mohney, Daniel Chelsky, D Branch Moody, David R Sherman, Gary K Schoolnik The Mycobacterium tuberculosis regulatory network and hypoxia, Nature. 2013 Jul 11; 499 (7457): 178-183. doi: 10.1038/nature12337 (pdf).
(*Authors contributed equally)

Sarah Kianfar, Elham Azizi, Farhad Kianfar, A Comparison of Two Estimators for Solutions to Greedy Algorithm in Scheduling Depletable Sources, Proc. of International Conference on Risk Management & Engineering Management (RMEM 2008), 80-85, University of Toronto, Ontario, Canada.

Elham Azizi, G Hossein Mohimani, Masoud Babaie-Zadeh, Adaptive Sparse Source Separation with Application to Speech Signals, Proc. of IEEE International Conference on Signal Processing and Communications (ICSPC 2007), 640-643, Dubai, UAE (pdf).

Sarah Kianfar, Elham Azizi, Farhad Kianfar, An Approximation Approach to Numerical Solution of Convex Cost Algorithm in Production Planning, Proc. of International Management Conference (IMC 2007), Tehran, Iran.


Workshop Papers


Elham Azizi, Joint Learning of Modular Structures from Multiple Data Types, NIPS 2013 Workshop of Frontiers of Network Analysis: Methods, Models, and Applications, Lake Tahoe, NV, USA.