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Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021).
Bansal, Mukul S; Mandoiu, Ion I; Moussa, Marmar; Patterson, Murray; Rajasekaran, Sanguthevar; Skums, Pavel; Zelikovsky, Alexander Journal of computational biology : a journal of computational molecular cell biology 2023 Feb;
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Ebrahimi-Nik H, Moussa M, Englander RP, Singhaviranon S, Michaux J, Pak H, Miyadera H, Corwin WL, Keller GLJ, Hagymasi AT, Shcheglova TV, Coukos G, Baker BM, Mandoiu II, Bassani-Sternberg M, Srivastava PK. Reversion analysis reveals the in vivo immunogenicity of a poorly MHC I-binding cancer neoepitope. Nat Commun. 2021 Nov 5; 12(1):6423. doi: 10.1038/s41467-021-26646-5. PMID: 34741035 2021 Nov;
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Comparative cellular analysis of motor cortex in human, marmoset and mouse.
Bakken, Trygve E; Jorstad, Nikolas L; Hu, Qiwen; Lake, Blue B; Tian, Wei; Kalmbach, Brian E; Crow, Megan; Hodge, Rebecca D; Krienen, Fenna M; Sorensen, Staci A; Eggermont, Jeroen; Yao, Zizhen; Aevermann, Brian D; Aldridge, Andrew I; Bartlett, Anna; Bertagnolli, Darren; Casper, Tamara; Castanon, Rosa G; Crichton, Kirsten; Daigle, Tanya L; Dalley, Rachel; Dee, Nick; Dembrow, Nikolai; Diep, Dinh; Ding, Song-Lin; Dong, Weixiu; Fang, Rongxin; Fischer, Stephan; Goldman, Melissa; Goldy, Jeff; Graybuck, Lucas T; Herb, Brian R; Hou, Xiaomeng; Kancherla, Jayaram; Kroll, Matthew; Lathia, Kanan; van Lew, Baldur; Li, Yang Eric; Liu, Christine S; Liu, Hanqing; Lucero, Jacinta D; Mahurkar, Anup; McMillen, Delissa; Miller, Jeremy A; Moussa, Marmar; Nery, Joseph R; Nicovich, Philip R; Niu, Sheng-Yong; Orvis, Joshua; Osteen, Julia K; Owen, Scott; Palmer, Carter R; Pham, Thanh; Plongthongkum, Nongluk; Poirion, Olivier; Reed, Nora M; Rimorin, Christine; Rivkin, Angeline; Romanow, William J; Sedeño-Cortés, Adriana E; Siletti, Kimberly; Somasundaram, Saroja; Sulc, Josef; Tieu, Michael; Torkelson, Amy; Tung, Herman; Wang, Xinxin; Xie, Fangming; Yanny, Anna Marie; Zhang, Renee; Ament, Seth A; Behrens, M Margarita; Bravo, Hector Corrada; Chun, Jerold; Dobin, Alexander; Gillis, Jesse; Hertzano, Ronna; Hof, Patrick R; Höllt, Thomas; Horwitz, Gregory D; Keene, C Dirk; Kharchenko, Peter V; Ko, Andrew L; Lelieveldt, Boudewijn P; Luo, Chongyuan; Mukamel, Eran A; Pinto-Duarte, António; Preissl, Sebastian; Regev, Aviv; Ren, Bing; Scheuermann, Richard H; Smith, Kimberly; Spain, William J; White, Owen R; Koch, Christof; Hawrylycz, Michael; Tasic, Bosiljka; Macosko, Evan Z; McCarroll, Steven A; Ting, Jonathan T; Zeng, Hongkui; Zhang, Kun; Feng, Guoping; Ecker, Joseph R; Linnarsson, Sten; Lein, Ed S Nature 2021 Oct;598(7879):111-119
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Computational Cell Cycle Analysis of Single Cell RNA-Seq Data
Marmar Moussa, Ion I. Mandoiu Lecture Notes in Computer Science (LNCS, volume 12686) 2021 Jul;
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SC1: A Tool for Interactive Web-Based Single-Cell RNA-Seq Data Analysis.
Moussa, Marmar; Mandoiu, Ion I Journal of computational biology : a journal of computational molecular cell biology 2021 Jun;
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Brennick CA, George MM, Moussa MM, Hagymasi AT, Seesi SA, Shcheglova TV, Englander RP, Keller GL, Balsbaugh JL, Baker BM, Schietinger A, Mandoiu II, Srivastava PK. An unbiased approach to defining bona fide cancer neoepitopes that elicit immune-mediated cancer rejection. J Clin Invest. 2021 Feb 1; 131(3):e142823. doi: 10.1172/JCI142823. PMID: 33320837 2021 Feb;
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Nevin JT, Moussa M, Corwin WL, Mandoiu II, Srivastava PK. Sympathetic nervous tone limits the development of myeloid-derived suppressor cells. Sci Immunol. 2020 Sep 11;5(51):eaay9368. doi: 10.1126/sciimmunol.aay9368. PMID: 32917793.
Nevin, James T; Moussa, Marmar; Corwin, William L; Mandoiu, Ion I; Srivastava, Pramod K 2020 Sep;
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Locality Sensitive Imputation for Single Cell RNA-Seq Data.
Moussa, Marmar; Mandoiu, Ion I Journal of computational biology : a journal of computational molecular cell biology 2019 Aug;26(8):822-835
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Single cell RNA-seq data clustering using TF-IDF based methods.
Moussa, Marmar; Mandoiu, Ion I BMC genomics 2018 Aug;19(Suppl 6):569
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Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse
Trygve E. Bakken, Nikolas L. Jorstad, Qiwen Hu, Blue B. Lake, Wei Tian, Brian E. Kalmbach, Megan Crow, Rebecca D. Hodge, Fenna M. Krienen, Staci A. Sorensen, Jeroen Eggermont, Zizhen Yao, Brian D. Aevermann, Andrew I. Aldridge, Anna Bartlett, Darren Bertagnolli, Tamara Casper, Rosa G. Castanon, Kirsten Crichton, Tanya L. Daigle, Rachel Dalley, Nick Dee, Nikolai Dembrow, Dinh Diep, Song-Lin Ding, Weixiu Dong, Rongxin Fang, Stephan Fischer, Melissa Goldman, Jeff Goldy, Lucas T. Graybuck, Brian R. Herb, Xiaomeng Hou, Jayaram Kancherla, Matthew Kroll, Kanan Lathia, Baldur van Lew, Yang Eric Li, Christine S. Liu, Hanqing Liu, Jacinta D. Lucero, Anup Mahurkar, Delissa McMillen, Jeremy A. Miller, Marmar Moussa, Joseph R. Nery, Philip R. Nicovich, Sheng-Yong Niu, Joshua Orvis, Julia K. Osteen, Scott Owen, Carter R. Palmer, Thanh Pham, Nongluk Plongthongkum, Olivier Poirion, Nora M. Reed, Christine Rimorin, Angeline Rivkin, William J. Romanow, Adriana E. Sedeño-Cortés, Kimberly Siletti, Saroja Somasundaram, Josef Sulc, Michael Tieu, Amy Torkelson, Herman Tung, Xinxin Wang, Fangming Xie, Anna Marie Yanny, Renee Zhang, Seth A. Ament, M. Margarita Behrens, Hector Corrada Bravo, Jerold Chun, Alexander Dobin, Jesse Gillis, Ronna Hertzano, Patrick R. Hof, Thomas Höllt, Gregory D. Horwitz, C. Dirk Keene, Peter V. Kharchenko, Andrew L. Ko, Boudewijn P. Lelieveldt, Chongyuan Luo, Eran A. Mukamel, António Pinto-Duarte, Sebastian Preissl, Aviv Regev, Bing Ren, Richard H. Scheuermann, Kimberly Smith, William J. Spain, Owen R. White, Christof Koch, Michael Hawrylycz, Bosiljka Tasic, Evan Z. Macosko, Steven A. McCarroll, Jonathan T. Ting, Hongkui Zeng, Kun Zhang, Guoping Feng, Joseph R. Ecker, Sten Linnarsson & Ed S. Lein
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Role of walnut-derived urolithins in reducing colonic inflammation in a patient cohort elucidated by an integrated omics analysis.
Marmar Moussa, Masako Nakanishi, Pratik Mehta, Hatano Yuichiro, Anthony Provatas , Haleh Vaziri , Ock Chun, Nuoxi Fan, Daniel Rosenberg (Manuscript in preparation)
