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Books and Theses
- 2016
[b1]Farhad Hormozdiari:
Statistical Methods to Understand the Genetic Architecture of Complex Traits. University of California, Los Angeles, USA, 2016
Journal Articles
- 2022
- [j19]Alexander D'Amour, Katherine A. Heller, Dan Moldovan, Ben Adlam, Babak Alipanahi, Alex Beutel, Christina Chen, Jonathan Deaton, Jacob Eisenstein, Matthew D. Hoffman, Farhad Hormozdiari, Neil Houlsby, Shaobo Hou, Ghassen Jerfel, Alan Karthikesalingam, Mario Lucic, Yi-An Ma, Cory Y. McLean, Diana Mincu, Akinori Mitani, Andrea Montanari, Zachary Nado, Vivek Natarajan, Christopher Nielson, Thomas F. Osborne, Rajiv Raman, Kim Ramasamy, Rory Sayres, Jessica Schrouff, Martin Seneviratne, Shannon Sequeira, Harini Suresh, Victor Veitch, Max Vladymyrov, Xuezhi Wang, Kellie Webster, Steve Yadlowsky, Taedong Yun, Xiaohua Zhai, D. Sculley:
Underspecification Presents Challenges for Credibility in Modern Machine Learning. J. Mach. Learn. Res. 23: 226:1-226:61 (2022) - 2019
- [j18]Yue Wu, Farhad Hormozdiari, Jong Wha J. Joo, Eleazar Eskin:
Improving Imputation Accuracy by Inferring Causal Variants in Genetic Studies. J. Comput. Biol. 26(11): 1203-1213 (2019) - 2017
- [j17]Xin Li
, Yungil Kim, Emily K. Tsang, Joe R. Davis, Farhan N. Damani, Colby Chiang, Gaelen T. Hess, Zachary Zappala, Benjamin J. Strober, Alexandra J. Scott, Amy Li, Andrea Ganna, Michael C. Bassik, Jason D. Merker, François Aguet, Kristin G. Ardlie, Beryl B. Cummings, Ellen T. Gelfand, Gad Getz, Kane Hadley, Robert E. Handsaker, Katherine H. Huang, Seva Kashin, Konrad J. Karczewski, Monkol Lek, Xiao Li, Daniel G. MacArthur, Jared L. Nedzel, Duyen T. Nguyen, Michael S. Noble, Ayellet V. Segrè, Casandra A. Trowbridge, Taru Tukiainen, Nathan S. Abell, Brunilda Balliu, Ruth Barshir, Omer Basha, Alexis J. Battle, Gireesh K. Bogu, Andrew Brown, Christopher D. Brown, Stephane E. Castel, Lin S. Chen, Donald F. Conrad, Nancy J. Cox, Olivier Delaneau, Emmanouil T. Dermitzakis, Barbara E. Engelhardt, Eleazar Eskin, Pedro G. Ferreira, Laure Frésard, Eric R. Gamazon, Diego Garrido-Martín, Ariel D. H. Gewirtz, Genna Gliner, Michael J. Gloudemans, Roderic Guigó, Ira M. Hall, Buhm Han, Yuan He, Farhad Hormozdiari, Cedric Howald, Hae Kyung Im, Brian Jo, Eun Yong Kang, Sarah Kim-Hellmuth, Tuuli Lappalainen, Gen Li, Boxiang Liu, Serghei Mangul, Mark I. McCarthy, Ian C. McDowell, Pejman Mohammadi, Jean Monlong, Stephen B. Montgomery:
The impact of rare variation on gene expression across tissues. Nat. 550(7675): 239-243 (2017) - 2016
- [j16]Dat Duong, Jennifer Zou, Farhad Hormozdiari, Jae Hoon Sul, Jason Ernst, Buhm Han, Eleazar Eskin:
Using genomic annotations increases statistical power to detect eGenes. Bioinform. 32(12): 156-163 (2016) - 2015
- [j15]Farhad Hormozdiari, Gleb Kichaev, Wen-Yun Yang, Bogdan Pasaniuc, Eleazar Eskin:
Identification of causal genes for complex traits. Bioinform. 31(12): 206-213 (2015) - [j14]Danny S. Park, Yael Baran, Farhad Hormozdiari, Celeste Eng, Dara G. Torgerson, Esteban Gonzàlez Burchard, Noah Zaitlen:
PIGS: improved estimates of identity-by-descent probabilities by probabilistic IBD graph sampling. BMC Bioinform. 16(S-5): S9 (2015) - [j13]Farhad Hormozdiari, Eleazar Eskin:
Memory efficient assembly of human genome. J. Bioinform. Comput. Biol. 13(2): 1550008:1-1550008:13 (2015) - [j12]Wen-Yun Yang, Farhad Hormozdiari, Eleazar Eskin, Bogdan Pasaniuc:
A Spatial Haplotype Copying Model with Applications to Genotype Imputation. J. Comput. Biol. 22(5): 451-462 (2015) - 2014
- [j11]Farhad Hormozdiari, Jong Wha J. Joo, Akshay Wadia, Feng Guan, Rafail Ostrovsky, Amit Sahai, Eleazar Eskin:
Privacy preserving protocol for detecting genetic relatives using rare variants. Bioinform. 30(12): 204-211 (2014) - [j10]Faraz Hach, Iman Sarrafi, Farhad Hormozdiari, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp:
mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications. Nucleic Acids Res. 42(Webserver-Issue): 494-500 (2014) - 2013
- [j9]Wen-Yun Yang, Farhad Hormozdiari, Zhanyong Wang, Dan He, Bogdan Pasaniuc, Eleazar Eskin:
Leveraging reads that span multiple single nucleotide polymorphisms for haplotype inference from sequencing data. Bioinform. 29(18): 2245-2252 (2013) - [j8]Hongyi Xin, Donghyuk Lee, Farhad Hormozdiari, Samihan Yedkar, Onur Mutlu, Can Alkan:
Accelerating read mapping with FastHASH. BMC Genom. 14(S-1): S13 (2013) - [j7]Zhanyong Wang, Farhad Hormozdiari, Wen-Yun Yang, Eran Halperin, Eleazar Eskin:
CNVeM: Copy Number Variation Detection Using Uncertainty of Read Mapping. J. Comput. Biol. 20(3): 224-236 (2013) - [j6]Itamar Eskin, Farhad Hormozdiari, Lucía Conde, Jacques Riby, Christine F. Skibola, Eleazar Eskin, Eran Halperin:
eALPS: Estimating Abundance Levels in Pooled Sequencing Using Available Genotyping Data. J. Comput. Biol. 20(11): 861-877 (2013) - 2012
- [j5]Farhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan:
Sensitive and fast mapping of di-base encoded reads. Bioinform. 28(1): 150 (2012) - 2011
- [j4]Dan He, Farhad Hormozdiari, Nicholas A. Furlotte, Eleazar Eskin:
Efficient algorithms for tandem copy number variation reconstruction in repeat-rich regions. Bioinform. 27(11): 1513-1520 (2011) - [j3]Farhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan:
Sensitive and fast mapping of di-base encoded reads. Bioinform. 27(14): 1915-1921 (2011) - [j2]Nathaniel Parrish, Farhad Hormozdiari, Eleazar Eskin:
Assembly of non-unique insertion content using next-generation sequencing. BMC Bioinform. 12(S-6): S3 (2011) - 2010
- [j1]Iurii Sushko, Sergii Novotarskyi, Robert Körner, Anil Kumar Pandey, Artem Cherkasov, Jiazhong Li, Paola Gramatica, Katja Hansen, Timon Schroeter, Klaus-Robert Müller, Lili Xi, Huanxiang Liu, Xiaojun Yao, Tomas Öberg, Farhad Hormozdiari, Phuong Dao, Süleyman Cenk Sahinalp, Roberto Todeschini, Pavel G. Polishchuk, Anatoly G. Artemenko, Victor Kuzmin, Todd Martin, Douglas M. Young, Denis Fourches, Eugene N. Muratov, Alexander Tropsha, Igor I. Baskin, Dragos Horvath, Gilles Marcou, Christophe Muller, Alexandre Varnek, Volodymyr V. Prokopenko, Igor V. Tetko:
Applicability Domains for Classification Problems: Benchmarking of Distance to Models for Ames Mutagenicity Set. J. Chem. Inf. Model. 50(12): 2094-2111 (2010)
Conference and Workshop Papers
- 2023
- [c14]Anastasiya Belyaeva, Justin Cosentino, Farhad Hormozdiari, Krish Eswaran, Shravya Shetty, Greg Corrado, Andrew Carroll, Cory Y. McLean, Nicholas A. Furlotte:
Multimodal LLMs for Health Grounded in Individual-Specific Data. ML4MHD 2023: 86-102 - 2020
- [c13]Nathan LaPierre, Kodi Taraszka, Helen Huang, Rosemary He, Farhad Hormozdiari, Eleazar Eskin:
Identifying Causal Variants by Fine Mapping Across Multiple Studies. RECOMB 2020: 257-258 - 2017
- [c12]Yue Wu, Farhad Hormozdiari, Jong Wha J. Joo, Eleazar Eskin:
Improving Imputation Accuracy by Inferring Causal Variants in Genetic Studies. RECOMB 2017: 303-317 - 2016
- [c11]Serghei Mangul, Harry (Taegyun) Yang, Farhad Hormozdiari, Elizabeth Tseng, Alex Zelikovsky, Eleazar Eskin:
HapIso: An Accurate Method for the Haplotype-Specific Isoforms Reconstruction from Long Single-Molecule Reads. ISBRA 2016: 80-92 - [c10]Farhad Hormozdiari, Fereydoun Hormozdiari, Carl Kingsford, Paul Medvedev, Fabio Vandin:
The Second Decade of the International Conference on Research in Computational Molecular Biology (RECOMB). RECOMB 2016: 3-16 - 2014
- [c9]Farhad Hormozdiari, Emrah Kostem, Eun Yong Kang, Bogdan Pasaniuc, Eleazar Eskin:
Identifying causal variants at loci with multiple signals of association. BCB 2014: 610-611 - [c8]Wen-Yun Yang, Farhad Hormozdiari, Eleazar Eskin, Bogdan Pasaniuc:
A Spatial-Aware Haplotype Copying Model with Applications to Genotype Imputation. RECOMB 2014: 371-384 - 2013
- [c7]Farhad Hormozdiari, Eleazar Eskin:
Memory efficient assembly of human genome. ICCABS 2013: 1 - [c6]Itamar Eskin, Farhad Hormozdiari, Lucía Conde, Jacques Riby, Chris Skibola, Eleazar Eskin, Eran Halperin:
eALPS: Estimating Abundance Levels in Pooled Sequencing Using Available Genotyping Data. RECOMB 2013: 32-44 - 2012
- [c5]Farhad Hormozdiari, Zhanyong Wang, Wen-Yun Yang, Eleazar Eskin:
Efficient genotyping of individuals using overlapping pool sequencing and imputation. ACSCC 2012: 1023-1027 - [c4]Zhanyong Wang, Farhad Hormozdiari, Wen-Yun Yang, Eran Halperin, Eleazar Eskin:
CNVeM: Copy Number Variation Detection Using Uncertainty of Read Mapping. RECOMB 2012: 326-340 - 2008
- [c3]Ali Rajabi, Aresh Dadlani, Farhad Hormozdiari, Ahmad Khonsari, Ahmad Kianrad, Hassan Seyed Razi:
Analysis of the Impact of Wavelength Converters on Contention Resolution in Optical Burst Switching. Asia International Conference on Modelling and Simulation 2008: 259-264 - 2007
- [c2]Ali Rajabi, Farhad Hormozdiari, Ahmad Khonsari:
Flows with Bounded Waiting Time in Networked and Distributed Systems. Asia International Conference on Modelling and Simulation 2007: 218-223 - [c1]Farhad Hormozdiari, Ali Rajabi, Ahmad Khonsari:
Mathematical Analysis of Delay Line to Wavelength Allocation Algorithmsin Optical Networks. MASCOTS 2007: 418-423
Informal and Other Publications
- 2024
- [i3]Lin Yang, Shawn Xu, Andrew Sellergren, Timo Kohlberger, Yuchen Zhou, Ira Ktena, Atilla P. Kiraly, Faruk Ahmed, Farhad Hormozdiari, Tiam Jaroensri, Eric Wang, Ellery Wulczyn, Fayaz Jamil, Theo Guidroz, Chuck Lau, Siyuan Qiao, Yun Liu, Akshay Goel, Kendall Park, Arnav Agharwal, Nick George, Yang Wang, Ryutaro Tanno, David G. T. Barrett, Wei-Hung Weng, S. Sara Mahdavi, Khaled Saab, Tao Tu, Sreenivasa Raju Kalidindi, Mozziyar Etemadi, Jorge Cuadros, Gregory Sorensen, Yossi Matias, Katherine Chou, Greg Corrado, Joelle K. Barral, Shravya Shetty, David J. Fleet, S. M. Ali Eslami, Daniel Tse, Shruthi Prabhakara, Cory Y. McLean, Dave Steiner, Rory Pilgrim, Christopher Kelly, Shekoofeh Azizi, Daniel Golden:
Advancing Multimodal Medical Capabilities of Gemini. CoRR abs/2405.03162 (2024) - 2023
- [i2]Anastasiya Belyaeva, Justin Cosentino, Farhad Hormozdiari, Krish Eswaran, Shravya Shetty, Greg Corrado, Andrew Carroll, Cory Y. McLean, Nicholas A. Furlotte:
Multimodal LLMs for health grounded in individual-specific data. CoRR abs/2307.09018 (2023) - 2020
- [i1]Alexander D'Amour, Katherine A. Heller, Dan Moldovan, Ben Adlam, Babak Alipanahi, Alex Beutel, Christina Chen, Jonathan Deaton, Jacob Eisenstein, Matthew D. Hoffman, Farhad Hormozdiari, Neil Houlsby, Shaobo Hou, Ghassen Jerfel, Alan Karthikesalingam, Mario Lucic, Yi-An Ma, Cory Y. McLean, Diana Mincu, Akinori Mitani, Andrea Montanari, Zachary Nado, Vivek Natarajan, Christopher Nielson, Thomas F. Osborne, Rajiv Raman, Kim Ramasamy, Rory Sayres, Jessica Schrouff, Martin Seneviratne, Shannon Sequeira, Harini Suresh, Victor Veitch, Max Vladymyrov, Xuezhi Wang, Kellie Webster, Steve Yadlowsky, Taedong Yun, Xiaohua Zhai, D. Sculley:
Underspecification Presents Challenges for Credibility in Modern Machine Learning. CoRR abs/2011.03395 (2020)
Coauthor Index
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