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SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes.
Peng J, Serrano G, Traniello IM, Calleja-Cervantes ME, Chembazhi UV, Bangru S, Ezponda T, Rodriguez-Madoz JR, Kalsotra A, Prosper F, Ochoa I, Hernaez M. Peng J, et al. Among authors: hernaez m. Commun Biol. 2022 Apr 12;5(1):351. doi: 10.1038/s42003-022-03319-7. Commun Biol. 2022. PMID: 35414121 Free PMC article.
iDoComp: a compression scheme for assembled genomes.
Ochoa I, Hernaez M, Weissman T. Ochoa I, et al. Among authors: hernaez m. Bioinformatics. 2015 Mar 1;31(5):626-33. doi: 10.1093/bioinformatics/btu698. Epub 2014 Oct 24. Bioinformatics. 2015. PMID: 25344501 Free PMC article.
Aligned genomic data compression via improved modeling.
Ochoa I, Hernaez M, Weissman T. Ochoa I, et al. Among authors: hernaez m. J Bioinform Comput Biol. 2014 Dec;12(6):1442002. doi: 10.1142/S0219720014420025. J Bioinform Comput Biol. 2014. PMID: 25395305 Free PMC article.
QVZ: lossy compression of quality values.
Malysa G, Hernaez M, Ochoa I, Rao M, Ganesan K, Weissman T. Malysa G, et al. Among authors: hernaez m. Bioinformatics. 2015 Oct 1;31(19):3122-9. doi: 10.1093/bioinformatics/btv330. Epub 2015 May 28. Bioinformatics. 2015. PMID: 26026138 Free PMC article.
GeneComp, a new reference-based compressor for SAM files.
Long R, Hernaez M, Ochoa I, Weissman T. Long R, et al. Among authors: hernaez m. Proc Data Compress Conf. 2017 Apr;2017:330-339. doi: 10.1109/DCC.2017.76. Epub 2017 May 11. Proc Data Compress Conf. 2017. PMID: 29046896 Free PMC article.
A cluster-based approach to compression of Quality Scores.
Hernaez M, Ochoa I, Weissman T. Hernaez M, et al. Proc Data Compress Conf. 2016 Mar-Apr;2016:261-270. doi: 10.1109/DCC.2016.49. Epub 2016 Dec 19. Proc Data Compress Conf. 2016. PMID: 29057318 Free PMC article.
Denoising of Quality Scores for Boosted Inference and Reduced Storage.
Ochoa I, Hernaez M, Goldfeder R, Weissman T, Ashley E. Ochoa I, et al. Among authors: hernaez m. Proc Data Compress Conf. 2016 Mar-Apr;2016:251-260. doi: 10.1109/DCC.2016.92. Epub 2016 Dec 19. Proc Data Compress Conf. 2016. PMID: 29098178 Free PMC article.
104 results