Slim-Filter: an interactive windows-based application for illumina genome analyzer data assessment and manipulation. - Georgiy Golovko; Kamil Khanipov; Mark Rojas; Antonio Martínez-Alcántara; Jesse J. Howard; Efren Ballesteros; Sharu Gupta; William Widger; Yuriy Fofanov (BMC Bioinform., 2012)

CoCo: An application to store High-Throughput Sequencing data in compact text and binary file formats. - Kamil Khanipov; Georgiy Golovko; Mark Rojas; Levent Albayrak; Otto Dobretsberger; Maria Pimenova; Nels Olson; Sergei Chumakov; Yuriy Fofanov (BIBM, 2015)

Exploration of Natural Alignment Scoring Rules and Clustering Thresholds for Bacterial Core/Pan Genome Analysis. - Levent L. Albayrak; Kamil Khanipov; Mark Rojas; George Golovko; Maria Pimenova; Michael Kosoy; Yuriy Fofanov (BIBE, 2017)

Novel Computational Approach for Identification of Highly Mutated Integrated HIV Genomes. - Kamil Khanipov; Levent Albayrak; George Golovko; Maria Pimenova; Ioannis T. Pavlidis; Yuriy Fofanov; Khanipov K. (BIBE, 2017)

Detection of multi-dimensional co-exclusion patterns in microbial communities. - Levent Albayrak; Kamil Khanipov; George Golovko; Yuriy Fofanov (Bioinform., 2018)

Broom: application for non-redundant storage of high throughput sequencing data. - Levent Albayrak; Kamil Khanipov; George Golovko; Yuriy Fofanov (Bioinform., 2019)

Efficient identification of multiple pathways: RNA-Seq analysis of livers from 56Fe ion irradiated mice. - Anna M. Nia; Tianlong Chen 004; Brooke L. Barnette; Kamil Khanipov; Robert L. Ullrich; Suresh K. Bhavnani; Mark R. Emmett (BMC Bioinform., 2020)

Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative. - Emily R. Pfaff; Andrew T. Girvin; Davera Gabriel; Kristin Kostka; Michele Morris; Matvey B. Palchuk; Harold P. Lehmann; Benjamin R. C. Amor; Mark Bissell; Katie R. Bradwell; Sigfried Gold; Stephanie S. Hong; et al. (J. Am. Medical Informatics Assoc., 2022)

Identification of multivariable Boolean patterns in microbiome and microbial gene composition data. - George Golovko; Kamil Khanipov; Victor Reyes; Irina Pinchuk; Yuriy Fofanov (Biosyst., 2023)