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Journal Articles
- 2022
[j15]Vivekananda Sarangi
, Yeongjun Jang, Milovan Suvakov, Taejeong Bae, Liana Fasching, Shobana Sekar, Livia Tomasini, Jessica Mariani, Flora Vaccarino, Alexej Abyzov:
All2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons. PLoS Comput. Biol. 18(4) (2022)- [j14]Vivekananda Sarangi, Yeongjun Jang, Milovan Suvakov, Taejeong Bae, Liana Fasching, Shobana Sekar, Livia Tomasini, Jessica Mariani, Flora Vaccarino, Alexej Abyzov:
Correction: All2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons. PLoS Comput. Biol. 18(11): 1010703 (2022) - 2021
- [j13]Quang Tran, Alexej Abyzov:
LongAGE: defining breakpoints of genomic structural variants through optimal and memory efficient alignments of long reads. Bioinform. 37(7): 1015-1017 (2021) - 2020
- [j12]Vivekananda Sarangi, Alexandre Jourdon, Taejeong Bae, Arijit Panda, Flora Vaccarino, Alexej Abyzov:
SCELLECTOR: ranking amplification bias in single cells using shallow sequencing. BMC Bioinform. 21(1): 521 (2020) - 2017
- [j11]Yan Zhang, Shantao Li, Alexej Abyzov, Mark B. Gerstein:
Landscape and variation of novel retroduplications in 26 human populations. PLoS Comput. Biol. 13(6) (2017) - 2015
- [j10]John C. Mu, Marghoob Mohiyuddin, Jian Li, Narges Bani Asadi, Mark B. Gerstein, Alexej Abyzov, Wing H. Wong, Hugo Y. K. Lam:
VarSim: a high-fidelity simulation and validation framework for high-throughput genome sequencing with cancer applications. Bioinform. 31(9): 1469-1471 (2015) - [j9]Marghoob Mohiyuddin, John C. Mu, Jian Li, Narges Bani Asadi, Mark B. Gerstein, Alexej Abyzov, Wing H. Wong, Hugo Y. K. Lam:
MetaSV: an accurate and integrative structural-variant caller for next generation sequencing. Bioinform. 31(16): 2741-2744 (2015) - 2011
- [j8]Alexej Abyzov, Mark Gerstein:
AGE: defining breakpoints of genomic structural variants at single-nucleotide resolution, through optimal alignments with gap excision. Bioinform. 27(5): 595-603 (2011) - 2010
- [j7]Nitin Bhardwaj, Matthew B. Carson, Alexej Abyzov, Koon-Kiu Yan, Hui Lu, Mark B. Gerstein:
Analysis of Combinatorial Regulation: Scaling of Partnerships between Regulators with the Number of Governed Targets. PLoS Comput. Biol. 6(5) (2010) - 2008
- [j6]Alexej Abyzov, Alper Uzun, Phyllis R. Strauss, Valentin A. Ilyin:
An AP Endonuclease 1-DNA Polymerase β Complex: Theoretical Prediction of Interacting Surfaces. PLoS Comput. Biol. 4(4) (2008) - 2007
- [j5]Chesley M. Leslin, Alexej Abyzov, Valentin A. Ilyin:
TOPOFIT-DB, a database of protein structural alignments based on the TOPOFIT method. Nucleic Acids Res. 35(Database-Issue): 317-321 (2007) - [j4]Alper Uzun, Chesley M. Leslin, Alexej Abyzov, Valentin A. Ilyin:
Structure SNP (StSNP): a web server for mapping and modeling nsSNPs on protein structures with linkage to metabolic pathways. Nucleic Acids Res. 35(Web-Server-Issue): 384-392 (2007) - 2005
- [j3]Alexej Abyzov, Mounir Errami, Chesley M. Leslin, Valentin A. Ilyin:
Friend, an integrated analytical front-end application for bioinformatics. Bioinform. 21(18): 3677-3678 (2005) - [j2]Ihsan A. Shehadi, Alexej Abyzov, Alper Uzun, Ying Wei, Leonel F. Murga, Valentin A. Ilyin, Mary Jo Ondrechen:
Active Site Prediction for Comparative Model Structures with Thematics. J. Bioinform. Comput. Biol. 3(1): 127-144 (2005) - 2004
- [j1]Chesley M. Leslin, Alexej Abyzov, Valentin A. Ilyin:
Structural exon database, SEDB, mapping exon boundaries on multiple protein structures. Bioinform. 20(11): 1801-1803 (2004)
Conference and Workshop Papers
- 2022
- [c1]Justin Wood, Nicholas J. Matiasz, Alcino J. Silva, William Hsu, Alexej Abyzov, Wei Wang:
OpBerg: Discovering Causal Sentences Using Optimal Alignments. DaWaK 2022: 17-30
Informal and Other Publications
- 2019
- [i1]Justin Wood, Nicholas J. Matiasz, Alcino J. Silva, William Hsu, Alexej Abyzov, Wei Wang:
OpBerg: Discovering causal sentences using optimal alignments. CoRR abs/1904.02032 (2019)
Coauthor Index
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