default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDBibTeX records: Serghei Mangul
@article{DBLP:journals/jcb/RondelFHJKMRZ25,
author = {Filipp Rondel and
Hafsa Farooq and
Roya Hosseini and
Akshay Juyal and
Sergey Knyazev and
Serghei Mangul and
Artem S. Rogovskyy and
Alexander Zelikovsky},
title = {Estimating Enzyme Expression and Metabolic Pathway Activity in \emph{Borreliella}-Infected
and Uninfected Mice},
journal = {J. Comput. Biol.},
volume = {32},
number = {2},
pages = {188--197},
year = {2025},
url = {https://doi.org/10.1089/cmb.2024.0564},
doi = {10.1089/CMB.2024.0564},
timestamp = {Fri, 04 Jul 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/RondelFHJKMRZ25.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/SarwalLYSCEM24,
author = {Varuni Sarwal and
Seungmo Lee and
Jianzhi Yang and
Sriram Sankararaman and
Mark Chaisson and
Eleazar Eskin and
Serghei Mangul},
title = {{VISTA:} an integrated framework for structural variant discovery},
journal = {Briefings Bioinform.},
volume = {25},
number = {3},
year = {2024},
url = {https://doi.org/10.1093/bib/bbae462},
doi = {10.1093/BIB/BBAE462},
timestamp = {Sun, 10 Aug 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/SarwalLYSCEM24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerj-cs/SharmaADPMCBFVSGMDNAM24,
author = {Nitesh Kumar Sharma and
Ram Ayyala and
Dhrithi Deshpande and
Yesha Patel and
Viorel Munteanu and
Dumitru Ciorba and
Viorel Bostan and
Andrada Fiscutean and
Mohammad Vahed and
Aditya Sarkar and
Ruiwei Guo and
Andrew Moore and
Nicholas Darci{-}Maher and
Nicole Nogoy and
Malak S. Abedalthagafi and
Serghei Mangul},
title = {Analytical code sharing practices in biomedical research},
journal = {PeerJ Comput. Sci.},
volume = {10},
pages = {e2066},
year = {2024},
url = {https://doi.org/10.7717/peerj-cs.2066},
doi = {10.7717/PEERJ-CS.2066},
timestamp = {Mon, 03 Mar 2025 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/peerj-cs/SharmaADPMCBFVSGMDNAM24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/MohebbiZMCS24,
author = {Fatemeh Mohebbi and
Alexander Zelikovsky and
Serghei Mangul and
Gerardo Chowell and
Pavel Skums},
editor = {Jian Ma},
title = {Community Structure and Temporal Dynamics of Viral Epistatic Networks
Allow for Early Detection of Emerging Variants with Altered Phenotypes},
booktitle = {Research in Computational Molecular Biology - 28th Annual International
Conference, {RECOMB} 2024, Cambridge, MA, USA, April 29 - May 2, 2024,
Proceedings},
series = {Lecture Notes in Computer Science},
volume = {14758},
pages = {356--359},
publisher = {Springer},
year = {2024},
url = {https://doi.org/10.1007/978-1-0716-3989-4\_30},
doi = {10.1007/978-1-0716-3989-4\_30},
timestamp = {Tue, 18 Jun 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/recomb/MohebbiZMCS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2401-02965,
author = {Yu{-}Ning Huang and
Michael I. Love and
Cynthia Flaire Ronkowski and
Dhrithi Deshpande and
Lynn M. Schriml and
Annie Wong{-}Beringer and
Barend Mons and
Russell Corbett{-}Detig and
Christopher I Hunter and
Jason H. Moore and
Lana X. Garmire and
T. B. K. Reddy and
Winston A. Hide and
Atul J. Butte and
Mark D. Robinson and
Serghei Mangul},
title = {Perceptual and technical barriers in sharing and formatting metadata
accompanying omics studies},
journal = {CoRR},
volume = {abs/2401.02965},
year = {2024},
url = {https://doi.org/10.48550/arXiv.2401.02965},
doi = {10.48550/ARXIV.2401.02965},
eprinttype = {arXiv},
eprint = {2401.02965},
timestamp = {Tue, 23 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2401-02965.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/PengNCVPMNHKMBNPABARM23,
author = {Kerui Peng and
Theodore S. Nowicki and
Katie Campbell and
Mohammad Vahed and
Dandan Peng and
Yiting Meng and
Anish Nagareddy and
Yu{-}Ning Huang and
Aaron Karlsberg and
Zachary Miller and
Jaqueline J. Brito and
Brian B. Nadel and
Victoria M. Pak and
Malak S. Abedalthagafi and
Amanda M. Burkhardt and
Houda Alachkar and
Antoni Ribas and
Serghei Mangul},
title = {Rigorous benchmarking of T-cell receptor repertoire profiling methods
for cancer {RNA} sequencing},
journal = {Briefings Bioinform.},
volume = {24},
number = {4},
year = {2023},
url = {https://doi.org/10.1093/bib/bbad220},
doi = {10.1093/BIB/BBAD220},
timestamp = {Sun, 06 Oct 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/PengNCVPMNHKMBNPABARM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/HuangVPAM23,
author = {Yu{-}Ning Huang and
Mohammad Vahed and
Kerui Peng and
Houda Alachkar and
Serghei Mangul},
title = {Response to 'comment on rigorous benchmarking of {T} cell receptor
repertoire profiling methods for cancer {RNA} sequencing' by Davydov
A.N.; Bolotin D.A.; Poslavsky S. V. and Chudakov {D.M}},
journal = {Briefings Bioinform.},
volume = {24},
number = {6},
year = {2023},
url = {https://doi.org/10.1093/bib/bbad355},
doi = {10.1093/BIB/BBAD355},
timestamp = {Sun, 06 Oct 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/HuangVPAM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/isbra/2023,
editor = {Xuan Guo and
Serghei Mangul and
Murray Patterson and
Alexander Zelikovsky},
title = {Bioinformatics Research and Applications - 19th International Symposium,
{ISBRA} 2023, Wroc{\l}aw, Poland, October 9-12, 2023, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {14248},
publisher = {Springer},
year = {2023},
url = {https://doi.org/10.1007/978-981-99-7074-2},
doi = {10.1007/978-981-99-7074-2},
isbn = {978-981-99-7073-5},
timestamp = {Tue, 10 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/isbra/2023.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2310-16908,
author = {Maximilian{-}David Rumpf and
Mohammed Alser and
Arvid E. Gollwitzer and
Jo{\"{e}}l Lindegger and
Nour Almadhoun and
Can Firtina and
Serghei Mangul and
Onur Mutlu},
title = {SequenceLab: {A} Comprehensive Benchmark of Computational Methods
for Comparing Genomic Sequences},
journal = {CoRR},
volume = {abs/2310.16908},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2310.16908},
doi = {10.48550/ARXIV.2310.16908},
eprinttype = {arXiv},
eprint = {2310.16908},
timestamp = {Fri, 04 Jul 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2310-16908.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2311-02029,
author = {Arvid E. Gollwitzer and
Mohammed Alser and
Joel Bergtholdt and
Jo{\"{e}}l Lindegger and
Maximilian{-}David Rumpf and
Can Firtina and
Serghei Mangul and
Onur Mutlu},
title = {MetaFast: Enabling Fast Metagenomic Classification via Seed Counting
and Edit Distance Approximation},
journal = {CoRR},
volume = {abs/2311.02029},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2311.02029},
doi = {10.48550/ARXIV.2311.02029},
eprinttype = {arXiv},
eprint = {2311.02029},
timestamp = {Fri, 04 Jul 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2311-02029.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/SarwalNAKSCLRDL22,
author = {Varuni Sarwal and
Sebastian Niehus and
Ram Ayyala and
Minyoung Kim and
Aditya Sarkar and
Sei Chang and
Angela Lu and
Neha Rajkumar and
Nicholas Darci{-}Maher and
Russell Littman and
Karishma Chhugani and
Arda Soylev and
Zoia Comarova and
Emily E. Wesel and
Jacqueline Castellanos and
Rahul Chikka and
Margaret G. Distler and
Eleazar Eskin and
Jonathan Flint and
Serghei Mangul},
title = {A comprehensive benchmarking of WGS-based deletion structural variant
callers},
journal = {Briefings Bioinform.},
volume = {23},
number = {4},
year = {2022},
url = {https://doi.org/10.1093/bib/bbac221},
doi = {10.1093/BIB/BBAC221},
timestamp = {Sun, 18 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/SarwalNAKSCLRDL22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ipps/BaykalBM22,
author = {Pelin Icer Baykal and
Niko Beerenwinkel and
Serghei Mangul},
title = {Reproducibility of Bioinformatics Tools},
booktitle = {{IEEE} International Parallel and Distributed Processing Symposium,
{IPDPS} Workshops 2022, Lyon, France, May 30 - June 3, 2022},
pages = {216},
publisher = {{IEEE}},
year = {2022},
url = {https://doi.org/10.1109/IPDPSW55747.2022.00046},
doi = {10.1109/IPDPSW55747.2022.00046},
timestamp = {Mon, 08 Aug 2022 16:44:20 +0200},
biburl = {https://dblp.org/rec/conf/ipps/BaykalBM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ipps/SarwalMK22,
author = {Varuni Sarwal and
Serghei Mangul and
David Koslicki},
title = {{TAMPA:} interpretable analysis and visualization of metagenomics-based
taxon abundance profiles},
booktitle = {{IEEE} International Parallel and Distributed Processing Symposium,
{IPDPS} Workshops 2022, Lyon, France, May 30 - June 3, 2022},
pages = {217},
publisher = {{IEEE}},
year = {2022},
url = {https://doi.org/10.1109/IPDPSW55747.2022.00047},
doi = {10.1109/IPDPSW55747.2022.00047},
timestamp = {Mon, 08 Aug 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ipps/SarwalMK22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/isbra/2022,
editor = {Mukul S. Bansal and
Zhipeng Cai and
Serghei Mangul},
title = {Bioinformatics Research and Applications - 18th International Symposium,
{ISBRA} 2022, Haifa, Israel, November 14-17, 2022, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {13760},
publisher = {Springer},
year = {2022},
url = {https://doi.org/10.1007/978-3-031-23198-8},
doi = {10.1007/978-3-031-23198-8},
isbn = {978-3-031-23197-1},
timestamp = {Mon, 09 Jan 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/isbra/2022.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2203-16261,
author = {Mohammed Alser and
Sharon Waymost and
Ram Ayyala and
Brendan Lawlor and
Richard J. Abdill and
Neha Rajkumar and
Nathan LaPierre and
Jaqueline J. Brito and
Andre M. Ribeiro{-}dos{-}Santos and
Can Firtina and
Nour Almadhoun and
Varuni Sarwal and
Eleazar Eskin and
Qiyang Hu and
Derek Strong and
Byoung{-}Do Kim and
Malak S. Abedalthagafi and
Onur Mutlu and
Serghei Mangul},
title = {Packaging, containerization, and virtualization of computational omics
methods: Advances, challenges, and opportunities},
journal = {CoRR},
volume = {abs/2203.16261},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2203.16261},
doi = {10.48550/ARXIV.2203.16261},
eprinttype = {arXiv},
eprint = {2203.16261},
timestamp = {Fri, 04 Jul 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2203-16261.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/NadelOSMMMMKSPM21,
author = {Brian B. Nadel and
Meritxell Oliva and
Benjamin L. Shou and
Keith Mitchell and
Feiyang Ma and
Dennis J. Montoya and
Alice Mouton and
Sarah Kim{-}Hellmuth and
Barbara E. Stranger and
Matteo Pellegrini and
Serghei Mangul},
title = {Systematic evaluation of transcriptomics-based deconvolution methods
and references using thousands of clinical samples},
journal = {Briefings Bioinform.},
volume = {22},
number = {6},
year = {2021},
url = {https://doi.org/10.1093/bib/bbab265},
doi = {10.1093/BIB/BBAB265},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/NadelOSMMMMKSPM21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbra/KnyazevNGSASHBS21,
author = {Sergey Knyazev and
Daniel Novikov and
Mark Grinshpon and
Harman Singh and
Ram Ayyala and
Varuni Sarwal and
Roya Hosseini and
Pelin Icer Baykal and
Pavel Skums and
Ellsworth Campbell and
Serghei Mangul and
Alex Zelikovsky},
editor = {Yanjie Wei and
Min Li and
Pavel Skums and
Zhipeng Cai},
title = {A Novel Network Representation of SARS-CoV-2 Sequencing Data},
booktitle = {Bioinformatics Research and Applications - 17th International Symposium,
{ISBRA} 2021, Shenzhen, China, November 26-28, 2021, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {13064},
pages = {165--175},
publisher = {Springer},
year = {2021},
url = {https://doi.org/10.1007/978-3-030-91415-8\_15},
doi = {10.1007/978-3-030-91415-8\_15},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/isbra/KnyazevNGSASHBS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/MitchellBMWKCMK20,
author = {Keith Mitchell and
Jaqueline J. Brito and
Igor Mandric and
Qiaozhen Wu and
Sergey Knyazev and
Sei Chang and
Lana S. Martin and
Aaron Karlsberg and
Ekaterina Gerasimov and
Russell Littman and
Brian L. Hill and
Nicholas C. Wu and
Harry (Taegyun) Yang and
Kevin Hsieh and
Linus Chen and
Eli Littman and
Taylor Shabani and
German Enik and
Douglas Yao and
Ren Sun and
Jan Schroeder and
Eleazar Eskin and
Alex Zelikovsky and
Pavel Skums and
Mihai Pop and
Serghei Mangul},
title = {Benchmarking of computational error-correction methods for next-generation
sequencing data},
booktitle = {{BCB} '20: 11th {ACM} International Conference on Bioinformatics,
Computational Biology and Health Informatics, Virtual Event, USA,
September 21-24, 2020},
pages = {63:1},
publisher = {{ACM}},
year = {2020},
url = {https://doi.org/10.1145/3388440.3414209},
doi = {10.1145/3388440.3414209},
timestamp = {Sun, 19 Jan 2025 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bcb/MitchellBMWKCMK20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1909-12469,
author = {Jaqueline J. Brito and
Thiago Mosqueiro and
Douglas J. Chapski and
Juan De la Hoz and
Paulo Matias and
Lana S. Martin and
Matteo Pellegrinni and
Serghei Mangul},
title = {Telescope: an interactive tool for managing large scale analysis from
mobile devices},
journal = {CoRR},
volume = {abs/1909.12469},
year = {2019},
url = {http://arxiv.org/abs/1909.12469},
eprinttype = {arXiv},
eprint = {1909.12469},
timestamp = {Fri, 13 Nov 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-1909-12469.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/MangulYZ18,
author = {Serghei Mangul and
Harry (Taegyun) Yang and
Noah Zaitlen},
editor = {Amarda Shehu and
Cathy H. Wu and
Christina Boucher and
Jing Li and
Hongfang Liu and
Mihai Pop},
title = {{ROP:} Dumpster Diving in RNA-sequencing to Find the Source of 1 Trillion
Reads Across Diverse Adult Human Tissues},
booktitle = {Proceedings of the 2018 {ACM} International Conference on Bioinformatics,
Computational Biology, and Health Informatics, {BCB} 2018, Washington,
DC, USA, August 29 - September 01, 2018},
pages = {573},
publisher = {{ACM}},
year = {2018},
url = {https://doi.org/10.1145/3233547.3233726},
doi = {10.1145/3233547.3233726},
timestamp = {Mon, 10 Jun 2024 20:41:10 +0200},
biburl = {https://dblp.org/rec/conf/bcb/MangulYZ18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/ArtyomenkoWMESZ17,
author = {Alexander Artyomenko and
Nicholas C. Wu and
Serghei Mangul and
Eleazar Eskin and
Ren Sun and
Alex Zelikovsky},
title = {Long Single-Molecule Reads Can Resolve the Complexity of the Influenza
Virus Composed of Rare, Closely Related Mutant Variants},
journal = {J. Comput. Biol.},
volume = {24},
number = {6},
pages = {558--570},
year = {2017},
url = {https://doi.org/10.1089/cmb.2016.0146},
doi = {10.1089/CMB.2016.0146},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/ArtyomenkoWMESZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/LiKTDDCHZSSLGBM17,
author = {Xin Li and
Yungil Kim and
Emily K. Tsang and
Joe R. Davis and
Farhan N. Damani and
Colby Chiang and
Gaelen T. Hess and
Zachary Zappala and
Benjamin J. Strober and
Alexandra J. Scott and
Amy Li and
Andrea Ganna and
Michael C. Bassik and
Jason D. Merker and
Fran{\c{c}}ois Aguet and
Kristin G. Ardlie and
Beryl B. Cummings and
Ellen T. Gelfand and
Gad Getz and
Kane Hadley and
Robert E. Handsaker and
Katherine H. Huang and
Seva Kashin and
Konrad J. Karczewski and
Monkol Lek and
Xiao Li and
Daniel G. MacArthur and
Jared L. Nedzel and
Duyen T. Nguyen and
Michael S. Noble and
Ayellet V. Segr{\`{e}} and
Casandra A. Trowbridge and
Taru Tukiainen and
Nathan S. Abell and
Brunilda Balliu and
Ruth Barshir and
Omer Basha and
Alexis J. Battle and
Gireesh K. Bogu and
Andrew Brown and
Christopher D. Brown and
Stephane E. Castel and
Lin S. Chen and
Donald F. Conrad and
Nancy J. Cox and
Olivier Delaneau and
Emmanouil T. Dermitzakis and
Barbara E. Engelhardt and
Eleazar Eskin and
Pedro G. Ferreira and
Laure Fr{\'{e}}sard and
Eric R. Gamazon and
Diego Garrido{-}Mart{\'{\i}}n and
Ariel D. H. Gewirtz and
Genna Gliner and
Michael J. Gloudemans and
Roderic Guig{\'{o}} and
Ira M. Hall and
Buhm Han and
Yuan He and
Farhad Hormozdiari and
Cedric Howald and
Hae Kyung Im and
Brian Jo and
Eun Yong Kang and
Sarah Kim{-}Hellmuth and
Tuuli Lappalainen and
Gen Li and
Boxiang Liu and
Serghei Mangul and
Mark I. McCarthy and
Ian C. McDowell and
Pejman Mohammadi and
Jean Monlong and
Stephen B. Montgomery},
title = {The impact of rare variation on gene expression across tissues},
journal = {Nat.},
volume = {550},
number = {7675},
pages = {239--243},
year = {2017},
url = {https://doi.org/10.1038/nature24267},
doi = {10.1038/NATURE24267},
timestamp = {Mon, 03 Mar 2025 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nature/LiKTDDCHZSSLGBM17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/MangulK16,
author = {Serghei Mangul and
David Koslicki},
title = {Reference-free comparison of microbial communities via de Bruijn graphs},
booktitle = {Proceedings of the 7th {ACM} International Conference on Bioinformatics,
Computational Biology, and Health Informatics, {BCB} 2016, Seattle,
WA, USA, October 2-5, 2016},
pages = {68--77},
publisher = {{ACM}},
year = {2016},
url = {https://doi.org/10.1145/2975167.2975174},
doi = {10.1145/2975167.2975174},
timestamp = {Tue, 06 Nov 2018 16:59:10 +0100},
biburl = {https://dblp.org/rec/conf/bcb/MangulK16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbra/MangulYHTZE16,
author = {Serghei Mangul and
Harry (Taegyun) Yang and
Farhad Hormozdiari and
Elizabeth Tseng and
Alex Zelikovsky and
Eleazar Eskin},
editor = {Anu G. Bourgeois and
Pavel Skums and
Xiang Wan and
Alex Zelikovsky},
title = {HapIso: An Accurate Method for the Haplotype-Specific Isoforms Reconstruction
from Long Single-Molecule Reads},
booktitle = {Bioinformatics Research and Applications - 12th International Symposium,
{ISBRA} 2016, Minsk, Belarus, June 5-8, 2016, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {9683},
pages = {80--92},
publisher = {Springer},
year = {2016},
url = {https://doi.org/10.1007/978-3-319-38782-6\_7},
doi = {10.1007/978-3-319-38782-6\_7},
timestamp = {Wed, 25 Sep 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/isbra/MangulYHTZE16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/ArtyomenkoWMESZ16,
author = {Alexander Artyomenko and
Nicholas C. Wu and
Serghei Mangul and
Eleazar Eskin and
Ren Sun and
Alex Zelikovsky},
editor = {Mona Singh},
title = {Long Single-Molecule Reads Can Resolve the Complexity of the Influenza
Virus Composed of Rare, Closely Related Mutant Variants},
booktitle = {Research in Computational Molecular Biology - 20th Annual Conference,
{RECOMB} 2016, Santa Monica, CA, USA, April 17-21, 2016, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {9649},
pages = {164--175},
publisher = {Springer},
year = {2016},
url = {https://doi.org/10.1007/978-3-319-31957-5\_12},
doi = {10.1007/978-3-319-31957-5\_12},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/recomb/ArtyomenkoWMESZ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/ArtyomenkoWMESZ15,
author = {Alexander Artyomenko and
Nicholas C. Wu and
Serghei Mangul and
Eleazar Eskin and
Ren Sun and
Alex Zelikovsky},
title = {2SNV: Quasispecies reconstruction from PacBio reads},
booktitle = {5th {IEEE} International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2015, Miami, FL, USA, October 15-17,
2015},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2015},
url = {https://doi.org/10.1109/ICCABS.2015.7344730},
doi = {10.1109/ICCABS.2015.7344730},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/ArtyomenkoWMESZ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MangulWMZSE14,
author = {Serghei Mangul and
Nicholas C. Wu and
Nicholas Mancuso and
Alex Zelikovsky and
Ren Sun and
Eleazar Eskin},
title = {Accurate viral population assembly from ultra-deep sequencing data},
journal = {Bioinform.},
volume = {30},
number = {12},
pages = {329--337},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btu295},
doi = {10.1093/BIOINFORMATICS/BTU295},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MangulWMZSE14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/ArtyomenkoMWESZ14,
author = {Alexander Artyomenko and
Serghei Mangul and
Nicholas C. Wu and
Eleazar Eskin and
Ren Sun and
Alex Zelikovsky},
title = {Reconstruction of influenza a virus variants from PacBio reads},
booktitle = {{IEEE} 4th International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2014, Miami, FL, USA, June 2-4, 2014},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/ICCABS.2014.6863935},
doi = {10.1109/ICCABS.2014.6863935},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/ArtyomenkoMWESZ14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/CaciulaGAMLMZ14,
author = {Adrian Caciula and
Olga Glebova and
Alexander Artyomenko and
Serghei Mangul and
James Lindsay and
Ion I. Mandoiu and
Alex Zelikovsky},
title = {Deterministic regression algorithm for transcriptome frequency estimation},
booktitle = {{IEEE} 4th International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2014, Miami, FL, USA, June 2-4, 2014},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/ICCABS.2014.6863946},
doi = {10.1109/ICCABS.2014.6863946},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/CaciulaGAMLMZ14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/MangulWMZSE14,
author = {Serghei Mangul and
Nicholas C. Wu and
Nicholas Mancuso and
Alex Zelikovsky and
Ren Sun and
Eleazar Eskin},
title = {{VGA:} {A} method for viral quasispecies assembly from ultra-deep
sequencing data},
booktitle = {{IEEE} 4th International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2014, Miami, FL, USA, June 2-4, 2014},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/ICCABS.2014.6863932},
doi = {10.1109/ICCABS.2014.6863932},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/MangulWMZSE14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/CaciulaZMLM13,
author = {Adrian Caciula and
Alex Zelikovsky and
Serghei Mangul and
James Lindsay and
Ion I. Mandoiu},
title = {Monte-Carlo Regression algorithm for isoform frequency estimation
from RNA-Seq data},
booktitle = {{IEEE} 3rd International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2013, New Orleans, LA, USA, June 12-14,
2013},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2013},
url = {https://doi.org/10.1109/ICCABS.2013.6629228},
doi = {10.1109/ICCABS.2013.6629228},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/CaciulaZMLM13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/MangulSMCZB13,
author = {Serghei Mangul and
Sahar Al Seesi and
Ion I. Mandoiu and
Adrian Caciula and
Alex Zelikovsky and
Dumitru Brinza},
title = {Transcriptome assembly and quantification from Ion Torrent RNA-Seq
data},
booktitle = {{IEEE} 3rd International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2013, New Orleans, LA, USA, June 12-14,
2013},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2013},
url = {https://doi.org/10.1109/ICCABS.2013.6629235},
doi = {10.1109/ICCABS.2013.6629235},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/MangulSMCZB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/MangulCBMZ12,
author = {Serghei Mangul and
Adrian Caciula and
Dumitru Brinza and
Ion I. Mandoiu and
Alex Zelikovsky},
title = {{TRIP:} a method for novel transcript reconstruction from paired-end
RNA-seq reads},
journal = {{BMC} Bioinform.},
volume = {13},
number = {{S-18}},
pages = {A11},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-S18-A11},
doi = {10.1186/1471-2105-13-S18-A11},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/MangulCBMZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/isb/MangulCGMZ12,
author = {Serghei Mangul and
Adrian Caciula and
Olga Glebova and
Ion I. Mandoiu and
Alex Zelikovsky},
title = {Improved transcriptome quantification and reconstruction from RNA-Seq
reads using partial annotations},
journal = {Silico Biol.},
volume = {11},
number = {5-6},
pages = {251--261},
year = {2012},
url = {https://doi.org/10.3233/ISB-2012-0459},
doi = {10.3233/ISB-2012-0459},
timestamp = {Thu, 20 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/isb/MangulCGMZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/MangulCSBBK12,
author = {Serghei Mangul and
Adrian Caciula and
Sahar Al Seesi and
Dumitru Brinza and
Abdul Rouf Banday and
Rahul Kanadia},
editor = {Sanjay Ranka and
Tamer Kahveci and
Mona Singh},
title = {An integer programming approach to novel transcript reconstruction
from paired-end RNA-Seq reads},
booktitle = {{ACM} International Conference on Bioinformatics, Computational Biology
and Biomedicine, BCB' 12, Orlando, FL, {USA} - October 08 - 10, 2012},
pages = {369--376},
publisher = {{ACM}},
year = {2012},
url = {https://doi.org/10.1145/2382936.2382983},
doi = {10.1145/2382936.2382983},
timestamp = {Tue, 01 Apr 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/bcb/MangulCSBBK12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/MangulCMZ12,
author = {Serghei Mangul and
Adrian Caciula and
Ion I. Mandoiu and
Alexander Zelikovsky},
editor = {Sorin Istrail and
Ion I. Mandoiu and
Mihai Pop and
Sanguthevar Rajasekaran and
John L. Spouge},
title = {Workshop: Novel transcript reconstruction from paired-end RNA-Seq
reads using fragment length distribution},
booktitle = {{IEEE} 2nd International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2012, Las Vegas, NV, USA, February
23-25, 2012},
pages = {1},
publisher = {{IEEE} Computer Society},
year = {2012},
url = {https://doi.org/10.1109/ICCABS.2012.6182673},
doi = {10.1109/ICCABS.2012.6182673},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/MangulCMZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/NicolaeMMZ11,
author = {Marius Nicolae and
Serghei Mangul and
Ion I. Mandoiu and
Alex Zelikovsky},
title = {Estimation of alternative splicing isoform frequencies from RNA-Seq
data},
journal = {Algorithms Mol. Biol.},
volume = {6},
pages = {9},
year = {2011},
url = {https://doi.org/10.1186/1748-7188-6-9},
doi = {10.1186/1748-7188-6-9},
timestamp = {Fri, 13 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/NicolaeMMZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AstrovskayaTMWMBZ11,
author = {Irina Astrovskaya and
Bassam Tork and
Serghei Mangul and
Kelly Westbrooks and
Ion I. Mandoiu and
Peter Balfe and
Alex Zelikovsky},
title = {Inferring viral quasispecies spectra from 454 pyrosequencing reads},
journal = {{BMC} Bioinform.},
volume = {12},
number = {{S-6}},
pages = {S1},
year = {2011},
url = {https://doi.org/10.1186/1471-2105-12-S6-S1},
doi = {10.1186/1471-2105-12-S6-S1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AstrovskayaTMWMBZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/MangulCMZ11,
author = {Serghei Mangul and
Adrian Caciula and
Ion I. Mandoiu and
Alexander Zelikovsky},
title = {RNA-Seq based discovery and reconstruction of unannotated transcripts
in partially annotated genomes},
booktitle = {2011 {IEEE} International Conference on Bioinformatics and Biomedicine
Workshops, {BIBMW} 2011, Atlanta, GA, USA, November 12-15, 2011},
pages = {118--123},
publisher = {{IEEE} Computer Society},
year = {2011},
url = {https://doi.org/10.1109/BIBMW.2011.6112363},
doi = {10.1109/BIBMW.2011.6112363},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/MangulCMZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/AstrovskayaTMWMBZ11,
author = {Irina Astrovskaya and
Bassam Tork and
Serghei Mangul and
Kelly Westbrooks and
Ion I. Mandoiu and
Peter Balfe and
Alexander Zelikovsky},
editor = {Ion I. Mandoiu and
Satoru Miyano and
Teresa M. Przytycka and
Sanguthevar Rajasekaran},
title = {Poster: ViSpA: Viral spectrum assembling method},
booktitle = {{IEEE} 1st International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2011, Orlando, FL, USA, February 3-5,
2011},
pages = {234},
publisher = {{IEEE} Computer Society},
year = {2011},
url = {https://doi.org/10.1109/ICCABS.2011.5729888},
doi = {10.1109/ICCABS.2011.5729888},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/AstrovskayaTMWMBZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/MangulZ11,
author = {Serghei Mangul and
Alexander Zelikovsky},
editor = {Ion I. Mandoiu and
Satoru Miyano and
Teresa M. Przytycka and
Sanguthevar Rajasekaran},
title = {Poster: Haplotype discovery from high-throughput sequencing data},
booktitle = {{IEEE} 1st International Conference on Computational Advances in Bio
and Medical Sciences, {ICCABS} 2011, Orlando, FL, USA, February 3-5,
2011},
pages = {255},
publisher = {{IEEE} Computer Society},
year = {2011},
url = {https://doi.org/10.1109/ICCABS.2011.5729908},
doi = {10.1109/ICCABS.2011.5729908},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/iccabs/MangulZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/MangulANTMZ11,
author = {Serghei Mangul and
Irina Astrovskaya and
Marius Nicolae and
Bassam Tork and
Ion I. Mandoiu and
Alexander Zelikovsky},
editor = {Teresa M. Przytycka and
Marie{-}France Sagot},
title = {Maximum Likelihood Estimation of Incomplete Genomic Spectrum from
{HTS} Data},
booktitle = {Algorithms in Bioinformatics - 11th International Workshop, {WABI}
2011, Saarbr{\"{u}}cken, Germany, September 5-7, 2011. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {6833},
pages = {213--224},
publisher = {Springer},
year = {2011},
url = {https://doi.org/10.1007/978-3-642-23038-7\_19},
doi = {10.1007/978-3-642-23038-7\_19},
timestamp = {Tue, 14 May 2019 10:00:40 +0200},
biburl = {https://dblp.org/rec/conf/wabi/MangulANTMZ11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/NicolaeMMZ10,
author = {Marius Nicolae and
Serghei Mangul and
Ion I. Mandoiu and
Alexander Zelikovsky},
editor = {Vincent Moulton and
Mona Singh},
title = {Estimation of Alternative Splicing isoform Frequencies from RNA-Seq
Data},
booktitle = {Algorithms in Bioinformatics, 10th International Workshop, {WABI}
2010, Liverpool, UK, September 6-8, 2010. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {6293},
pages = {202--214},
publisher = {Springer},
year = {2010},
url = {https://doi.org/10.1007/978-3-642-15294-8\_17},
doi = {10.1007/978-3-642-15294-8\_17},
timestamp = {Tue, 14 May 2019 10:00:40 +0200},
biburl = {https://dblp.org/rec/conf/wabi/NicolaeMMZ10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dagstuhl/NicolaeMMZ10,
author = {Marius Nicolae and
Serghei Mangul and
Ion I. Mandoiu and
Alex Zelikovsky},
editor = {Alberto Apostolico and
Andreas W. M. Dress and
Laxmi Parida},
title = {Estimation of alternative splicing isoform frequencies from RNA-Seq
data},
booktitle = {Structure Discovery in Biology: Motifs, Networks {\&} Phylogenies,
06.06. - 11.06.2010},
series = {Dagstuhl Seminar Proceedings},
volume = {10231},
publisher = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik, Germany},
year = {2010},
url = {http://drops.dagstuhl.de/opus/volltexte/2010/2687/},
timestamp = {Thu, 10 Jun 2021 13:02:05 +0200},
biburl = {https://dblp.org/rec/conf/dagstuhl/NicolaeMMZ10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
last updated on 2025-08-12 01:00 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by:
