Mark Borodovsky - Publications, H-index & Citations

Mark Borodovsky

university system of georgia

55H指数

166论文数

3.4W被引数

收录论文 39

发表时间

BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA BRAKER3: 使用rna-seq和genemark-etp，AUGUSTUS和TSEBRA的蛋白质证据进行全自动基因组注释

GENOME RESEARCH

IF5.5

2024-06-12

OAAI

Gabriel, Lars; Bruna, Tomas; Hoff, Katharina J.; Ebel, Matthis; Lomsadze, Alexandre; Borodovsky, Mark; Stanke, Mario

GeneMark-HM: improving gene prediction in DNA sequences of human microbiome

genomics proteomics bioinformatics

IF2.8

2021-05-26

OAAI

Lomsadze, Alexandre; Bonny, Christophe; Strozzi, Francesco; Borodovsky, Mark

BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP plus and AUGUSTUS supported by a protein database

genomics proteomics bioinformatics

IF2.8

2021-01-06

792

OAAI

Bruna, Tomas; Hoff, Katharina J.; Lomsadze, Alexandre; Stanke, Mario; Borodovsky, Mark

Bioinformatics Pipeline for Human Papillomavirus Short Read Genomic Sequences Classification Using Support Vector Machine 使用支持向量机进行人乳头瘤病毒短读基因组序列分类的生物信息学管道

VIRUSES-BASEL

IF3.5

2020-06-30

OAAI

Lomsadze, Alexandre; Li, Tengguo; Rajeevan, Mangalathu S.; Unger, Elizabeth R.; Borodovsky, Mark

GeneMark-EP plus : eukaryotic gene prediction with self-training in the space of genes and proteins

genomics proteomics bioinformatics

IF2.8

2020-05-13

211

OAAI

Bruna, Tomas; Lomsadze, Alexandre; Borodovsky, Mark

Toward unrestricted use of public genomic data 不受限制地使用公共基因组数据

SCIENCE

IF45.8

2019-01-25

OAAI

Amann, Rudolf I.; Baichoo, Shakuntala; Blencowe, Benjamin J.; Bork, Peer; Borodovsky, Mark; Brooksbank, Cath; Chain, Patrick S. G.; Colwell, Rita R.; Daffonchio, Daniele G.; Danchin, Antoine; de Lorenzo, Victor; Dorrestein, Pieter C.; Finn, Robert D.; Fraser, Claire M.; Gilbert, Jack A.; Hallam, Steven J.; Hugenholtz, Philip; Ioannidis, John P. A.; Jansson, Janet K.; Kim, Jihyun F.; Klenk, Hans-Peter; Klotz, Martin G.; Knight, Rob; Konstantinidis, Konstantinos T.; Kyrpides, Nikos C.; Mason, Christopher E.; McHardy, Alice C.; Meyer, Folker; Ouzounis, Christos A.; Patrinos, Aristides A. N.; Podar, Mircea; Pollard, Katherine S.; Ravel, Jacques; Munoz, Alejandro Reyes; Roberts, Richard J.; Rossello-Mora, Ramon; Sansone, Susanna-Assunta; Schloss, Patrick D.; Schriml, Lynn M.; Setubal, Jogo C.; Sorek, Rotem; Stevens, Rick L.; Tiedje, James M.; Turjanski, Adrian; Tyson, Gene W.; Ussery, David W.; Weinstock, George M.; White, Owen; Whitman, William B.; Xenarios, Ioannis

Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes

GENOME RESEARCH

IF5.5

2018-05-17

130

OAAI

Lomsadze, Alexandre; Gemayel, Karl; Tang, Shiyuyun; Borodovsky, Mark

Prediction of lncRNAs and their interactions with nucleic acids: benchmarking bioinformatics tools 预测lncRNAs及其与核酸的相互作用: 基准生物信息学工具

BRIEFINGS IN BIOINFORMATICS

IF7.7

2018-04-24

PREAI

Antonov, Ivan V.; Mazurov, Evgeny; Borodovsky, Mark; Medvedeva, Yulia A.

The genome sequence and transcriptome of Potentilla micrantha and their comparison to Fragaria vesca (the woodland strawberry)

GIGASCIENCE

IF3.9

2017-02-15

OAAI

Buti, Matteo; Moretto, Marco; Barghini, Elena; Mascagni, Flavia; Natali, Lucia; Brilli, Matteo; Lomsadze, Alexandre; Sonego, Paolo; Giongo, Lara; Alonge, Michael; Velasco, Riccardo; Varotto, Claudio; Surbanovski, Nada; Borodovsky, Mark; Ward, Judson A.; Engelen, Kristof; Cavallini, Andrea; Cestaro, Alessandro; Sargent, Daniel James

NCBI prokaryotic genome annotation pipeline

NUCLEIC ACIDS RESEARCH

IF13.1

2016-06-24

4.9K

OAAI

Tatusova, Tatiana; DiCuccio, Michael; Badretdin, Azat; Chetvernin, Vyacheslav; Nawrocki, Eric P.; Zaslavsky, Leonid; Lomsadze, Alexandre; Pruitt, Kimd.; Borodovsky, Mark; Ostell, James

Identification of protein coding regions in RNA transcripts RNA转录本中蛋白质编码区的鉴定

NUCLEIC ACIDS RESEARCH

IF13.1

2015-04-13

286

OAAI

Tang, Shiyuyun; Lomsadze, Alexandre; Borodovsky, Mark

Integration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithm

NUCLEIC ACIDS RESEARCH

IF13.1

2014-07-02

351

OAAI

Lomsadze, Alexandre; Burns, Paul D.; Borodovsky, Mark

Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication 不同的普通话，柚子和橙子基因组的测序揭示了柑橘驯化过程中混合的复杂历史

NATURE BIOTECHNOLOGY

IF41.7

2014-06-08

549

OAAI

Wu, G. Albert; Prochnik, Simon; Jenkins, Jerry; Salse, Jerome; Hellsten, Uffe; Murat, Florent; Perrier, Xavier; Ruiz, Manuel; Scalabrin, Simone; Terol, Javier; Takita, Marco Aurelio; Labadie, Karine; Poulain, Julie; Couloux, Arnaud; Jabbari, Kamel; Cattonaro, Federica; Del Fabbro, Cristian; Pinosio, Sara; Zuccolo, Andrea; Chapman, Jarrod; Grimwood, Jane; Tadeo, Francisco R.; Estornell, Leandro H.; Munoz-Sanz, Juan V.; Ibanez, Victoria; Herrero-Ortega, Amparo; Aleza, Pablo; Perez-Perez, Julian; Ramon, Daniel; Brunel, Dominique; Luro, Francois; Chen, Chunxian; Farmerie, William G.; Desany, Brian; Kodira, Chinnappa; Mohiuddin, Mohammed; Harkins, Tim; Fredrikson, Karin; Burns, Paul; Lomsadze, Alexandre; Borodovsky, Mark; Reforgiato, Giuseppe; Freitas-Astua, Juliana; Quetier, Francis; Navarro, Luis; Roose, Mikeal; Wincker, Patrick; Schmutz, Jeremy; Morgante, Michele; Machado, Marcos Antonio; Talon, Manuel; Jaillon, Olivier; Ollitrault, Patrick; Gmitter, Frederick; Rokhsar, Daniel

The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle

NATURE COMMUNICATIONS

IF15.7

2014-02-19

227

OAAI

Wang, W.; Haberer, G.; Gundlach, H.; Glaesser, C.; Nussbaumer, T.; Luo, M. C.; Lomsadze, A.; Borodovsky, M.; Kerstetter, R. A.; Shanklin, J.; Byrant, D. W.; Mockler, T. C.; Appenroth, K. J.; Grimwood, J.; Jenkins, J.; Chow, J.; Choi, C.; Adam, C.; Cao, X. -H.; Fuchs, J.; Schubert, I.; Rokhsar, D.; Schmutz, J.; Michael, T. P.; Mayer, K. F. X.; Messing, J.

UnSplicer: mapping spliced RNA-seq reads in compact genomes and filtering noisy splicing

NUCLEIC ACIDS RESEARCH

IF13.1

2013-11-19

OAAI

Burns, Paul D.; Li, Yang; Ma, Jian; Borodovsky, Mark

Identification of the nature of reading frame transitions observed in prokaryotic genomes

NUCLEIC ACIDS RESEARCH

IF13.1

2013-05-06

OAAI

Antonov, Ivan; Coakley, Arthur; Atkins, John F.; Baranov, Pavel V.; Borodovsky, Mark

TrueSight: a new algorithm for splice junction detection using RNA-seq

NUCLEIC ACIDS RESEARCH

IF13.1

2012-12-18

OAAI

Li, Yang; Li-Byarlay, Hongmei; Burns, Paul; Borodovsky, Mark; Robinson, Gene E.; Ma, Jian

GeneTack database: genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences

NUCLEIC ACIDS RESEARCH

IF13.1

2012-11-17

OAAI

Antonov, Ivan; Baranov, Pavel; Borodovsky, Mark

The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation

GENOME BIOLOGY

IF9.4

2012-05-25

417

OAAI

Blanc, Guillaume; Agarkova, Irina; Grimwood, Jane; Kuo, Alan; Brueggeman, Andrew; Dunigan, David D.; Gurnon, James; Ladunga, Istvan; Lindquist, Erika; Lucas, Susan; Pangilinan, Jasmyn; Proeschold, Thomas; Salamov, Asaf; Schmutz, Jeremy; Weeks, Donald; Yamada, Takashi; Lomsadze, Alexandre; Borodovsky, Mark; Claverie, Jean-Michel; Grigoriev, Igor V.; Van Etten, James L.

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications

IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS

IF3.4

2011-07-01

PREAI

Borodovsky, Mark; Przytycka, Teresa M.; Rajasekaran, Sanguthevar; Zelikovsky, Alexander

研究方向