Mark Borodovsky

Affiliations

Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA.

Publications (16)

Development of a workflow for identification of nuclear genotyping markers for Cyclospora cayetanensis.

Parasite (Paris, France)

Avec: Katelyn A Houghton , Alexandre Lomsadze , Subin Park , Fernanda S Nascimento , Joel Barratt , Michael J Arrowood , Erik VanRoey , Eldin Talundzic , Mark Borodovsky , Yvonne Qvarnstrom

Bioinformatics Pipeline for Human Papillomavirus Short Read Genomic Sequences Classification Using Support Vector Machine.

Viruses

Avec: Alexandre Lomsadze , Tengguo Li , Mangalathu S Rajeevan , Elizabeth R Unger , Mark Borodovsky

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

NAR genomics and bioinformatics

Avec: Tomáš Brůna , Alexandre Lomsadze , Mark Borodovsky

TSEBRA: transcript selector for BRAKER.

BMC bioinformatics

Avec: Lars Gabriel , Katharina J Hoff , Tomáš Brůna , Mark Borodovsky , Mario Stanke

BRAKER3: Fully automated genome annotation using RNA-Seq and protein evidence with GeneMark-ETP, AUGUSTUS and TSEBRA.

bioRxiv : the preprint server for biology

Avec: Lars Gabriel , Tomáš Brůna , Katharina J Hoff , Matthis Ebel , Alexandre Lomsadze , Mark Borodovsky , Mario Stanke

Prediction of lncRNAs and their interactions with nucleic acids: benchmarking bioinformatics tools.

Briefings in bioinformatics

Avec: Ivan V Antonov , Evgeny Mazurov , Mark Borodovsky , Yulia A Medvedeva

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

NAR genomics and bioinformatics

Avec: Tomáš Brůna , Katharina J Hoff , Alexandre Lomsadze , Mario Stanke , Mark Borodovsky

Disproportionate presence of adenosine in mitochondrial and chloroplast DNA of

iScience

Avec: Waleed M M El-Sayed , Alli L Gombolay , Penghao Xu , Taehwan Yang , Youngkyu Jeon , Sathya Balachander , Gary Newnam , Sijia Tao , Nicole E Bowen , Tomáš Brůna , Mark Borodovsky , Raymond F Schinazi , Baek Kim , Yongsheng Chen , Francesca Storici

StartLink and StartLink+: Prediction of Gene Starts in Prokaryotic Genomes.

Frontiers in bioinformatics

Avec: Karl Gemayel , Alexandre Lomsadze , Mark Borodovsky

GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes.

Genome research

Avec: Tomáš Brůna , Alexandre Lomsadze , Mark Borodovsky

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

NAR genomics and bioinformatics

Avec: Alexandre Lomsadze , Christophe Bonny , Francesco Strozzi , Mark Borodovsky

Whole-Genome Annotation with BRAKER.

Methods in molecular biology (Clifton, N.J.)

Avec: Katharina J Hoff , Alexandre Lomsadze , Mark Borodovsky , Mario Stanke

BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA.

Genome research

Avec: Lars Gabriel , Tomáš Brůna , Katharina J Hoff , Matthis Ebel , Alexandre Lomsadze , Mark Borodovsky , Mario Stanke

A chromosome-length genome assembly and annotation of blackberry (Rubus argutus, cv. "Hillquist").

G3 (Bethesda, Md.)

Avec: Tomáš Brůna , Rishi Aryal , Olga Dudchenko , Daniel James Sargent , Daniel Mead , Matteo Buti , Andrea Cavallini , Timo Hytönen , Javier Andrés , Melanie Pham , David Weisz , Flavia Mascagni , Gabriele Usai , Lucia Natali , Nahla Bassil , Gina E Fernandez , Alexandre Lomsadze , Mitchell Armour , Bode Olukolu , Thomas Poorten , Caitlin Britton , Jahn Davik , Hamid Ashrafi , Erez Lieberman Aiden , Mark Borodovsky , Margaret Worthington

GeneMark-ETP: Automatic Gene Finding in Eukaryotic Genomes in Consistency with Extrinsic Data.

bioRxiv : the preprint server for biology

Avec: Tomas Bruna , Alexandre Lomsadze , Mark Borodovsky

MgCod: Gene Prediction in Phage Genomes with Multiple Genetic Codes.

Journal of molecular biology

Avec: Aaron Pfennig , Alexandre Lomsadze , Mark Borodovsky

Réseau de co-auteurs

Alexandre Lomsadze 13 collaborations

Tomáš Brůna 8 collaborations

Katharina J Hoff 5 collaborations

Mario Stanke 5 collaborations

Lars Gabriel 3 collaborations

Matthis Ebel 2 collaborations

Katelyn A Houghton 1 collaboration

Subin Park 1 collaboration

Fernanda S Nascimento 1 collaboration

Joel Barratt 1 collaboration

Michael J Arrowood 1 collaboration

Erik VanRoey 1 collaboration

Eldin Talundzic 1 collaboration

Yvonne Qvarnstrom 1 collaboration

Tengguo Li 1 collaboration

Mangalathu S Rajeevan 1 collaboration

Elizabeth R Unger 1 collaboration

Ivan V Antonov 1 collaboration

Evgeny Mazurov 1 collaboration

Yulia A Medvedeva 1 collaboration

Waleed M M El-Sayed 1 collaboration

Alli L Gombolay 1 collaboration

Penghao Xu 1 collaboration

Taehwan Yang 1 collaboration

Youngkyu Jeon 1 collaboration

Sathya Balachander 1 collaboration

Gary Newnam 1 collaboration

Sijia Tao 1 collaboration

Nicole E Bowen 1 collaboration

Raymond F Schinazi 1 collaboration

Baek Kim 1 collaboration

Yongsheng Chen 1 collaboration

Francesca Storici 1 collaboration

Karl Gemayel 1 collaboration

Christophe Bonny 1 collaboration

Francesco Strozzi 1 collaboration

Rishi Aryal 1 collaboration

Olga Dudchenko 1 collaboration

Daniel James Sargent 1 collaboration

Daniel Mead 1 collaboration

Matteo Buti 1 collaboration

Andrea Cavallini 1 collaboration

Timo Hytönen 1 collaboration

Javier Andrés 1 collaboration

Melanie Pham 1 collaboration

David Weisz 1 collaboration

Flavia Mascagni 1 collaboration

Gabriele Usai 1 collaboration

Lucia Natali 1 collaboration

Nahla Bassil 1 collaboration

Gina E Fernandez 1 collaboration

Mitchell Armour 1 collaboration

Bode Olukolu 1 collaboration

Thomas Poorten 1 collaboration

Caitlin Britton 1 collaboration

Jahn Davik 1 collaboration

Hamid Ashrafi 1 collaboration

Erez Lieberman Aiden 1 collaboration

Margaret Worthington 1 collaboration

Tomas Bruna 1 collaboration

Aaron Pfennig 1 collaboration