Borodovsky M - Search Results

1

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

Gabriel L, Brůna T, Hoff KJ, Ebel M, Lomsadze A, Borodovsky M, Stanke M. Gabriel L, et al. Among authors: borodovsky m. bioRxiv [Preprint]. 2024 Feb 29:2023.06.10.544449. doi: 10.1101/2023.06.10.544449. bioRxiv. 2024. PMID: 37398387 Free PMC article. Preprint.

2

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

Pfennig A, Lomsadze A, Borodovsky M. Pfennig A, et al. Among authors: borodovsky m. J Mol Biol. 2023 Jul 15;435(14):168159. doi: 10.1016/j.jmb.2023.168159. Epub 2023 May 25. J Mol Biol. 2023. PMID: 37244571

3

A new gene finding tool GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes.

Bruna T, Lomsadze A, Borodovsky M. Bruna T, et al. Among authors: borodovsky m. bioRxiv [Preprint]. 2024 Apr 17:2023.01.13.524024. doi: 10.1101/2023.01.13.524024. bioRxiv. 2024. PMID: 36711453 Free PMC article. Preprint.

4

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

Brůna T, Aryal R, Dudchenko O, Sargent DJ, Mead D, Buti M, Cavallini A, Hytönen T, Andrés J, Pham M, Weisz D, Mascagni F, Usai G, Natali L, Bassil N, Fernandez GE, Lomsadze A, Armour M, Olukolu B, Poorten T, Britton C, Davik J, Ashrafi H, Aiden EL, Borodovsky M, Worthington M. Brůna T, et al. Among authors: borodovsky m. G3 (Bethesda). 2023 Feb 9;13(2):jkac289. doi: 10.1093/g3journal/jkac289. G3 (Bethesda). 2023. PMID: 36331334 Free PMC article.

5

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

Gemayel K, Lomsadze A, Borodovsky M. Gemayel K, et al. Among authors: borodovsky m. Front Bioinform. 2021 Dec 9;1:704157. doi: 10.3389/fbinf.2021.704157. eCollection 2021. Front Bioinform. 2021. PMID: 36303749 Free PMC article. Review.

6

TSEBRA: transcript selector for BRAKER.

Gabriel L, Hoff KJ, Brůna T, Borodovsky M, Stanke M. Gabriel L, et al. Among authors: borodovsky m. BMC Bioinformatics. 2021 Nov 25;22(1):566. doi: 10.1186/s12859-021-04482-0. BMC Bioinformatics. 2021. PMID: 34823473 Free PMC article.

7

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

Lomsadze A, Bonny C, Strozzi F, Borodovsky M. Lomsadze A, et al. Among authors: borodovsky m. NAR Genom Bioinform. 2021 May 26;3(2):lqab047. doi: 10.1093/nargab/lqab047. eCollection 2021 Jun. NAR Genom Bioinform. 2021. PMID: 34056597 Free PMC article.

8

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

Brůna T, Hoff KJ, Lomsadze A, Stanke M, Borodovsky M. Brůna T, et al. Among authors: borodovsky m. NAR Genom Bioinform. 2021 Jan 6;3(1):lqaa108. doi: 10.1093/nargab/lqaa108. eCollection 2021 Mar. NAR Genom Bioinform. 2021. PMID: 33575650 Free PMC article.

9

Disproportionate presence of adenosine in mitochondrial and chloroplast DNA of Chlamydomonas reinhardtii.

El-Sayed WMM, Gombolay AL, Xu P, Yang T, Jeon Y, Balachander S, Newnam G, Tao S, Bowen NE, Brůna T, Borodovsky M, Schinazi RF, Kim B, Chen Y, Storici F. El-Sayed WMM, et al. Among authors: borodovsky m. iScience. 2020 Dec 29;24(1):102005. doi: 10.1016/j.isci.2020.102005. eCollection 2021 Jan 22. iScience. 2020. PMID: 33490913 Free PMC article.

10

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

Lomsadze A, Li T, Rajeevan MS, Unger ER, Borodovsky M. Lomsadze A, et al. Among authors: borodovsky m. Viruses. 2020 Jun 30;12(7):710. doi: 10.3390/v12070710. Viruses. 2020. PMID: 32629900 Free PMC article.

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