275 related articles for article (PubMed ID: 29773659)
1. Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes.
Lomsadze A; Gemayel K; Tang S; Borodovsky M
Genome Res; 2018 Jul; 28(7):1079-1089. PubMed ID: 29773659
[TBL] [Abstract][Full Text] [Related]
2. GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions.
Besemer J; Lomsadze A; Borodovsky M
Nucleic Acids Res; 2001 Jun; 29(12):2607-18. PubMed ID: 11410670
[TBL] [Abstract][Full Text] [Related]
3. In silico analysis of 5'-UTRs highlights the prevalence of Shine-Dalgarno and leaderless-dependent mechanisms of translation initiation in bacteria and archaea, respectively.
Srivastava A; Gogoi P; Deka B; Goswami S; Kanaujia SP
J Theor Biol; 2016 Aug; 402():54-61. PubMed ID: 27155047
[TBL] [Abstract][Full Text] [Related]
4. Leaderless genes in bacteria: clue to the evolution of translation initiation mechanisms in prokaryotes.
Zheng X; Hu GQ; She ZS; Zhu H
BMC Genomics; 2011 Jul; 12():361. PubMed ID: 21749696
[TBL] [Abstract][Full Text] [Related]
5. Distribution and diversity of ribosome binding sites in prokaryotic genomes.
Omotajo D; Tate T; Cho H; Choudhary M
BMC Genomics; 2015 Aug; 16(1):604. PubMed ID: 26268350
[TBL] [Abstract][Full Text] [Related]
6. MetaGeneAnnotator: detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes.
Noguchi H; Taniguchi T; Itoh T
DNA Res; 2008 Dec; 15(6):387-96. PubMed ID: 18940874
[TBL] [Abstract][Full Text] [Related]
7. DeepRibo: a neural network for precise gene annotation of prokaryotes by combining ribosome profiling signal and binding site patterns.
Clauwaert J; Menschaert G; Waegeman W
Nucleic Acids Res; 2019 Apr; 47(6):e36. PubMed ID: 30753697
[TBL] [Abstract][Full Text] [Related]
8. Leaderless transcripts of the crenarchaeal hyperthermophile Pyrobaculum aerophilum.
Slupska MM; King AG; Fitz-Gibbon S; Besemer J; Borodovsky M; Miller JH
J Mol Biol; 2001 Jun; 309(2):347-60. PubMed ID: 11371158
[TBL] [Abstract][Full Text] [Related]
9. Finding prokaryotic genes by the 'frame-by-frame' algorithm: targeting gene starts and overlapping genes.
Shmatkov AM; Melikyan AA; Chernousko FL; Borodovsky M
Bioinformatics; 1999 Nov; 15(11):874-86. PubMed ID: 10743554
[TBL] [Abstract][Full Text] [Related]
10. smORFer: a modular algorithm to detect small ORFs in prokaryotes.
Bartholomäus A; Kolte B; Mustafayeva A; Goebel I; Fuchs S; Benndorf D; Engelmann S; Ignatova Z
Nucleic Acids Res; 2021 Sep; 49(15):e89. PubMed ID: 34125903
[TBL] [Abstract][Full Text] [Related]
11. NCBI prokaryotic genome annotation pipeline.
Tatusova T; DiCuccio M; Badretdin A; Chetvernin V; Nawrocki EP; Zaslavsky L; Lomsadze A; Pruitt KD; Borodovsky M; Ostell J
Nucleic Acids Res; 2016 Aug; 44(14):6614-24. PubMed ID: 27342282
[TBL] [Abstract][Full Text] [Related]
12. Features for computational operon prediction in prokaryotes.
Chuang LY; Chang HW; Tsai JH; Yang CH
Brief Funct Genomics; 2012 Jul; 11(4):291-9. PubMed ID: 22753776
[TBL] [Abstract][Full Text] [Related]
13. Local absence of secondary structure permits translation of mRNAs that lack ribosome-binding sites.
Scharff LB; Childs L; Walther D; Bock R
PLoS Genet; 2011 Jun; 7(6):e1002155. PubMed ID: 21731509
[TBL] [Abstract][Full Text] [Related]
14. Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ.
Omelchenko MV; Makarova KS; Wolf YI; Rogozin IB; Koonin EV
Genome Biol; 2003; 4(9):R55. PubMed ID: 12952534
[TBL] [Abstract][Full Text] [Related]
15. Position preference of essential genes in prokaryotic operons.
Liu T; Luo H; Gao F
PLoS One; 2021; 16(4):e0250380. PubMed ID: 33886641
[TBL] [Abstract][Full Text] [Related]
16. The Frequency of Internal Shine-Dalgarno-like Motifs in Prokaryotes.
Diwan GD; Agashe D
Genome Biol Evol; 2016 Jun; 8(6):1722-33. PubMed ID: 27189998
[TBL] [Abstract][Full Text] [Related]
17. Experimental characterization of Cis-acting elements important for translation and transcription in halophilic archaea.
Brenneis M; Hering O; Lange C; Soppa J
PLoS Genet; 2007 Dec; 3(12):e229. PubMed ID: 18159946
[TBL] [Abstract][Full Text] [Related]
18. Gene identification in prokaryotic genomes, phages, metagenomes, and EST sequences with GeneMarkS suite.
Borodovsky M; Lomsadze A
Curr Protoc Bioinformatics; 2011 Sep; Chapter 4():4.5.1-4.5.17. PubMed ID: 21901741
[TBL] [Abstract][Full Text] [Related]
19. Predicted highly expressed genes of diverse prokaryotic genomes.
Karlin S; Mrázek J
J Bacteriol; 2000 Sep; 182(18):5238-50. PubMed ID: 10960111
[TBL] [Abstract][Full Text] [Related]
20.
; ; . PubMed ID:
[No Abstract] [Full Text] [Related]
[Next] [New Search]