144 related articles for article (PubMed ID: 24470574)
1. PGP: parallel prokaryotic proteogenomics pipeline for MPI clusters, high-throughput batch clusters and multicore workstations.
Tovchigrechko A; Venepally P; Payne SH
Bioinformatics; 2014 May; 30(10):1469-70. PubMed ID: 24470574
[TBL] [Abstract][Full Text] [Related]
2. A De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies.
Thakur S; Guttman DS
BMC Bioinformatics; 2016 Jun; 17(1):260. PubMed ID: 27363390
[TBL] [Abstract][Full Text] [Related]
3. Proteogenomic Methods to Improve Genome Annotation.
Datta KK; Madugundu AK; Gowda H
Methods Mol Biol; 2016; 1410():77-89. PubMed ID: 26867739
[TBL] [Abstract][Full Text] [Related]
4. A computational genomics pipeline for prokaryotic sequencing projects.
Kislyuk AO; Katz LS; Agrawal S; Hagen MS; Conley AB; Jayaraman P; Nelakuditi V; Humphrey JC; Sammons SA; Govil D; Mair RD; Tatti KM; Tondella ML; Harcourt BH; Mayer LW; Jordan IK
Bioinformatics; 2010 Aug; 26(15):1819-26. PubMed ID: 20519285
[TBL] [Abstract][Full Text] [Related]
5. Omics Pipe: a community-based framework for reproducible multi-omics data analysis.
Fisch KM; Meißner T; Gioia L; Ducom JC; Carland TM; Loguercio S; Su AI
Bioinformatics; 2015 Jun; 31(11):1724-8. PubMed ID: 25637560
[TBL] [Abstract][Full Text] [Related]
6. DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication.
Tanizawa Y; Fujisawa T; Nakamura Y
Bioinformatics; 2018 Mar; 34(6):1037-1039. PubMed ID: 29106469
[TBL] [Abstract][Full Text] [Related]
7. COSMOS: Python library for massively parallel workflows.
Gafni E; Luquette LJ; Lancaster AK; Hawkins JB; Jung JY; Souilmi Y; Wall DP; Tonellato PJ
Bioinformatics; 2014 Oct; 30(20):2956-8. PubMed ID: 24982428
[TBL] [Abstract][Full Text] [Related]
8. MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes.
Ruiz-Perez CA; Conrad RE; Konstantinidis KT
BMC Bioinformatics; 2021 Jan; 22(1):11. PubMed ID: 33407081
[TBL] [Abstract][Full Text] [Related]
9. Proteogenomics from a bioinformatics angle: A growing field.
Menschaert G; Fenyö D
Mass Spectrom Rev; 2017 Sep; 36(5):584-599. PubMed ID: 26670565
[TBL] [Abstract][Full Text] [Related]
10. Flexible Data Analysis Pipeline for High-Confidence Proteogenomics.
Weisser H; Wright JC; Mudge JM; Gutenbrunner P; Choudhary JS
J Proteome Res; 2016 Dec; 15(12):4686-4695. PubMed ID: 27786492
[TBL] [Abstract][Full Text] [Related]
11. µProteInS-a proteogenomics pipeline for finding novel bacterial microproteins encoded by small ORFs.
de Souza EV; Dalberto PF; Machado VP; Canedo A; Saghatelian A; Machado P; Basso LA; Bizarro CV
Bioinformatics; 2022 Apr; 38(9):2612-2614. PubMed ID: 35188179
[TBL] [Abstract][Full Text] [Related]
12. Proteogenomics: concepts, applications and computational strategies.
Nesvizhskii AI
Nat Methods; 2014 Nov; 11(11):1114-25. PubMed ID: 25357241
[TBL] [Abstract][Full Text] [Related]
13. MSMSpdbb: providing protein databases of closely related organisms to improve proteomic characterization of prokaryotic microbes.
de Souza GA; Arntzen MØ; Wiker HG
Bioinformatics; 2010 Mar; 26(5):698-9. PubMed ID: 20080508
[TBL] [Abstract][Full Text] [Related]
14. NGSUtils: a software suite for analyzing and manipulating next-generation sequencing datasets.
Breese MR; Liu Y
Bioinformatics; 2013 Feb; 29(4):494-6. PubMed ID: 23314324
[TBL] [Abstract][Full Text] [Related]
15. Genome Annotation of a Model Diatom Phaeodactylum tricornutum Using an Integrated Proteogenomic Pipeline.
Yang M; Lin X; Liu X; Zhang J; Ge F
Mol Plant; 2018 Oct; 11(10):1292-1307. PubMed ID: 30176371
[TBL] [Abstract][Full Text] [Related]
16. svist4get: a simple visualization tool for genomic tracks from sequencing experiments.
Egorov AA; Sakharova EA; Anisimova AS; Dmitriev SE; Gladyshev VN; Kulakovskiy IV
BMC Bioinformatics; 2019 Mar; 20(1):113. PubMed ID: 30841857
[TBL] [Abstract][Full Text] [Related]
17. Comparative proteogenomics: combining mass spectrometry and comparative genomics to analyze multiple genomes.
Gupta N; Benhamida J; Bhargava V; Goodman D; Kain E; Kerman I; Nguyen N; Ollikainen N; Rodriguez J; Wang J; Lipton MS; Romine M; Bafna V; Smith RD; Pevzner PA
Genome Res; 2008 Jul; 18(7):1133-42. PubMed ID: 18426904
[TBL] [Abstract][Full Text] [Related]
18. cl-dash: rapid configuration and deployment of Hadoop clusters for bioinformatics research in the cloud.
Hodor P; Chawla A; Clark A; Neal L
Bioinformatics; 2016 Jan; 32(2):301-3. PubMed ID: 26428290
[TBL] [Abstract][Full Text] [Related]
19. GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations.
Manchanda N; Portwood JL; Woodhouse MR; Seetharam AS; Lawrence-Dill CJ; Andorf CM; Hufford MB
BMC Genomics; 2020 Mar; 21(1):193. PubMed ID: 32122303
[TBL] [Abstract][Full Text] [Related]
20. [Progress in proteogenomics of prokaryotes].
Zhang C; Xu P; Zhu Y
Sheng Wu Gong Cheng Xue Bao; 2014 Jul; 30(7):1026-35. PubMed ID: 25345005
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]