218 related articles for article (PubMed ID: 38514839)
1. Pan-evolutionary and regulatory genome architecture delineated by an integrated macro- and microsynteny approach.
Yu H; Li Y; Han W; Bao L; Liu F; Ma Y; Pu Z; Zeng Q; Zhang L; Bao Z; Wang S
Nat Protoc; 2024 Jun; 19(6):1623-1678. PubMed ID: 38514839
[TBL] [Abstract][Full Text] [Related]
2. Screening synteny blocks in pairwise genome comparisons through integer programming.
Tang H; Lyons E; Pedersen B; Schnable JC; Paterson AH; Freeling M
BMC Bioinformatics; 2011 Apr; 12():102. PubMed ID: 21501495
[TBL] [Abstract][Full Text] [Related]
3. Applying Synteny Networks (SynNet) to Study Genomic Arrangements of Protein-Coding Genes in Plants.
Gamboa-Tuz SD; Pereira-Santana A; Zhao T; Schranz ME
Methods Mol Biol; 2022; 2512():199-215. PubMed ID: 35818007
[TBL] [Abstract][Full Text] [Related]
4. SYNPHONI: scale-free and phylogeny-aware reconstruction of synteny conservation and transformation across animal genomes.
Robert NSM; Sarigol F; Zieger E; Simakov O
Bioinformatics; 2022 Dec; 38(24):5434-5436. PubMed ID: 36269177
[TBL] [Abstract][Full Text] [Related]
5. Network-based microsynteny analysis identifies major differences and genomic outliers in mammalian and angiosperm genomes.
Zhao T; Schranz ME
Proc Natl Acad Sci U S A; 2019 Feb; 116(6):2165-2174. PubMed ID: 30674676
[TBL] [Abstract][Full Text] [Related]
6. ShinySyn: a Shiny/R application for the interactive visualization and integration of macro- and micro-synteny data.
Xiao Z; Lam HM
Bioinformatics; 2022 Sep; 38(18):4406-4408. PubMed ID: 35866686
[TBL] [Abstract][Full Text] [Related]
7. syntenet: an R/Bioconductor package for the inference and analysis of synteny networks.
Almeida-Silva F; Zhao T; Ullrich KK; Schranz ME; Van de Peer Y
Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36539202
[TBL] [Abstract][Full Text] [Related]
8. Genomicus 2018: karyotype evolutionary trees and on-the-fly synteny computing.
Nguyen NTT; Vincens P; Roest Crollius H; Louis A
Nucleic Acids Res; 2018 Jan; 46(D1):D816-D822. PubMed ID: 29087490
[TBL] [Abstract][Full Text] [Related]
9. 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]
10. Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms.
Sinha AU; Meller J
BMC Bioinformatics; 2007 Mar; 8():82. PubMed ID: 17343765
[TBL] [Abstract][Full Text] [Related]
11. Navigating the CoGe Online Software Suite for Polyploidy Research.
Albert VA; Krabbenhoft TJ
Methods Mol Biol; 2023; 2545():19-45. PubMed ID: 36720806
[TBL] [Abstract][Full Text] [Related]
12. Microsynteny analysis to understand evolution and impact of polyploidization on MIR319 family within Brassicaceae.
Joshi G; Chauhan C; Das S
Dev Genes Evol; 2018 Dec; 228(6):227-242. PubMed ID: 30242472
[TBL] [Abstract][Full Text] [Related]
13. CrusView: a Java-based visualization platform for comparative genomics analyses in Brassicaceae species.
Chen H; Wang X
Plant Physiol; 2013 Sep; 163(1):354-62. PubMed ID: 23898041
[TBL] [Abstract][Full Text] [Related]
14. halSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments.
Krasheninnikova K; Diekhans M; Armstrong J; Dievskii A; Paten B; O'Brien S
Gigascience; 2020 Jun; 9(6):. PubMed ID: 32463100
[TBL] [Abstract][Full Text] [Related]
15. Partial shotgun sequencing of the Boechera stricta genome reveals extensive microsynteny and promoter conservation with Arabidopsis.
Windsor AJ; Schranz ME; Formanová N; Gebauer-Jung S; Bishop JG; Schnabelrauch D; Kroymann J; Mitchell-Olds T
Plant Physiol; 2006 Apr; 140(4):1169-82. PubMed ID: 16607030
[TBL] [Abstract][Full Text] [Related]
16. Evaluating synteny for improved comparative studies.
Ghiurcuta CG; Moret BM
Bioinformatics; 2014 Jun; 30(12):i9-18. PubMed ID: 24932010
[TBL] [Abstract][Full Text] [Related]
17. mySyntenyPortal: an application package to construct websites for synteny block analysis.
Lee J; Lee D; Sim M; Kwon D; Kim J; Ko Y; Kim J
BMC Bioinformatics; 2018 Jun; 19(1):216. PubMed ID: 29871588
[TBL] [Abstract][Full Text] [Related]
18. Sequence-Based Synteny Analysis of Multiple Large Genomes.
Doerr D; Moret BME
Methods Mol Biol; 2018; 1704():317-329. PubMed ID: 29277871
[TBL] [Abstract][Full Text] [Related]
19. DRIMM-Synteny: decomposing genomes into evolutionary conserved segments.
Pham SK; Pevzner PA
Bioinformatics; 2010 Oct; 26(20):2509-16. PubMed ID: 20736338
[TBL] [Abstract][Full Text] [Related]
20. GSV: a web-based genome synteny viewer for customized data.
Revanna KV; Chiu CC; Bierschank E; Dong Q
BMC Bioinformatics; 2011 Aug; 12():316. PubMed ID: 21810250
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
