124 related articles for article (PubMed ID: 34928803)
1. CD-MAWS: An Alignment-Free Phylogeny Estimation Method Using Cosine Distance on Minimal Absent Word Sets.
Anjum N; Nabil RL; Rafi RI; Bayzid MS; Rahman MS
IEEE/ACM Trans Comput Biol Bioinform; 2023; 20(1):196-205. PubMed ID: 34928803
[TBL] [Abstract][Full Text] [Related]
2. The bulk and the tail of minimal absent words in genome sequences.
Aurell E; Innocenti N; Zhou HJ
Phys Biol; 2016 Apr; 13(2):026004. PubMed ID: 27043075
[TBL] [Abstract][Full Text] [Related]
3. Absent words and the (dis)similarity analysis of DNA sequences: an experimental study.
Rahman MS; Alatabbi A; Athar T; Crochemore M; Rahman MS
BMC Res Notes; 2016 Mar; 9():186. PubMed ID: 27004958
[TBL] [Abstract][Full Text] [Related]
4. Co-phylog: an assembly-free phylogenomic approach for closely related organisms.
Yi H; Jin L
Nucleic Acids Res; 2013 Apr; 41(7):e75. PubMed ID: 23335788
[TBL] [Abstract][Full Text] [Related]
5. Fast and accurate phylogeny reconstruction using filtered spaced-word matches.
Leimeister CA; Sohrabi-Jahromi S; Morgenstern B
Bioinformatics; 2017 Apr; 33(7):971-979. PubMed ID: 28073754
[TBL] [Abstract][Full Text] [Related]
6. Fast alignment-free sequence comparison using spaced-word frequencies.
Leimeister CA; Boden M; Horwege S; Lindner S; Morgenstern B
Bioinformatics; 2014 Jul; 30(14):1991-9. PubMed ID: 24700317
[TBL] [Abstract][Full Text] [Related]
7. Kmacs: the k-mismatch average common substring approach to alignment-free sequence comparison.
Leimeister CA; Morgenstern B
Bioinformatics; 2014 Jul; 30(14):2000-8. PubMed ID: 24828656
[TBL] [Abstract][Full Text] [Related]
8. Measurement of word frequencies in genomic DNA sequences based on partial alignment and fuzzy set.
Shida F; Mizuta S
J Bioinform Comput Biol; 2014 Aug; 12(4):1450019. PubMed ID: 25152044
[TBL] [Abstract][Full Text] [Related]
9. Sequence Comparison Without Alignment: The SpaM Approaches.
Morgenstern B
Methods Mol Biol; 2021; 2231():121-134. PubMed ID: 33289890
[TBL] [Abstract][Full Text] [Related]
10. Significant non-existence of sequences in genomes and proteomes.
Koulouras G; Frith MC
Nucleic Acids Res; 2021 Apr; 49(6):3139-3155. PubMed ID: 33693858
[TBL] [Abstract][Full Text] [Related]
11. kmer2vec: A Novel Method for Comparing DNA Sequences by word2vec Embedding.
Ren R; Yin C; S-T Yau S
J Comput Biol; 2022 Sep; 29(9):1001-1021. PubMed ID: 35593919
[TBL] [Abstract][Full Text] [Related]
12. Read-SpaM: assembly-free and alignment-free comparison of bacterial genomes with low sequencing coverage.
Lau AK; Dörrer S; Leimeister CA; Bleidorn C; Morgenstern B
BMC Bioinformatics; 2019 Dec; 20(Suppl 20):638. PubMed ID: 31842735
[TBL] [Abstract][Full Text] [Related]
13. A greedy alignment-free distance estimator for phylogenetic inference.
Thankachan SV; Chockalingam SP; Liu Y; Krishnan A; Aluru S
BMC Bioinformatics; 2017 Jun; 18(Suppl 8):238. PubMed ID: 28617225
[TBL] [Abstract][Full Text] [Related]
14. ADACT: a tool for analysing (dis)similarity among nucleotide and protein sequences using minimal and relative absent words.
Akon M; Akon M; Kabir M; Rahman MS; Rahman MS
Bioinformatics; 2021 Jun; 37(10):1468-1470. PubMed ID: 33016997
[TBL] [Abstract][Full Text] [Related]
15. Classification of various genomic sequences based on distribution of repeated k-word.
Yong-Joon Song ; Dong-Ho Cho
Annu Int Conf IEEE Eng Med Biol Soc; 2017 Jul; 2017():3894-3897. PubMed ID: 29060748
[TBL] [Abstract][Full Text] [Related]
16. When whole-genome alignments just won't work: kSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds of microbial genomes.
Gardner SN; Hall BG
PLoS One; 2013; 8(12):e81760. PubMed ID: 24349125
[TBL] [Abstract][Full Text] [Related]
17. ML-DSP: Machine Learning with Digital Signal Processing for ultrafast, accurate, and scalable genome classification at all taxonomic levels.
Randhawa GS; Hill KA; Kari L
BMC Genomics; 2019 Apr; 20(1):267. PubMed ID: 30943897
[TBL] [Abstract][Full Text] [Related]
18. Is multiple-sequence alignment required for accurate inference of phylogeny?
Höhl M; Ragan MA
Syst Biol; 2007 Apr; 56(2):206-21. PubMed ID: 17454975
[TBL] [Abstract][Full Text] [Related]
19. KINN: An alignment-free accurate phylogeny reconstruction method based on inner distance distributions of k-mer pairs in biological sequences.
Tang R; Yu Z; Li J
Mol Phylogenet Evol; 2023 Feb; 179():107662. PubMed ID: 36375789
[TBL] [Abstract][Full Text] [Related]
20. Proper distance metrics for phylogenetic analysis using complete genomes without sequence alignment.
Yu ZG; Zhan XW; Han GS; Wang RW; Anh V; Chu KH
Int J Mol Sci; 2010 Mar; 11(3):1141-54. PubMed ID: 20480005
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
