These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
133 related articles for article (PubMed ID: 38597887)
1. VirusPredictor: XGBoost-based software to predict virus-related sequences in human data. Liu G; Chen X; Luan Y; Li D Bioinformatics; 2024 Mar; 40(4):. PubMed ID: 38597887 [TBL] [Abstract][Full Text] [Related]
2. Profile hidden Markov models for the detection of viruses within metagenomic sequence data. Skewes-Cox P; Sharpton TJ; Pollard KS; DeRisi JL PLoS One; 2014; 9(8):e105067. PubMed ID: 25140992 [TBL] [Abstract][Full Text] [Related]
3. Machine Learning for detection of viral sequences in human metagenomic datasets. Bzhalava Z; Tampuu A; Bała P; Vicente R; Dillner J BMC Bioinformatics; 2018 Sep; 19(1):336. PubMed ID: 30249176 [TBL] [Abstract][Full Text] [Related]
4. VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data. Ren J; Ahlgren NA; Lu YY; Fuhrman JA; Sun F Microbiome; 2017 Jul; 5(1):69. PubMed ID: 28683828 [TBL] [Abstract][Full Text] [Related]
5. Toward an Alignment-Free Method for Feature Extraction and Accurate Classification of Viral Sequences. Lebatteux D; Remita AM; Diallo AB J Comput Biol; 2019 Jun; 26(6):519-535. PubMed ID: 31050550 [No Abstract] [Full Text] [Related]
6. ViraMiner: Deep learning on raw DNA sequences for identifying viral genomes in human samples. Tampuu A; Bzhalava Z; Dillner J; Vicente R PLoS One; 2019; 14(9):e0222271. PubMed ID: 31509583 [TBL] [Abstract][Full Text] [Related]
7. Rapid identification of non-human sequences in high-throughput sequencing datasets. Bhaduri A; Qu K; Lee CS; Ungewickell A; Khavari PA Bioinformatics; 2012 Apr; 28(8):1174-5. PubMed ID: 22377895 [TBL] [Abstract][Full Text] [Related]
8. Comparison of Illumina de novo assembled and Sanger sequenced viral genomes: A case study for RNA viruses recovered from the plant pathogenic fungus Sclerotinia sclerotiorum. Khalifa ME; Varsani A; Ganley ARD; Pearson MN Virus Res; 2016 Jul; 219():51-57. PubMed ID: 26581665 [TBL] [Abstract][Full Text] [Related]
9. ViraPipe: scalable parallel pipeline for viral metagenome analysis from next generation sequencing reads. Maarala AI; Bzhalava Z; Dillner J; Heljanko K; Bzhalava D Bioinformatics; 2018 Mar; 34(6):928-935. PubMed ID: 29106455 [TBL] [Abstract][Full Text] [Related]
10. VIBRANT: automated recovery, annotation and curation of microbial viruses, and evaluation of viral community function from genomic sequences. Kieft K; Zhou Z; Anantharaman K Microbiome; 2020 Jun; 8(1):90. PubMed ID: 32522236 [TBL] [Abstract][Full Text] [Related]
11. Genome Detective: an automated system for virus identification from high-throughput sequencing data. Vilsker M; Moosa Y; Nooij S; Fonseca V; Ghysens Y; Dumon K; Pauwels R; Alcantara LC; Vanden Eynden E; Vandamme AM; Deforche K; de Oliveira T Bioinformatics; 2019 Mar; 35(5):871-873. PubMed ID: 30124794 [TBL] [Abstract][Full Text] [Related]
12. Prediction of virus-host infectious association by supervised learning methods. Zhang M; Yang L; Ren J; Ahlgren NA; Fuhrman JA; Sun F BMC Bioinformatics; 2017 Mar; 18(Suppl 3):60. PubMed ID: 28361670 [TBL] [Abstract][Full Text] [Related]
13. Using paired-end sequences to optimise parameters for alignment of sequence reads against related genomes. Ratnakumar A; McWilliam S; Barris W; Dalrymple BP BMC Genomics; 2010 Aug; 11():458. PubMed ID: 20678236 [TBL] [Abstract][Full Text] [Related]
14. Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut. Vázquez-Castellanos JF; García-López R; Pérez-Brocal V; Pignatelli M; Moya A BMC Genomics; 2014 Jan; 15():37. PubMed ID: 24438450 [TBL] [Abstract][Full Text] [Related]
15. 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]
16. Fragmentation and Coverage Variation in Viral Metagenome Assemblies, and Their Effect in Diversity Calculations. García-López R; Vázquez-Castellanos JF; Moya A Front Bioeng Biotechnol; 2015; 3():141. PubMed ID: 26442255 [TBL] [Abstract][Full Text] [Related]
17. Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming. Blom J; Jakobi T; Doppmeier D; Jaenicke S; Kalinowski J; Stoye J; Goesmann A Bioinformatics; 2011 May; 27(10):1351-8. PubMed ID: 21450712 [TBL] [Abstract][Full Text] [Related]
18. Ψ-RA: a parallel sparse index for genomic read alignment. Oğuzhan Külekci M; Hon WK; Shah R; Scott Vitter J; Xu B BMC Genomics; 2011; 12 Suppl 2(Suppl 2):S7. PubMed ID: 21989248 [TBL] [Abstract][Full Text] [Related]
20. Nanopore sequencing and full genome de novo assembly of human cytomegalovirus TB40/E reveals clonal diversity and structural variations. Karamitros T; van Wilgenburg B; Wills M; Klenerman P; Magiorkinis G BMC Genomics; 2018 Aug; 19(1):577. PubMed ID: 30068288 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]