메뉴 건너뛰기




Volumn 10, Issue 1, 2016, Pages 269-272

ProDeGe: A computational protocol for fully automated decontamination of genomes

Author keywords

[No Author keywords available]

Indexed keywords

GENETIC ANALYSIS; GENOME; HOMOLOGY; MICROORGANISM; NONTARGET ORGANISM;

EID: 84930816939     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2015.100     Document Type: Article
Times cited : (57)

References (20)
  • 1
  • 5
    • 84907585369 scopus 로고    scopus 로고
    • Hidden diversity in honey bee gut symbionts detected by single-cell genomics
    • Engel P, Stepanauskas R, Moran NA. (2014). Hidden diversity in honey bee gut symbionts detected by single-cell genomics. PLoS Genet 10: E1004596.
    • (2014) PLoS Genet , vol.10 , pp. e1004596
    • Engel, P.1    Stepanauskas, R.2    Moran, N.A.3
  • 6
    • 84925045058 scopus 로고    scopus 로고
    • Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount
    • Field EK, Sczyrba A, Lyman AE, Harris CC, Woyke T, Stepanauskas R et al. (2014). Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount. ISME J 9: 857-870.
    • (2014) ISME J , vol.9 , pp. 857-870
    • Field, E.K.1    Sczyrba, A.2    Lyman, A.E.3    Harris, C.C.4    Woyke, T.5    Stepanauskas, R.6
  • 7
    • 78449299173 scopus 로고    scopus 로고
    • SmashCell: A software framework for the analysis of single-cell amplified genome sequences
    • Harrington ED, Arumugam M, Raes J, Bork P, Relman D. (2010). SmashCell: A software framework for the analysis of single-cell amplified genome sequences. Bioinformatics 26: 2979-2980.
    • (2010) Bioinformatics , vol.26 , pp. 2979-2980
    • Harrington, E.D.1    Arumugam, M.2    Raes, J.3    Bork, P.4    Relman, D.5
  • 9
    • 79953266898 scopus 로고    scopus 로고
    • Single-cell genomics
    • Kalisky T, Quake SR. (2011). Single-cell genomics. Nat Methods 8: 311-314.
    • (2011) Nat Methods , vol.8 , pp. 311-314
    • Kalisky, T.1    Quake, S.R.2
  • 12
    • 84905730761 scopus 로고    scopus 로고
    • Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
    • Nielsen HB, Almeida M, Juncker AS, Rasmussen S, Li J, Sunagawa S et al. (2014). Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes. Nat Biotechnol 32: 822-828.
    • (2014) Nat Biotechnol , vol.32 , pp. 822-828
    • Nielsen, H.B.1    Almeida, M.2    Juncker, A.S.3    Rasmussen, S.4    Li, J.5    Sunagawa, S.6
  • 13
    • 84926495796 scopus 로고    scopus 로고
    • CheckM: Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
    • Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. (2014). CheckM: Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. PeerJ PrePrints 2: E554v1.
    • (2014) PeerJ PrePrints , vol.2 , pp. e554v1
    • Parks, D.H.1    Imelfort, M.2    Skennerton, C.T.3    Hugenholtz, P.4    Tyson, G.W.5
  • 14
  • 16
    • 79952390994 scopus 로고    scopus 로고
    • Fast identification and removal of sequence contamination from genomic and metagenomic datasets
    • Schmieder R, Edwards R. (2011). Fast identification and removal of sequence contamination from genomic and metagenomic datasets. PLoS One 6: E17288.
    • (2011) PLoS One , vol.6 , pp. e17288
    • Schmieder, R.1    Edwards, R.2
  • 17
    • 84888774923 scopus 로고    scopus 로고
    • Genomes from metagenomics
    • Sharon I, Banfield JF. (2013). Genomes from metagenomics. Science 6162: 1057-1058.
    • (2013) Science , vol.6162 , pp. 1057-1058
    • Sharon, I.1    Banfield, J.F.2
  • 19
    • 57249084011 scopus 로고    scopus 로고
    • Visualizing highdimensional data using t-SNE
    • van der Maaten LJP, Hinton GE. (2008). Visualizing highdimensional data using t-SNE. J Mach Learn Res 9: 2579-2605.
    • (2008) J Mach Learn Res , vol.9 , pp. 2579-2605
    • Vander Maaten, L.J.P.1    Hinton, G.E.2
  • 20
    • 80054791084 scopus 로고    scopus 로고
    • Decontamination of MDA reagents for single cell whole genome amplification
    • Woyke T, Sczyrba A, Lee J, Rinke C, Tighe D, Clingenpeel S et al. (2011). Decontamination of MDA reagents for single cell whole genome amplification. PLoS One 6: E26161
    • (2011) PLoS One , vol.6 , pp. e26161
    • Woyke, T.1    Sczyrba, A.2    Lee, J.3    Rinke, C.4    Tighe, D.5    Clingenpeel, S.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.