메뉴 건너뛰기




Volumn 5, Issue , 2012, Pages

AdapterRemoval: Easy cleaning of next-generation sequencing reads

Author keywords

Adapter trimming; Data pre processing; Next generation sequencing; Paired end reads; Sequence alignment; Single end reads

Indexed keywords

ALGORITHM; ARTICLE; DNA SEQUENCE; EQUIPMENT; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84863101693     PISSN: None     EISSN: 17560500     Source Type: Journal    
DOI: 10.1186/1756-0500-5-337     Document Type: Article
Times cited : (469)

References (35)
  • 1
    • 79959212998 scopus 로고    scopus 로고
    • Landscape of next-generation sequencing technologies
    • 10.1021/ac2010857 21612267
    • Landscape of next-generation sequencing technologies. Niedringhaus TP, Milanova D, Kerby MB, Snyder MP, Barron AE, Anal Chem 2011 83 12 4327 4341 10.1021/ac2010857 21612267
    • (2011) Anal Chem , vol.83 , Issue.12 , pp. 4327-4341
    • Niedringhaus, T.P.1    Milanova, D.2    Kerby, M.B.3    Snyder, M.P.4    Barron, A.E.5
  • 2
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • 10.1186/gb-2009-10-3-r25 19261174
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Langmead B, Trapnell C, Pop M, Salzberg SL, Genome Biol 2009 10 3 25 10.1186/gb-2009-10-3-r25 19261174
    • (2009) Genome Biol , vol.10 , Issue.3 , pp. 1825
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 3
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • 10.1093/bioinformatics/btp324 19451168
    • Fast and accurate short read alignment with Burrows-Wheeler transform. Li H, Durbin R, Bioinformatics 2009 25 1754 1760 10.1093/bioinformatics/btp324 19451168
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 4
    • 40049104732 scopus 로고    scopus 로고
    • SOAP: Short oligonucleotide alignment program
    • 10.1093/bioinformatics/btn025 18227114
    • SOAP: short oligonucleotide alignment program. Li R, Li Y, Kristiansen K, Wang J, Bioinformatics 2008 24 5 713 714 10.1093/bioinformatics/btn025 18227114
    • (2008) Bioinformatics , vol.24 , Issue.5 , pp. 713-714
    • Li, R.1    Li, Y.2    Kristiansen, K.3    Wang, J.4
  • 5
    • 67650711615 scopus 로고    scopus 로고
    • SOAP2: An improved ultrafast tool for short read alignment
    • 10.1093/bioinformatics/btp336 19497933
    • SOAP2: an improved ultrafast tool for short read alignment. Li R, Yu C, Li Y, Lam TW, Yiu SM, Kristiansen K, Wang J, Bioinformatics 2009 25 15 1966 1967 10.1093/bioinformatics/btp336 19497933
    • (2009) Bioinformatics , vol.25 , Issue.15 , pp. 1966-1967
    • Li, R.1    Yu, C.2    Li, Y.3    Lam, T.W.4    Yiu, S.M.5    Kristiansen, K.6    Wang, J.7
  • 7
    • 79960698975 scopus 로고    scopus 로고
    • Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies
    • 10.1016/j.ygeno.2011.05.009 21651976
    • Btrim: a fast, lightweight adapter and quality trimming program for next-generation sequencing technologies. Kong Y, Genomics 2011 98 2 152 153 10.1016/j.ygeno.2011.05.009 21651976
    • (2011) Genomics , vol.98 , Issue.2 , pp. 152-153
    • Kong, Y.1
  • 8
    • 84871801782 scopus 로고    scopus 로고
    • Btrim. Kong Y, 2011 [ http://graphics.med.yale.edu/trim/ ]
    • (2011) Btrim
    • Kong, Y.1
  • 9
    • 77949525420 scopus 로고    scopus 로고
    • CANGS: A user-friendly utility for processing and analyzing 454 GS-FLX data in biodiversity studies
    • 10.1186/1756-0500-3-3 20180949
    • CANGS: a user-friendly utility for processing and analyzing 454 GS-FLX data in biodiversity studies. Pandey RV, Nolte V, Schlotterer C, BMC Res Notes 2010 3 3 10.1186/1756-0500-3-3 20180949
    • (2010) BMC Res Notes , vol.3 , pp. 3
    • Pandey, R.V.1    Nolte, V.2    Schlotterer, C.3
  • 11
    • 80255127234 scopus 로고    scopus 로고
    • Cutadapt removes adapter sequences from high-throughput sequencing reads
    • Cutadapt removes adapter sequences from high-throughput sequencing reads. Martin M, EMBnet J 2011 17 1 10 12
    • (2011) EMBnet J , vol.17 , Issue.1 , pp. 10-12
    • Martin, M.1
  • 12
    • 84871801910 scopus 로고    scopus 로고
    • Cutadapt. Martin M, 2011 [ http://code.google.com/p/cutadapt/ ]
    • (2011) Cutadapt
    • Martin, M.1
  • 14
    • 84871794840 scopus 로고    scopus 로고
    • Unknown
    • FAR. Unknown, [ http://sourceforge.net/projects/theflexibleadap/ ]
    • FAR
  • 20
    • 77953727646 scopus 로고    scopus 로고
    • TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets
    • 10.1186/1471-2105-11-341 20573248
    • TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets. Schmieder R, Lim YW, Rohwer F, Edwards R, BMC Bioinformatics 2010 11 341 10.1186/1471-2105-11-341 20573248
    • (2010) BMC Bioinformatics , vol.11 , pp. 341
    • Schmieder, R.1    Lim, Y.W.2    Rohwer, F.3    Edwards, R.4
  • 22
    • 70350669879 scopus 로고    scopus 로고
    • TagDust - A program to eliminate artifacts from next generation sequencing data
    • 10.1093/bioinformatics/btp527 19737799
    • TagDust-a program to eliminate artifacts from next generation sequencing data. Lassmann T, Hayashizaki Y, Daub C, Bioinformatics 2009 25 21 2839 2840 10.1093/bioinformatics/btp527 19737799
    • (2009) Bioinformatics , vol.25 , Issue.21 , pp. 2839-2840
    • Lassmann, T.1    Hayashizaki, Y.2    Daub, C.3
  • 24
    • 84871741936 scopus 로고    scopus 로고
    • Trim Galore! Krueger F, [ http://www.bioinformatics.babraham.ac.uk/ projects/trim-galore/ ]
    • Trim Galore!
    • Krueger, F.1
  • 25
    • 70349866687 scopus 로고    scopus 로고
    • ShortRead: A bioconductor package for input, quality assessment and exploration of high-throughput sequence data
    • 10.1093/bioinformatics/btp450 19654119
    • ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data. Morgan M, Anders S, Lawrence M, Aboyoun P, Pages H, Gentleman R, Bioinformatics 2009 25 19 2607 2608 10.1093/bioinformatics/btp450 19654119
    • (2009) Bioinformatics , vol.25 , Issue.19 , pp. 2607-2608
    • Morgan, M.1    Anders, S.2    Lawrence, M.3    Aboyoun, P.4    Pages, H.5    Gentleman, R.6
  • 31
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • 10.1016/0022-2836(70)90057-4 5420325
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins. Needleman SB, Wunsch CD, J Mol Biol 1970 48 3 443 453 10.1016/0022-2836(70)90057-4 5420325
    • (1970) J Mol Biol , vol.48 , Issue.3 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 32
    • 80455126001 scopus 로고    scopus 로고
    • Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and genome analyzer systems
    • 10.1186/gb-2011-12-11-r112 22067484
    • Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and genome analyzer systems. Minoche AE, Dohm JC, Himmelbauer H, Genome Biol 2011 12 11 112 10.1186/gb-2011-12-11-r112 22067484
    • (2011) Genome Biol , vol.12 , Issue.11 , pp. 18112
    • Minoche, A.E.1    Dohm, J.C.2    Himmelbauer, H.3
  • 33
    • 80054913451 scopus 로고    scopus 로고
    • FLASH: Fast length adjustment of short reads to improve genome assemblies
    • 10.1093/bioinformatics/btr507 21903629
    • FLASH: fast length adjustment of short reads to improve genome assemblies. Magoc T, Salzberg SL, Bioinformatics 2011 27 2957 2963 10.1093/bioinformatics/btr507 21903629
    • (2011) Bioinformatics , vol.27 , pp. 2957-2963
    • Magoc, T.1    Salzberg, S.L.2
  • 34
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. II. Error probabilities
    • 9521922
    • Base-calling of automated sequencer traces using phred. II. Error probabilities. Ewing B, Green P, Genome Res 1998 8 186 194 9521922
    • (1998) Genome Res , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.