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Volumn 8, Issue , 2007, Pages

An optimized procedure greatly improves EST vector contamination removal

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CLONING VECTOR; COMPUTER PROGRAM; ERRORS, ARTIFACTS AND QUALITY CONTROL PROCEDURES; EXPRESSED SEQUENCE TAG; GENE CONSTRUCT; GENE LIBRARY; GENE SEQUENCE; GOOD MANUFACTURING PRACTICE; INTERMETHOD COMPARISON; MOLECULAR CLONING; PROCESS OPTIMIZATION; SEQUENCE ANALYSIS; SEQUENCE DATABASE; SYSTEM ANALYSIS; WASTE MANAGEMENT; GENE VECTOR; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE;

EID: 38049141178     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-8-416     Document Type: Article
Times cited : (61)

References (29)
  • 1
    • 0030271920 scopus 로고    scopus 로고
    • Go hunting in sequence databases but watch out for the traps
    • 10.1016/0168-9525(96)60040-7 8909140
    • Bork P Bairoch A Go hunting in sequence databases but watch out for the traps Trends Genet 1996, 12:425-427. 10.1016/0168-9525(96)60040-7 8909140
    • (1996) Trends Genet , vol.12 , pp. 425-427
    • Bork, P.1    Bairoch, A.2
  • 2
    • 0033769017 scopus 로고    scopus 로고
    • Quality control in databanks for molecular biology
    • Colleagues CTGoBMa 10.1002/1521-1878(200011)22:11<1024::AID- BIES9>3.0.CO;2-W 11056479
    • Colleagues CTGoBMa Quality control in databanks for molecular biology Bioessays 2000, 22(11):1024-1034. 10.1002/ 1521-1878(200011)22:11<1024::AID-BIES9>3.0.CO;2-W 11056479
    • (2000) Bioessays , vol.22 , Issue.11 , pp. 1024-1034
  • 3
    • 0033011552 scopus 로고    scopus 로고
    • Establishing a method of vector contamination identification in database sequences
    • 10.1093/bioinformatics/15.2.106 10089195
    • Seluja GA Farmer A McLeod M Harger C Schad PA Establishing a method of vector contamination identification in database sequences Bioinformatics 1999, 15(2):106-110. 10.1093/bioinformatics/15.2.106 10089195
    • (1999) Bioinformatics , vol.15 , Issue.2 , pp. 106-110
    • Seluja, G.A.1    Farmer, A.2    McLeod, M.3    Harger, C.4    Schad, P.A.5
  • 4
    • 0026695030 scopus 로고
    • Corruption of genomic databases with anomalous sequence
    • 336916 1614861 10.1093/nar/20.11.2741
    • Lamperti ED Kittelberger JM Smith TF Villa-Komaroff L Corruption of genomic databases with anomalous sequence Nucleic Acids Res 1992, 20(11):2741-2747. 336916 1614861 10.1093/nar/20.11.2741
    • (1992) Nucleic Acids Res , vol.20 , Issue.11 , pp. 2741-2747
    • Lamperti, E.D.1    Kittelberger, J.M.2    Smith, T.F.3    Villa-Komaroff, L.4
  • 5
    • 0029928682 scopus 로고    scopus 로고
    • Cleaning the GenBank Arabidopsis thaliana data set
    • 145627 8628656 10.1093/nar/24.2.316
    • Korning PG Hebsgaard SM Rouze P Brunak S Cleaning the GenBank Arabidopsis thaliana data set Nucleic Acids Res 1996, 24(2):316-320. 145627 8628656 10.1093/nar/24.2.316
    • (1996) Nucleic Acids Res , vol.24 , Issue.2 , pp. 316-320
    • Korning, P.G.1    Hebsgaard, S.M.2    Rouze, P.3    Brunak, S.4
  • 7
    • 38049104459 scopus 로고    scopus 로고
    • ftp://ftp.ncbi.nih.gov/genbank/release.notes/gb154.release.notes
    • GenBank release 154 ftp://ftp.ncbi.nih.gov/genbank/release.notes/ gb154.release.notes
    • GenBank Release , pp. 154
  • 8
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. II. Error probabilities
    • 9521922
    • Ewing B Green P Base-calling of automated sequencer traces using phred. II. Error probabilities Genome Res 1998, 8(3):186-194. 9521922
    • (1998) Genome Res , vol.8 , Issue.3 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 9
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. Accuracy assessment
    • 9521921
    • Ewing B Hillier L Wendl MC Green P Base-calling of automated sequencer traces using phred. I. Accuracy assessment Genome Res 1998, 8(3):175-185. 9521921
    • (1998) Genome Res , vol.8 , Issue.3 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 10
    • 84871926999 scopus 로고    scopus 로고
    • Cross_match http://www.phrap.org/
    • Cross_match
  • 11
    • 38049142321 scopus 로고    scopus 로고
    • SeqClean http://www.tigr.org/tdb/tgi/software/
    • SeqClean
  • 12
    • 0036137277 scopus 로고    scopus 로고
    • DNA sequence quality trimming and vector removal
    • 10.1093/bioinformatics/17.12.1093 11751217
    • Chou HH Holmes MH DNA sequence quality trimming and vector removal Bioinformatics 2001, 17(12):1093-1104. 10.1093/bioinformatics/17.12.1093 11751217
    • (2001) Bioinformatics , vol.17 , Issue.12 , pp. 1093-1104
    • Chou, H.H.1    Holmes, M.H.2
  • 14
    • 38049149264 scopus 로고    scopus 로고
    • VecScreen http://www.ncbi.nlm.nih.gov/VecScreen/VecScreen.html
    • VecScreen
  • 16
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • 10.1016/0022-2836(81)90087-5 7265238
    • Smith TF Waterman MS Identification of common molecular subsequences J Mol Biol 1981, 147(1):195-197. 10.1016/0022-2836(81)90087-5 7265238
    • (1981) J Mol Biol , vol.147 , Issue.1 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 19
    • 38049137374 scopus 로고    scopus 로고
    • Univec http://www.ncbi.nlm.nih.gov/VecScreen/UniVec.html
    • Univec
  • 20
    • 29344474715 scopus 로고    scopus 로고
    • Identification of stress gene transcripts in Laminaria digitata (Phaeophyceae) protoplas cultures by expressed sequence tag analysis
    • 10.1111/j.1529-8817.2005.00150.x
    • Roeder V Collen J Rousvoal S Corre E Leblanc C Boyen C Identification of stress gene transcripts in Laminaria digitata (Phaeophyceae) protoplas cultures by expressed sequence tag analysis Journal of Phycology 2005, 41(6):1227-1235. 10.1111/j.1529-8817.2005.00150.x
    • (2005) Journal of Phycology , vol.41 , Issue.6 , pp. 1227-1235
    • Roeder, V.1    Collen, J.2    Rousvoal, S.3    Corre, E.4    Leblanc, C.5    Boyen, C.6
  • 22
    • 21244483590 scopus 로고    scopus 로고
    • EST data suggest that poplar is an ancient polyploid
    • 10.1111/j.1469-8137.2005.01378.x 15948839
    • Sterck L Rombauts S Jansson S Sterky F Rouze P Van de Peer Y EST data suggest that poplar is an ancient polyploid New Phytol 2005, 167(1):165-170. 10.1111/j.1469-8137.2005.01378.x 15948839
    • (2005) New Phytol , vol.167 , Issue.1 , pp. 165-170
    • Sterck, L.1    Rombauts, S.2    Jansson, S.3    Sterky, F.4    Rouze, P.5    Van de Peer, Y.6
  • 23
    • 27244457816 scopus 로고    scopus 로고
    • Profile and analysis of gene expression changes during early development in germinating spores of Ceratopteris richardii
    • 1176442 15965014 10.1104/pp.105.062851
    • Salmi ML Bushart TJ Stout SC Roux SJ Profile and analysis of gene expression changes during early development in germinating spores of Ceratopteris richardii Plant Physiol 2005, 138(3):1734-1745. 1176442 15965014 10.1104/pp.105.062851
    • (2005) Plant Physiol , vol.138 , Issue.3 , pp. 1734-1745
    • Salmi, M.L.1    Bushart, T.J.2    Stout, S.C.3    Roux, S.J.4
  • 25
    • 35349016358 scopus 로고    scopus 로고
    • Trace Archive http://www.ncbi.nlm.nih.gov/Traces/trace.cgi
    • Trace Archive
  • 27
    • 0027249595 scopus 로고
    • dbEST - Database for "expressed sequence tags"
    • 10.1038/ng0893-332 8401577
    • Boguski MS Lowe TM Tolstoshev CM dbEST - database for "expressed sequence tags" Nat Genet 1993, 4(4):332-333. 10.1038/ng0893-332 8401577
    • (1993) Nat Genet , vol.4 , Issue.4 , pp. 332-333
    • Boguski, M.S.1    Lowe, T.M.2    Tolstoshev, C.M.3
  • 28
    • 0033049747 scopus 로고    scopus 로고
    • A RAPID algorithm for sequence database comparisons: Application to the identification of vector contamination in the EMBL databases
    • 10.1093/bioinformatics/15.2.111 10089196
    • Miller C Gurd J Brass A A RAPID algorithm for sequence database comparisons: Application to the identification of vector contamination in the EMBL databases Bioinformatics 1999, 15(2):111-121. 10.1093/ bioinformatics/15.2.111 10089196
    • (1999) Bioinformatics , vol.15 , Issue.2 , pp. 111-121
    • Miller, C.1    Gurd, J.2    Brass, A.3
  • 29
    • 38049154245 scopus 로고    scopus 로고
    • DNA opener http://abrc.sinica.edu.tw/elcd/
    • DNA Opener


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.