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Volumn 43, Issue 2, 2015, Pages e11-

Reference-free detection of isolated SNPs

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ANIMAL; C57BL MOUSE; CHROMOSOME 1; ESCHERICHIA COLI; GENETICS; GENOMICS; GENOTYPING TECHNIQUE; HUMAN; IXODES; MOUSE; PROCEDURES; SACCHAROMYCES CEREVISIAE; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84942197134     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku1187     Document Type: Article
Times cited : (74)

References (28)
  • 1
    • 84862936211 scopus 로고    scopus 로고
    • Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
    • Xu, X., Liu, X., Ge, S., Jensen, J. D., Hu, F., Li, X., Dong, Y., Gutenkunst, R. N., Fang, L., Huang, L. et al. (2012) Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes. Nat. Biotechnol., 30, 105-111.
    • (2012) Nat. Biotechnol , vol.30 , pp. 105-111
    • Xu, X.1    Liu, X.2    Ge, S.3    Jensen, J.D.4    Hu, F.5    Li, X.6    Dong, Y.7    Gutenkunst, R.N.8    Fang, L.9    Huang, L.10
  • 2
    • 84894278504 scopus 로고    scopus 로고
    • Development of genomic resources for the tick Ixodes ricinus: Isolation and characterization of single nucleotide polymorphisms
    • Quillery, E., Quenez, O., Peterlongo, P., Plantard, O. (2014) Development of genomic resources for the tick Ixodes ricinus: isolation and characterization of single nucleotide polymorphisms. Mol. Ecol. Resour., 14, 393-400.
    • (2014) Mol. Ecol. Resour , vol.14 , pp. 393-400
    • Quillery, E.1    Quenez, O.2    Peterlongo, P.3    Plantard, O.4
  • 5
    • 84864119729 scopus 로고    scopus 로고
    • Exploring single-sample snp and indel calling with whole-genome de novo assembly
    • Li, H. (2012) Exploring single-sample snp and indel calling with whole-genome de novo assembly. Bioinformatics, 28, 1838-1844.
    • (2012) Bioinformatics , vol.28 , pp. 1838-1844
    • Li, H.1
  • 7
    • 79961188129 scopus 로고    scopus 로고
    • Paired-end RAD-seq for de novo assembly and marker design without available reference
    • Willing, E.-M., Hoffmann, M., Klein, J.D., Weigel, D., Dreyer, C. (2011) Paired-end RAD-seq for de novo assembly and marker design without available reference. Bioinformatics, 27, 2187-2193.
    • (2011) Bioinformatics , vol.27 , pp. 2187-2193
    • Willing, E.-M.1    Hoffmann, M.2    Klein, J.D.3    Weigel, D.4    Dreyer, C.5
  • 9
    • 84856246802 scopus 로고    scopus 로고
    • De novo assembly and genotyping of variants using colored de Bruijn graphs
    • Iqbal, Z., Caccamo, M., Turner, I., Flicek, P., McVean, G. (2012) De novo assembly and genotyping of variants using colored de Bruijn graphs. Nat. Genet., 44, 226-232.
    • (2012) Nat. Genet , vol.44 , pp. 226-232
    • Iqbal, Z.1    Caccamo, M.2    Turner, I.3    Flicek, P.4    McVean, G.5
  • 11
    • 84876285983 scopus 로고    scopus 로고
    • Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers
    • Nordstr öm, K.J.V., Albani, M.C., James, G.V., Gutjahr, C., Hartwig, B., Turck, F., Paszkowski, U., Coupland, G., Schneeberger, K. (2013) Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers. Nat. Biotechnol., 31, 325-330.
    • (2013) Nat. Biotechnol , vol.31 , pp. 325-330
    • Nordström, K.J.V.1
  • 13
    • 84891935788 scopus 로고    scopus 로고
    • When whole-genome alignments just won't work: KSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds of microbial genomes
    • Gardner, S.N., Hall, B.G. (2013) When whole-genome alignments just won't work: kSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds of microbial genomes. PLoS ONE, 8, e81760.
    • (2013) PLoS ONE , vol.8 , pp. e81760
    • Gardner, S.N.1    Hall, B.G.2
  • 14
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino, D.R., Birney, E. (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res., 18, 821-829.
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 15
    • 84866687164 scopus 로고    scopus 로고
    • Space-efficient and exact de Bruijn graph representation based on a Bloom filter
    • WABI
    • Chikhi, R., Rizk, G. (2012) Space-efficient and exact de Bruijn graph representation based on a Bloom filter. In: Lecture Notes in Computer Science, Vol. 7534. WABI, pp. 236-248.
    • (2012) Lecture Notes in Computer Science , vol.7534 , pp. 236-248
    • Chikhi, R.1    Rizk, G.2
  • 16
    • 84884410315 scopus 로고    scopus 로고
    • Using cascading Bloom filters to improve the memory usage for de Brujin graphs
    • Springer
    • Salikhov, K., Sacomoto, G., Kucherov, G. (2013) Using cascading Bloom filters to improve the memory usage for de Brujin graphs. In: Algorithms in Bioinformatics. Springer, pp. 364-376.
    • (2013) Algorithms in Bioinformatics , pp. 364-376
    • Salikhov, K.1    Sacomoto, G.2    Kucherov, G.3
  • 17
    • 84991528460 scopus 로고    scopus 로고
    • Assemblathon 2: Evaluating de novo methods of genome assembly in three vertebrate species
    • The Assemblathon 2 Consortium.
    • The Assemblathon 2 Consortium. (2013) Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. GigaScience, 2, 10.
    • (2013) GigaScience , vol.2 , pp. 10
  • 19
    • 84888213196 scopus 로고    scopus 로고
    • Whole genome, whole population sequencing reveals that loss of signaling networks is the major adaptive strategy in a constant environment
    • Kvitek, D.J., Sherlock, G. (2013) Whole genome, whole population sequencing reveals that loss of signaling networks is the major adaptive strategy in a constant environment. PLoS Genet., 9, e1003972.
    • (2013) PLoS Genet , vol.9 , pp. e1003972
    • Kvitek, D.J.1    Sherlock, G.2
  • 20
    • 17444363029 scopus 로고    scopus 로고
    • Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus
    • Ullmann, A., Lima, C., Guerrero, F., Piesman, J., Black, W. (2005) Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus. Insect Mol. Biol., 14, 217-222.
    • (2005) Insect Mol. Biol , vol.14 , pp. 217-222
    • Ullmann, A.1    Lima, C.2    Guerrero, F.3    Piesman, J.4    Black, W.5
  • 21
    • 77957815609 scopus 로고    scopus 로고
    • GASSST: Global alignment short sequence search tool
    • Rizk, G., Lavenier, D. (2010) GASSST: global alignment short sequence search tool. Bioinformatics, 26, 2534-2540.
    • (2010) Bioinformatics , vol.26 , pp. 2534-2540
    • Rizk, G.1    Lavenier, D.2
  • 23
    • 84942887758 scopus 로고    scopus 로고
    • SOAPdenovo2: An empirically improved memory-efficient short-read de novo assembler
    • Luo, R., Liu, B., Xie, Y., Li, Z., Huang, W., Yuan, J., He, G., Chen, Y., Pan, Q., Liu, Y. et al. (2012) SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. GigaScience, 1, 18.
    • (2012) GigaScience , vol.1 , pp. 18
    • Luo, R.1    Liu, B.2    Xie, Y.3    Li, Z.4    Huang, W.5    Yuan, J.6    He, G.7    Chen, Y.8    Pan, Q.9    Liu, Y.10
  • 24
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead, B., Salzberg, S.L. (2012) Fast gapped-read alignment with Bowtie 2. Nat. Methods, 9, 357-359.
    • (2012) Nat. Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 26
    • 0031866131 scopus 로고    scopus 로고
    • Resurgent vector-borne diseases as a global health problem
    • Gubler, D.J. (1998) Resurgent vector-borne diseases as a global health problem. Emerg. infect. Dis., 4, 442.
    • (1998) Emerg. Infect. Dis , vol.4 , pp. 442
    • Gubler, D.J.1
  • 27
    • 0035262117 scopus 로고    scopus 로고
    • Tick-borne bacterial diseases emerging in Europe
    • Parola, P., Raoult, D. (2001) Tick-borne bacterial diseases emerging in Europe. Clin. Microbiol. Infect., 7, 80-83.
    • (2001) Clin. Microbiol. Infect , vol.7 , pp. 80-83
    • Parola, P.1    Raoult, D.2
  • 28
    • 84904016061 scopus 로고    scopus 로고
    • Mapping-free and assembly-free discovery of inversion breakpoints from raw NGS reads
    • AlCoB
    • Lemaitre, C., Ciortuz, L., Peterlongo, P. (2014) Mapping-free and assembly-free discovery of inversion breakpoints from raw NGS reads. In: Lecture Notes in Computer Science, Vol. 8542. AlCoB, pp. 119-130.
    • (2014) Lecture Notes in Computer Science , vol.8542 , pp. 119-130
    • Lemaitre, C.1    Ciortuz, L.2    Peterlongo, P.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.