Sequence assembly (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Sequence assembly" in English language version.

refsWebsite

Global rank English rank

17nih.gov

4^th place

15doi.org

2^nd place

2worldcat.org

5^th place

1nature.com

234^th place

397^th place

1hefr.ch

low place

1harvard.edu

18^th place

17^th place

1psu.edu

207^th place

136^th place

1semanticscholar.org

11^th place

8^th place

1sourceforge.net

1,669^th place

1,290^th place

1groups.google.com

1,518^th place

1,072^nd place

1babraham.ac.uk

low place

1ieee.org

652^nd place

515^th place

1arxiv.org

69^th place

59^th place

1oup.com

485^th place

440^th place

arxiv.org

Vasimuddin M, Misra S, Li H, Aluru S (May 2019). "Efficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems". 2019 IEEE International Parallel and Distributed Processing Symposium (IPDPS). IEEE. pp. 314–324. arXiv:1907.12931. doi:10.1109/IPDPS.2019.00041. ISBN 978-1-7281-1246-6.

babraham.ac.uk

bioinformatics.babraham.ac.uk

"Babraham Bioinformatics - FastQC A Quality Control tool for High Throughput Sequence Data". www.bioinformatics.babraham.ac.uk. Retrieved 2022-05-09.

doi.org

Sohn JI, Nam JW (January 2018). "The present and future of de novo whole-genome assembly". Briefings in Bioinformatics. 19 (1): 23–40. doi:10.1093/bib/bbw096. PMID 27742661.
Baker M (27 March 2012). "De novo genome assembly: what every biologist should know". Nature Methods. 9 (4): 333–337. doi:10.1038/nmeth.1935. ISSN 1548-7105.
Myers EW, Sutton GG, Delcher AL, Dew IM, Fasulo DP, Flanigan MJ, et al. (March 2000). "A whole-genome assembly of Drosophila". Science. 287 (5461): 2196–2204. Bibcode:2000Sci...287.2196M. CiteSeerX 10.1.1.79.9822. doi:10.1126/science.287.5461.2196. PMID 10731133. S2CID 6049420.
Batzoglou S, Jaffe DB, Stanley K, Butler J, Gnerre S, Mauceli E, et al. (January 2002). "ARACHNE: a whole-genome shotgun assembler". Genome Research. 12 (1): 177–189. doi:10.1101/gr.208902. PMC 155255. PMID 11779843.
Nagaraj SH, Gasser RB, Ranganathan S (January 2007). "A hitchhiker's guide to expressed sequence tag (EST) analysis". Briefings in Bioinformatics. 8 (1): 6–21. doi:10.1093/bib/bbl015. PMID 16772268.
Li Z, Chen Y, Mu D, Yuan J, Shi Y, Zhang H, et al. (January 2012). "Comparison of the two major classes of assembly algorithms: overlap-layout-consensus and de-bruijn-graph". Briefings in Functional Genomics. 11 (1): 25–37. doi:10.1093/bfgp/elr035. PMID 22184334.
Harrington CT, Lin EI, Olson MT, Eshleman JR (September 2013). "Fundamentals of pyrosequencing". Archives of Pathology & Laboratory Medicine. 137 (9): 1296–1303. doi:10.5858/arpa.2012-0463-RA. PMID 23991743.
Hu T, Chitnis N, Monos D, Dinh A (November 2021). "Next-generation sequencing technologies: An overview". Human Immunology. Next Generation Sequencing and its Application to Medical Laboratory Immunology. 82 (11): 801–811. doi:10.1016/j.humimm.2021.02.012. PMID 33745759.
Dohm JC, Lottaz C, Borodina T, Himmelbauer H (November 2007). "SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing". Genome Research. 17 (11): 1697–1706. doi:10.1101/gr.6435207. PMC 2045152. PMID 17908823.
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM (April 2010). "The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants". Nucleic Acids Research. 38 (6): 1767–1771. doi:10.1093/nar/gkp1137. PMC 2847217. PMID 20015970.
Simão FA, Waterhouse RM, Ioannidis P, Kriventseva EV, Zdobnov EM (October 2015). "BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs". Bioinformatics. 31 (19): 3210–3212. doi:10.1093/bioinformatics/btv351. PMID 26059717.
Compeau PE, Pevzner PA, Tesler G (November 2011). "How to apply de Bruijn graphs to genome assembly". Nature Biotechnology. 29 (11): 987–991. doi:10.1038/nbt.2023. PMC 5531759. PMID 22068540.
Ruffalo M, LaFramboise T, Koyutürk M (October 2011). "Comparative analysis of algorithms for next-generation sequencing read alignment". Bioinformatics. 27 (20): 2790–2796. doi:10.1093/bioinformatics/btr477. PMID 21856737.
Vasimuddin M, Misra S, Li H, Aluru S (May 2019). "Efficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems". 2019 IEEE International Parallel and Distributed Processing Symposium (IPDPS). IEEE. pp. 314–324. arXiv:1907.12931. doi:10.1109/IPDPS.2019.00041. ISBN 978-1-7281-1246-6.
Jung Y, Han D (2022-03-07). "BWA-MEME: BWA-MEM emulated with a machine learning approach". Bioinformatics. 38 (9): 2404–2413. doi:10.1093/bioinformatics/btac137. ISSN 1367-4803. PMID 35253835.

groups.google.com

"MIRA 2.9.8 for 454 and 454 / Sanger hybrid assembly". groups.google.com. Retrieved 2023-01-02.

harvard.edu

ui.adsabs.harvard.edu

Myers EW, Sutton GG, Delcher AL, Dew IM, Fasulo DP, Flanigan MJ, et al. (March 2000). "A whole-genome assembly of Drosophila". Science. 287 (5461): 2196–2204. Bibcode:2000Sci...287.2196M. CiteSeerX 10.1.1.79.9822. doi:10.1126/science.287.5461.2196. PMID 10731133. S2CID 6049420.

hefr.ch

beat.wolf.home.hefr.ch

Wolf B. "De novo genome assembly versus mapping to a reference genome" (PDF). University of Applied Sciences Western Switzerland. Retrieved 6 April 2019.

ieee.org

ieeexplore.ieee.org

Vasimuddin M, Misra S, Li H, Aluru S (May 2019). "Efficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems". 2019 IEEE International Parallel and Distributed Processing Symposium (IPDPS). IEEE. pp. 314–324. arXiv:1907.12931. doi:10.1109/IPDPS.2019.00041. ISBN 978-1-7281-1246-6.

nature.com

Baker M (27 March 2012). "De novo genome assembly: what every biologist should know". Nature Methods. 9 (4): 333–337. doi:10.1038/nmeth.1935. ISSN 1548-7105.

nih.gov

pubmed.ncbi.nlm.nih.gov

Sohn JI, Nam JW (January 2018). "The present and future of de novo whole-genome assembly". Briefings in Bioinformatics. 19 (1): 23–40. doi:10.1093/bib/bbw096. PMID 27742661.
Myers EW, Sutton GG, Delcher AL, Dew IM, Fasulo DP, Flanigan MJ, et al. (March 2000). "A whole-genome assembly of Drosophila". Science. 287 (5461): 2196–2204. Bibcode:2000Sci...287.2196M. CiteSeerX 10.1.1.79.9822. doi:10.1126/science.287.5461.2196. PMID 10731133. S2CID 6049420.
Batzoglou S, Jaffe DB, Stanley K, Butler J, Gnerre S, Mauceli E, et al. (January 2002). "ARACHNE: a whole-genome shotgun assembler". Genome Research. 12 (1): 177–189. doi:10.1101/gr.208902. PMC 155255. PMID 11779843.
Nagaraj SH, Gasser RB, Ranganathan S (January 2007). "A hitchhiker's guide to expressed sequence tag (EST) analysis". Briefings in Bioinformatics. 8 (1): 6–21. doi:10.1093/bib/bbl015. PMID 16772268.
Li Z, Chen Y, Mu D, Yuan J, Shi Y, Zhang H, et al. (January 2012). "Comparison of the two major classes of assembly algorithms: overlap-layout-consensus and de-bruijn-graph". Briefings in Functional Genomics. 11 (1): 25–37. doi:10.1093/bfgp/elr035. PMID 22184334.
Harrington CT, Lin EI, Olson MT, Eshleman JR (September 2013). "Fundamentals of pyrosequencing". Archives of Pathology & Laboratory Medicine. 137 (9): 1296–1303. doi:10.5858/arpa.2012-0463-RA. PMID 23991743.
Hu T, Chitnis N, Monos D, Dinh A (November 2021). "Next-generation sequencing technologies: An overview". Human Immunology. Next Generation Sequencing and its Application to Medical Laboratory Immunology. 82 (11): 801–811. doi:10.1016/j.humimm.2021.02.012. PMID 33745759.
Dohm JC, Lottaz C, Borodina T, Himmelbauer H (November 2007). "SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing". Genome Research. 17 (11): 1697–1706. doi:10.1101/gr.6435207. PMC 2045152. PMID 17908823.
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM (April 2010). "The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants". Nucleic Acids Research. 38 (6): 1767–1771. doi:10.1093/nar/gkp1137. PMC 2847217. PMID 20015970.
Simão FA, Waterhouse RM, Ioannidis P, Kriventseva EV, Zdobnov EM (October 2015). "BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs". Bioinformatics. 31 (19): 3210–3212. doi:10.1093/bioinformatics/btv351. PMID 26059717.
Compeau PE, Pevzner PA, Tesler G (November 2011). "How to apply de Bruijn graphs to genome assembly". Nature Biotechnology. 29 (11): 987–991. doi:10.1038/nbt.2023. PMC 5531759. PMID 22068540.
Ruffalo M, LaFramboise T, Koyutürk M (October 2011). "Comparative analysis of algorithms for next-generation sequencing read alignment". Bioinformatics. 27 (20): 2790–2796. doi:10.1093/bioinformatics/btr477. PMID 21856737.
Jung Y, Han D (2022-03-07). "BWA-MEME: BWA-MEM emulated with a machine learning approach". Bioinformatics. 38 (9): 2404–2413. doi:10.1093/bioinformatics/btac137. ISSN 1367-4803. PMID 35253835.

ncbi.nlm.nih.gov

Batzoglou S, Jaffe DB, Stanley K, Butler J, Gnerre S, Mauceli E, et al. (January 2002). "ARACHNE: a whole-genome shotgun assembler". Genome Research. 12 (1): 177–189. doi:10.1101/gr.208902. PMC 155255. PMID 11779843.
Dohm JC, Lottaz C, Borodina T, Himmelbauer H (November 2007). "SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing". Genome Research. 17 (11): 1697–1706. doi:10.1101/gr.6435207. PMC 2045152. PMID 17908823.
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM (April 2010). "The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants". Nucleic Acids Research. 38 (6): 1767–1771. doi:10.1093/nar/gkp1137. PMC 2847217. PMID 20015970.
Compeau PE, Pevzner PA, Tesler G (November 2011). "How to apply de Bruijn graphs to genome assembly". Nature Biotechnology. 29 (11): 987–991. doi:10.1038/nbt.2023. PMC 5531759. PMID 22068540.

oup.com

academic.oup.com

Jung Y, Han D (2022-03-07). "BWA-MEME: BWA-MEM emulated with a machine learning approach". Bioinformatics. 38 (9): 2404–2413. doi:10.1093/bioinformatics/btac137. ISSN 1367-4803. PMID 35253835.

psu.edu

citeseerx.ist.psu.edu

Myers EW, Sutton GG, Delcher AL, Dew IM, Fasulo DP, Flanigan MJ, et al. (March 2000). "A whole-genome assembly of Drosophila". Science. 287 (5461): 2196–2204. Bibcode:2000Sci...287.2196M. CiteSeerX 10.1.1.79.9822. doi:10.1126/science.287.5461.2196. PMID 10731133. S2CID 6049420.

semanticscholar.org

api.semanticscholar.org

Myers EW, Sutton GG, Delcher AL, Dew IM, Fasulo DP, Flanigan MJ, et al. (March 2000). "A whole-genome assembly of Drosophila". Science. 287 (5461): 2196–2204. Bibcode:2000Sci...287.2196M. CiteSeerX 10.1.1.79.9822. doi:10.1126/science.287.5461.2196. PMID 10731133. S2CID 6049420.

sourceforge.net

amos.sourceforge.net

"AMOS WIKI". amos.sourceforge.net. Retrieved 2023-01-02.

worldcat.org

search.worldcat.org

Baker M (27 March 2012). "De novo genome assembly: what every biologist should know". Nature Methods. 9 (4): 333–337. doi:10.1038/nmeth.1935. ISSN 1548-7105.
Jung Y, Han D (2022-03-07). "BWA-MEME: BWA-MEM emulated with a machine learning approach". Bioinformatics. 38 (9): 2404–2413. doi:10.1093/bioinformatics/btac137. ISSN 1367-4803. PMID 35253835.