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Page 1
A global metagenomic map of urban microbiomes and antimicrobial resistance.
Danko D, Bezdan D, Afshin EE, Ahsanuddin S, Bhattacharya C, Butler DJ, Chng KR, Donnellan D, Hecht J, Jackson K, Kuchin K, Karasikov M, Lyons A, Mak L, Meleshko D, Mustafa H, Mutai B, Neches RY, Ng A, Nikolayeva O, Nikolayeva T, Png E, Ryon KA, Sanchez JL, Shaaban H, Sierra MA, Thomas D, Young B, Abudayyeh OO, Alicea J, Bhattacharyya M, Blekhman R, Castro-Nallar E, Cañas AM, Chatziefthimiou AD, Crawford RW, De Filippis F, Deng Y, Desnues C, Dias-Neto E, Dybwad M, Elhaik E, Ercolini D, Frolova A, Gankin D, Gootenberg JS, Graf AB, Green DC, Hajirasouliha I, Hastings JJA, Hernandez M, Iraola G, Jang S, Kahles A, Kelly FJ, Knights K, Kyrpides NC, Łabaj PP, Lee PKH, Leung MHY, Ljungdahl PO, Mason-Buck G, McGrath K, Meydan C, Mongodin EF, Moraes MO, Nagarajan N, Nieto-Caballero M, Noushmehr H, Oliveira M, Ossowski S, Osuolale OO, Özcan O, Paez-Espino D, Rascovan N, Richard H, Rätsch G, Schriml LM, Semmler T, Sezerman OU, Shi L, Shi T, Siam R, Song LH, Suzuki H, Court DS, Tighe SW, Tong X, Udekwu KI, Ugalde JA, Valentine B, Vassilev DI, Vayndorf EM, Velavan TP, Wu J, Zambrano MM, Zhu J, Zhu S, Mason CE; International MetaSUB Consortium. Danko D, et al. Among authors: mustafa h. Cell. 2021 Jun 24;184(13):3376-3393.e17. doi: 10.1016/j.cell.2021.05.002. Epub 2021 May 26. Cell. 2021. PMID: 34043940 Free PMC article.
Dynamic compression schemes for graph coloring.
Mustafa H, Schilken I, Karasikov M, Eickhoff C, Rätsch G, Kahles A. Mustafa H, et al. Bioinformatics. 2019 Feb 1;35(3):407-414. doi: 10.1093/bioinformatics/bty632. Bioinformatics. 2019. PMID: 30020403 Free PMC article.
Sparse Binary Relation Representations for Genome Graph Annotation.
Karasikov M, Mustafa H, Joudaki A, Javadzadeh-No S, Rätsch G, Kahles A. Karasikov M, et al. Among authors: mustafa h. J Comput Biol. 2020 Apr;27(4):626-639. doi: 10.1089/cmb.2019.0324. Epub 2019 Dec 20. J Comput Biol. 2020. PMID: 31891531 Free PMC article.
Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment.
Chng KR, Li C, Bertrand D, Ng AHQ, Kwah JS, Low HM, Tong C, Natrajan M, Zhang MH, Xu L, Ko KKK, Ho EXP, Av-Shalom TV, Teo JWP, Khor CC; MetaSUB Consortium; Chen SL, Mason CE, Ng OT, Marimuthu K, Ang B, Nagarajan N. Chng KR, et al. Nat Med. 2020 Jun;26(6):941-951. doi: 10.1038/s41591-020-0894-4. Epub 2020 Jun 8. Nat Med. 2020. PMID: 32514171 Free PMC article.
Topology-based sparsification of graph annotations.
Danciu D, Karasikov M, Mustafa H, Kahles A, Rätsch G. Danciu D, et al. Among authors: mustafa h. Bioinformatics. 2021 Jul 12;37(Suppl_1):i169-i176. doi: 10.1093/bioinformatics/btab330. Bioinformatics. 2021. PMID: 34252940 Free PMC article.
Lossless indexing with counting de Bruijn graphs.
Karasikov M, Mustafa H, Rätsch G, Kahles A. Karasikov M, et al. Among authors: mustafa h. Genome Res. 2022 May 24;32(9):1754-64. doi: 10.1101/gr.276607.122. Online ahead of print. Genome Res. 2022. PMID: 35609994 Free PMC article.
Aligning distant sequences to graphs using long seed sketches.
Joudaki A, Meterez A, Mustafa H, Groot Koerkamp R, Kahles A, Rätsch G. Joudaki A, et al. Among authors: mustafa h. Genome Res. 2023 Jul;33(7):1208-1217. doi: 10.1101/gr.277659.123. Epub 2023 Apr 18. Genome Res. 2023. PMID: 37072187 Free PMC article.
Biosynthetic potential of the global ocean microbiome.
Paoli L, Ruscheweyh HJ, Forneris CC, Hubrich F, Kautsar S, Bhushan A, Lotti A, Clayssen Q, Salazar G, Milanese A, Carlström CI, Papadopoulou C, Gehrig D, Karasikov M, Mustafa H, Larralde M, Carroll LM, Sánchez P, Zayed AA, Cronin DR, Acinas SG, Bork P, Bowler C, Delmont TO, Gasol JM, Gossert AD, Kahles A, Sullivan MB, Wincker P, Zeller G, Robinson SL, Piel J, Sunagawa S. Paoli L, et al. Among authors: mustafa h. Nature. 2022 Jul;607(7917):111-118. doi: 10.1038/s41586-022-04862-3. Epub 2022 Jun 22. Nature. 2022. PMID: 35732736 Free PMC article.
Detecting Alu insertions from high-throughput sequencing data.
David M, Mustafa H, Brudno M. David M, et al. Among authors: mustafa h. Nucleic Acids Res. 2013 Sep;41(17):e169. doi: 10.1093/nar/gkt612. Epub 2013 Aug 5. Nucleic Acids Res. 2013. PMID: 23921633 Free PMC article.
230 results