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Items: 8

1.

Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line.

Nattestad M, Goodwin S, Ng K, Baslan T, Sedlazeck FJ, Rescheneder P, Garvin T, Fang H, Gurtowski J, Hutton E, Tseng E, Chin CS, Beck T, Sundaravadanam Y, Kramer M, Antoniou E, McPherson JD, Hicks J, McCombie WR, Schatz MC.

Genome Res. 2018 Aug;28(8):1126-1135. doi: 10.1101/gr.231100.117. Epub 2018 Jun 28.

PMID:
29954844
2.

Accurate detection of complex structural variations using single-molecule sequencing.

Sedlazeck FJ, Rescheneder P, Smolka M, Fang H, Nattestad M, von Haeseler A, Schatz MC.

Nat Methods. 2018 Jun;15(6):461-468. doi: 10.1038/s41592-018-0001-7. Epub 2018 Apr 30.

3.

GenomeScope: fast reference-free genome profiling from short reads.

Vurture GW, Sedlazeck FJ, Nattestad M, Underwood CJ, Fang H, Gurtowski J, Schatz MC.

Bioinformatics. 2017 Jul 15;33(14):2202-2204. doi: 10.1093/bioinformatics/btx153.

4.

Phased diploid genome assembly with single-molecule real-time sequencing.

Chin CS, Peluso P, Sedlazeck FJ, Nattestad M, Concepcion GT, Clum A, Dunn C, O'Malley R, Figueroa-Balderas R, Morales-Cruz A, Cramer GR, Delledonne M, Luo C, Ecker JR, Cantu D, Rank DR, Schatz MC.

Nat Methods. 2016 Dec;13(12):1050-1054. doi: 10.1038/nmeth.4035. Epub 2016 Oct 17.

5.

Complete telomere-to-telomere de novo assembly of the Plasmodium falciparum genome through long-read (>11 kb), single molecule, real-time sequencing.

Vembar SS, Seetin M, Lambert C, Nattestad M, Schatz MC, Baybayan P, Scherf A, Smith ML.

DNA Res. 2016 Aug;23(4):339-51. doi: 10.1093/dnares/dsw022. Epub 2016 Jun 26.

6.

Assemblytics: a web analytics tool for the detection of variants from an assembly.

Nattestad M, Schatz MC.

Bioinformatics. 2016 Oct 1;32(19):3021-3. doi: 10.1093/bioinformatics/btw369. Epub 2016 Jun 17.

7.

The effect of α-mating factor secretion signal mutations on recombinant protein expression in Pichia pastoris.

Lin-Cereghino GP, Stark CM, Kim D, Chang J, Shaheen N, Poerwanto H, Agari K, Moua P, Low LK, Tran N, Huang AD, Nattestad M, Oshiro KT, Chang JW, Chavan A, Tsai JW, Lin-Cereghino J.

Gene. 2013 May 1;519(2):311-7. doi: 10.1016/j.gene.2013.01.062. Epub 2013 Feb 21.

8.

Analysis of the 5' untranslated region (5'UTR) of the alcohol oxidase 1 (AOX1) gene in recombinant protein expression in Pichia pastoris.

Staley CA, Huang A, Nattestad M, Oshiro KT, Ray LE, Mulye T, Li ZH, Le T, Stephens JJ, Gomez SR, Moy AD, Nguyen JC, Franz AH, Lin-Cereghino J, Lin-Cereghino GP.

Gene. 2012 Apr 1;496(2):118-27. doi: 10.1016/j.gene.2012.01.008. Epub 2012 Jan 25.

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