Anne-Katrin Emde

发表

RazerS--fast read mapping with sensitivity control.

K. Reinert, D. Weese, Anne-Katrin Emde, 2009, Genome research.

Analytical Validation of Clinical Whole-Genome and Transcriptome Sequencing of Patient-Derived Tumors for Reporting Targetable Variants in Cancer

V. Jobanputra, Anne-Katrin Emde, K. Wrzeszczynski, 2018, The Journal of molecular diagnostics : JMD.

Distinct Classes of Complex Structural Variation Uncovered across Thousands of Cancer Genome Graphs

David A. Knowles, Lucian P. Smith, Carissa A. Sanchez, 2020, Cell.

Comparative sequencing analysis reveals high genomic concordance between matched primary and metastatic colorectal cancer lesions

Vladimir Vacic, Anne-Katrin Emde, Jinru Shia, 2014, Genome Biology.

Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program

Brian E. Cade, Zachary A. Szpiech, Shannon Kelly, 2019, Nature.

Whole-Exome Sequencing of Metastatic Cancer and Biomarkers of Treatment Response.

Vladimir Vacic, Fabien Campagne, Hui Xue, 2015, JAMA oncology.

Next-Generation Rapid Autopsies Enable Tumor Evolution Tracking and Generation of Preclinical Models.

Anne-Katrin Emde, M. Rubin, O. Elemento, 2017, JCO precision oncology.

X-exome sequencing of 405 unresolved families identifies seven novel intellectual disability genes

K. Friend, M. Shaw, E. Haan, 2015, Molecular Psychiatry.

Disease variants in genomes of 44 centenarians

Vladimir Vacic, Anne-Katrin Emde, Jan Freudenberg, 2014, Molecular genetics & genomic medicine.

Novel patterns of complex structural variation revealed across thousands of cancer genome graphs

Lucian P. Smith, Julie M. Behr, M. Zody, 2019, bioRxiv.

Whole Genome Sequencing-Based Discovery of Structural Variants in Glioblastoma.

V. Jobanputra, R. Darnell, Anne-Katrin Emde, 2018, Methods in molecular biology.

BIOINFORMATICS Segment-based multiple sequence alignment

K. Reinert, D. Weese, Anne-Katrin Emde, 2008 .

Somatic whole genome dynamics of precancer in Barrett’s esophagus reveals features associated with disease progression

Lucian P. Smith, Anne-Katrin Emde, M. Imieliński, 2021, Nature Communications.

Abstract 4497: NYGC glioblastoma clinical outcomes pilot study: Discovering therapeutic potential in glioblastoma through integrative genomics

V. Jobanputra, V. Vacic, M. Zody, 2016 .

A novel and well-defined benchmarking method for second generation read mapping

Knut Reinert, David Weese, Anne-Katrin Emde, 2011, BMC Bioinformatics.

Human papillomavirus and the landscape of secondary genetic alterations in oral cancers

Anne-Katrin Emde, K. Coombes, Heather Geiger, 2018, Genome research.

Diverse tumorigenic consequences of human papillomavirus integration in primary oropharyngeal cancers

Anne-Katrin Emde, K. Coombes, Heather Geiger, 2021, bioRxiv.

Erratum: PGBD5 promotes site-specific oncogenic mutations in human tumors

P. O’Reilly, P. Elliott, D. Levy, 2017, Nature Genetics.

Genetic mechanisms of primary chemotherapy resistance in pediatric acute myeloid leukemia

Anne-Katrin Emde, D. Gerhard, Heather Geiger, 2018, bioRxiv.

Genetic mechanisms of primary chemotherapy resistance in pediatric acute myeloid leukemia: A report from the TARGET initiative

Anne-Katrin Emde, D. Gerhard, Heather Geiger, 2018, bioRxiv.

A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads

Knut Reinert, David Weese, Gennady Denisov, 2009, Bioinform..

Segment-based multiple sequence alignment

Knut Reinert, David Weese, Cédric Notredame, 2008, ECCB.

Comparing sequencing assays and human-machine analyses in actionable genomics for glioblastoma

Ajay K. Royyuru, Vladimir Vacic, Laxmi Parida, 2017, Neurology: Genetics.

PGBD5 promotes site-specific oncogenic mutations in human tumors

Z. Weng, D. Torrents, S. Armstrong, 2017, Nature Genetics.

Human PGBD5 DNA transposase promotes site-specific oncogenic mutations in rhabdoid tumors

Z. Weng, D. Torrents, S. Armstrong, 2017, Klinische Pädiatrie.

Mid-pass whole genome sequencing enables biomedical genetic studies of diverse populations

Stephane E. Castel, Anne-Katrin Emde, T. Merriman, 2021, BMC Genomics.

Detection of a Recurrent DNAJB1-PRKACA Chimeric Transcript in Fibrolamellar Hepatocellular Carcinoma

V. Vacic, Anne-Katrin Emde, Constantin N. Takacs, 2014, Science.

Detection of copy number variants in sequencing data

K. Reinert, Anne-Katrin Emde, 2010 .

Next-generation sequencing algorithms: from read mapping to variant detection

Anne-Katrin Emde, Anne-Katrin Emde, 2013 .

Sequencing and curation strategies for identifying candidate glioblastoma treatments

Ajay K. Royyuru, Vladimir Vacic, Laxmi Parida, 2019, BMC Medical Genomics.

MicroRazerS: rapid alignment of small RNA reads

Knut Reinert, David Weese, Anne-Katrin Emde, 2010, Bioinform..

Genome-wide somatic variant calling using localized colored de Bruijn graphs

Ewa A. Bergmann, V. Vacic, M. Zody, 2018, Communications Biology.

Detecting genomic indel variants with exact breakpoints in single- and paired-end sequencing data using SplazerS

Martin Vingron, Marcel H. Schulz, Knut Reinert, 2012, Bioinform..

Gustaf: Detecting and correctly classifying SVs in the NGS twilight zone

Knut Reinert, Anne-Katrin Emde, Hans-Christian Ehrlich, 2014, Bioinform..

Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads

Martin Vingron, Ho-Ryun Chung, Michael I. Love, 2012, Bioinform..

Analytical model of peptide mass cluster centres with applications

Knut Reinert, Hans Lehrach, Malcolm Farrow, 2006, Proteome Science.

Robust consensus computation

Knut Reinert, Anne-Katrin Emde, Tobias Rausch, 2008, BMC Bioinformatics.

Sequencing and curation strategies for identifying candidate glioblastoma treatments

Ewa A. Bergmann, Vanessa V. Michelini, V. Jobanputra, 2019, BMC Medical Genomics.

Comparative sequencing analysis reveals high genomic concordance between matched primary and metastatic colorectal cancer lesions

V. Vacic, Anne-Katrin Emde, A. Viale, 2014, Genome Biology.

Genome-wide somatic variant calling using localized colored de Bruijn graphs

Vladimir Vacic, Giuseppe Narzisi, Anne-Katrin Emde, 2018, Communications Biology.

Lancet: genome-wide somatic variant calling using localized colored DeBruijn graphs

Ewa A. Bergmann, V. Vacic, M. Zody, 2017, bioRxiv.

Whole-Exome Sequencing of Metastatic Cancer and Biomarkers of Treatment Response.

Neel S. Madhukar, V. Vacic, Anne-Katrin Emde, 2015, JAMA oncology.

Detection of a Recurrent DNAJB1-PRKACA Chimeric Transcript in Fibrolamellar Hepatocellular Carcinoma

V. Vacic, Anne-Katrin Emde, Constantin N. Takacs, 2014, Science.