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Fritz J Sedlazeck (Group Leader)

Research

Medhat Mahmoud PostDoc

Research

publications

Advanced Methylome Analysis after Bisulfite Deep Sequencing: an Example in Arabidopsis

Published in PLoS ONE, 2012

Benefit-of-doubt (BOD) scoring: a sequencing-based method for SNP candidate assessment from high to medium read number data sets

Published in Genomics, 2012

Updating benchtop sequencing performance comparison

Published in Nature Biotechnology, 2013

NextGenMap: fast and accurate read mapping in highly polymorphic genomes

Published in Bioinformatics, 2013

Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs

Published in Nucleic Acids Research, 2014

Decreased expression of endogenous feline leukemia virus in cat lymphomas: a case control study

Published in BMC Veterinary Research, 2015

Ectodysplasin signalling genes and phenotypic evolution in sculpins (Cottus)

Published in Proceedings B, 2015

The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways

Published in PLOS Pathogen, 2015

Teaser: Individualized benchmarking and optimization of read mapping results for NGS data

Published in Genome Biology, 2015

The pineapple genome and the evolution of CAM photosynthesis

Published in Nature Genetics, 2015

Chromosomal- Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding

Published in Plos Genettics, 2016

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

Published in Nature Methods, 2016

The genomic basis of circadian and circalunar timing adaptations in a midge

Published in Nature, 2016

Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast

Published in Nature Communications, 2017

GenomeScope: fast reference-free genome profiling from short reads

Published in Bioinformatics, 2017

DangerTrack: A scoring system to detect difficult-to-assess regions

Published in F1000 Research, 2017

Copy number increases of transposable elements and protein coding genes in an invasive fish of hybrid origin

Published in Molecular Ecology, 2017

LRSim: A Linked-Reads Simulator generating insights for better genome partitioning.

Published in Computational and Structural Biotechnology Journal, 2017

Piercing the dark matter: bioinformatics of long-range sequencing and mapping.

Published in Nature Genetics Reviews, 2018

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

Published in Nature Methods, 2018

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

Published in Genome Research, 2018

research

Portfolio item number 1

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talks

From CPU to GPU: An Application in bioinformatics

Published: March 03, 2009

NextGenMap: Using high throughput hardware for high throughput sequencing

Published: November 10, 2009

Whole Genome Sequencing: Possibilities, Perspectives and Problems for the Analysis

Published: December 02, 2010

Identifying wrongly mapped reads via majority vote of several scoring schemata.

Published: March 25, 2011

Comprehensive Evaluation of NGS Mapping Programs

Published: April 28, 2011

MASon: Million Alignments In Seconds - A Platform Independent Pairwise Sequence Alignment Library for Next Generation Sequencing Data.

Published: February 03, 2012

NextGenMap: Fast and accurate read mapping independent of evolutionary distance

Published: March 06, 2013

NextGenMap: Fast and accurate read mapping independent of evolutionary distance.

Published: April 12, 2013

Conference Proceeding talk 3 on Relevant Topic in Your Field

Published: March 01, 2014

This is a description of your conference proceedings talk, note the different field in type. You can put anything in this field.

Impact of highly polymorphic regions on HTS analysis

Published: September 25, 2014

NextGenMap: How to accurately map 150,000 reads per second and why should we care

Published: April 08, 2015

Methods for improved SV detection and interpretation.

Published: August 28, 2015

Accurate Assessment of Structural Variations.

Published: December 09, 2015

Structural Variation detection using long reads.

Published: January 28, 2016

Identification and interpretation of structural variations from yeast to human cancers using short and long reads.

Published: April 07, 2016

Identification of structural variations from long reads.

Published: April 18, 2016

Workshop on Structural Variations.

Published: July 27, 2016

Accurate detection of SVs using high throughput sequencing.

Published: September 12, 2016

Accurate and fast detection of complex and nested structural variations using long read technologies.

Published: September 14, 2016

Accurate detection of SVs using short and long read sequencing.

Published: September 15, 2016

Accurate detection and analysis of structural variations in healthy and cancerous human genomes.

Published: September 23, 2016

Accurate and fast detection of complex and nested structural variations using long read technologies.

Published: October 28, 2016

Identification and interpretation of structural variations from yeast to human cancers using short and long reads.

Published: November 09, 2016

Mapping of NGS reads.

Published: January 30, 2017

Accurate detection of complex structural variations using PacBio.

Published: June 27, 2017

Structural Variation Characterization Across the Human Genome and Populations.

Published: October 17, 2017

Slides are available here: Slides

Accurate and Fast Detection of Complex and Nested Structural Variations Using Long-read Technologies.

Published: October 19, 2017

Slides are available here: Slides