Julian UG Wagner, Denisa Bojkova, Mariana Shumliakivska, Guillermo Luxán, Luka Nicin, Galip S Aslan, Hendrik Milting, Joshua D Kandler, Andreas Dendorfer, Andreas W Heumueller, others
For decades, cardiovascular disease (CVD) has been the leading cause of death throughout most developed countries. Several studies relate RNA splicing, and more recently also circular RNAs (circRNAs), to CVD. CircRNAs originate from linear …
Tobias Jakobi, Dominik Siede, Jessica Eschenbach, Andreas W. Heumüller, Martin Busch, Rouven Nietsch, Benjamin Meder, Patrick Most, Stefanie Dimmeler, Johannes Backs, Hugo A. Katus, Christoph Dieterich
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
Utkarsh Kapoor, Konstantin Licht, Fabian Amman, Tobias Jakobi, David Martin, Christoph Dieterich, Michael Jantsch
The effects of ER stress on protein secretion by cardiac myocytes are not well understood. In this study, the ER stressor thapsigargin (TG), which depletes ER calcium, induced death of cultured neonatal rat ventricular myocytes (NRVMs) in high media …
Erik A. Blackwood, Donna J. Thuerauf, Miroslava Stastna, Haley Stephens, Zoe Sand, Amber Pentoney, Khalid Azizi, Tobias Jakobi, Jennifer E. Van Eyk, Hugo A. Katus, Christopher C. Glembotski, Shirin Doroudgar
Shirin Doroudgar, Christoph Hofmann, Etienne Boileau, Brandon Malone, Eva Riechert, Anieszka Anna Gorska, Tobias Jakobi, Clara Sandmann, Lonny Juergensen, Vivien Kmietczyk, Ellen Malovrh, Jana Burghaus, Mandy Rettel, Frank Stein, Fereshteh Sadat Younesi, Ulrike Anne Friedrich, Victoria Mauz, Johannes Backs, Günter Kramer, Hugo A Katus, Christoph Dieterich, Mirko Völkers
m6A is the most abundant internal modification on mRNA. Recent improvements of high-throughput sequencing techniques enables its detection at the transcriptome level, even at the nucleotide resolution. However most current techniques require large …
Lina Worpenberg, Tobias Jakobi, Christoph Dieterich, Jean-Yves Roignant
In natural environments microorganisms encounter extreme changes in temperature, pH, osmolarities and nutrient availability. The stress response of many bacterial species has been described in detail, however, knowledge in Archaea is limited. Here, …
Lisa F. Bischof, M. Florencia Haurat, Lena Hoffmann, Andreas Albersmeier, Jacqueline Wolf, Astrid Neu, Trong Khoa Pham, Stefan P. Albaum, Tobias Jakobi, Stefan Schouten, Meina Neumann-Schaal, Phillip C. Wright, Jörn Kalinowski, Bettina Siebers, Sonja-Verena Albers
Circular RNAs (circRNAs) are a recent addition to the expanding universe of RNA species and originate through back-splicing events from linear primary transcripts. CircRNAs show specific expression profiles with regards to cell type and developmental …
Circular RNAs (circRNAs) originate through back-splicing events from linear primary transcripts, are resistant to exonucleases, are not polyadenylated, and have been shown to be highly specific for cell type and developmental stage. CircRNA detection …
Tobias Jakobi, Alexey Uvarovskii, Christoph Dieterich
Erik A Blackwood, Christoph Hofmann, Michelle Santo Domingo, Alina S Bilal, Anup Sarakki, Winston Stauffer, Adrian Arrieta, Donna J Thuerauf, Fred W Kolkhorst, Oliver J Müller, Tobias Jakobi, Christoph Dieterich, Hugo A Katus, Shirin Doroudgar, Christopher C Glembotski
Circular RNAs (circRNAs) have been first described as “scrambled exons” in the 1990s. CircRNAs originate from back splicing or exon skipping of linear RNA templates and have continuously gained attention in recent years due to the …
For several decades, cardiovascular disease has been the leading cause of death throughout all countries. There is a strong genetic component to many disease subtypes (e.g., cardiomyopathy) and we are just beginning to understand the relevant genetic …
Tobias Jakobi, Lisa F. Czaja-Hasse, Richard Reinhardt, Christoph Dieterich
Within the recent years clock rates of modern processors stagnated while the demand for computing power continued to grow. This applied particularly for the fields of life sciences and bioinformatics, where new technologies keep on creating rapidly …
Daniel Langenkämper, Tobias Jakobi, Dustin Feld, Lukas Jelonek, Alexander Goesmann, Tim W. Nattkemper
Stem cells reside in specialized niches that are critical for their function. Quiescent hair follicle stem cells (HFSCs) are confined within the bulge niche, but how the molecular composition of the niche regulates stem cell behaviour is poorly …
Jessica Morgner, Sushmita Ghatak, Tobias Jakobi, Christoph Dieterich, Monique Aumailley, Sara A. Wickström
Chinese hamster ovary (CHO) cell lines are one of the major production tools for monoclonal antibodies, recombinant proteins, and therapeutics. Although many efforts have significantly improved the availability of sequence information for CHO cells …
Tobias Jakobi, Karina Brinkrolf, Andreas Tauch, Thomas Noll, Jens Stoye, Alfred Pühler, Alexander Goesmann
MOTIVATION: The Burrows-Wheeler transform (BWT) is the foundation of many algorithms for compression and indexing of text data, but the cost of computing the BWT of very large string collections has prevented these techniques from being widely …
Anthony J. Cox, Markus J. Bauer, Tobias Jakobi, Giovanna Rosone
MicroRNAs (miRNAs) have recently entered Chinese hamster ovary (CHO) cell culture technology, due to their severe impact on the regulation of cellular phenotypes. Applications of miRNAs that are envisioned range from biomarkers of favorable …
Matthias Hackl, Vaibhav Jadhav, Tobias Jakobi, Oliver Rupp, Karina Brinkrolf, Alexander Goesmann, Alfred Pühler, Thomas Noll, Nicole Borth, Johannes Grillari
Popular sequence alignment tools such as BWA convert a reference genome to an indexing data structure based on the Burrows-Wheeler Transform (BWT), from which matches to individual query sequences can be rapidly determined. However the utility of …
Anthony J. Cox, Tobias Jakobi, Giovanna Rosone, Ole B. Schulz-Trieglaff
The pyrosequencing technology from 454 Life Sciences and a novel assembly approach for cDNA sequences with the Newbler Assembler were used to achieve a major step forward to unravel the transcriptome of Chinese hamster ovary (CHO) cells. Normalized …
Jennifer Becker, Matthias Hackl, Oliver Rupp, Tobias Jakobi, Jessica Schneider, Rafael Szczepanowski, Thomas Bekel, Nicole Borth, Alexander Goesmann, Johannes Grillari, Christian Kaltschmidt, Thomas Noll, Alfred Pühler, Andreas Tauch, Karina Brinkrolf
The introduction of next-generation sequencing techniques and especially the high-throughput systems Solexa (Illumina Inc.) and SOLiD (ABI) made the mapping of short reads to reference sequences a standard application in modern bioinformatics. …
Jochen Blom, Tobias Jakobi, Daniel Doppmeier, Sebastian Jaenicke, Jörn Kalinowski, Jens Stoye, Alexander Goesmann
Chinese hamster ovary (CHO) cells are the predominant cell factory for the production of recombinant therapeutic proteins. Nevertheless, the lack in publicly available sequence information is severely limiting advances in CHO cell biology, including …
Matthias Hackl, Tobias Jakobi, Jochen Blom, Daniel Doppmeier, Karina Brinkrolf, Rafael Szczepanowski, Stephan H Bernhart, Christian Höner Zu Siederdissen, Juan a Hernandez Bort, Matthias Wieser, Renate Kunert, Simon Jeffs, Ivo L Hofacker, Alexander Goesmann, Alfred Pühler, Nicole Borth, Johannes Grillari
Databases for either sequence, annotation, or microarray experiments data are extremely beneficial to the research community, as they centrally gather information from experiments performed by different scientists. However, data from different …
Kolja Henckel, Kai J Runte, Thomas Bekel, Michael Dondrup, Tobias Jakobi, Helge Küster, Alexander Goesmann