Zobrazeno 1 - 10
of 386
pro vyhledávání: '"Martin, Vingron"'
Publikováno v:
iScience, Vol 27, Iss 4, Pp 109386- (2024)
Summary: During cellular processes such as differentiation or response to external stimuli, cells exhibit dynamic changes in their gene expression profiles. Single-cell RNA sequencing (scRNA-seq) can be used to investigate these dynamic changes. To t
Externí odkaz:
https://doaj.org/article/f6af53ccc8ad444f84ab5de7b73225c6
Autor:
Svenja Mehringer, Enrico Seiler, Felix Droop, Mitra Darvish, René Rahn, Martin Vingron, Knut Reinert
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-25 (2023)
Abstract We present a novel data structure for searching sequences in large databases: the Hierarchical Interleaved Bloom Filter (HIBF). It is extremely fast and space efficient, yet so general that it could serve as the underlying engine for many ap
Externí odkaz:
https://doaj.org/article/f6096bb2c23c40cc92f2bd277d69761a
Autor:
Jerome Jatzlau, Paul-Lennard Mendez, Aybuge Altay, Lion Raaz, Yufei Zhang, Sophia Mähr, Akin Sesver, Maria Reichenbach, Stefan Mundlos, Martin Vingron, Petra Knaus
Publikováno v:
iScience, Vol 26, Iss 9, Pp 107405- (2023)
Summary: Bone morphogenetic protein (BMP) signaling and fluid shear stress (FSS) mediate complementary functions in vascular homeostasis and disease development. It remains to be shown whether altered chromatin accessibility downstream of BMP and FSS
Externí odkaz:
https://doaj.org/article/d3aa69edba6440b8ab59fccf51ddb428
Autor:
Robert Schöpflin, Uirá Souto Melo, Hossein Moeinzadeh, David Heller, Verena Laupert, Jakob Hertzberg, Manuel Holtgrewe, Nico Alavi, Marius-Konstantin Klever, Julius Jungnitsch, Emel Comak, Seval Türkmen, Denise Horn, Yannis Duffourd, Laurence Faivre, Patrick Callier, Damien Sanlaville, Orsetta Zuffardi, Romano Tenconi, Nehir Edibe Kurtas, Sabrina Giglio, Bettina Prager, Anna Latos-Bielenska, Ida Vogel, Merete Bugge, Niels Tommerup, Malte Spielmann, Antonio Vitobello, Vera M. Kalscheuer, Martin Vingron, Stefan Mundlos
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-15 (2022)
Here the authors characterize structural variations (SVs) in a cohort of individuals with complex genomic rearrangements, identifying breakpoints by employing short- and long-read genome sequencing and investigate their impact on gene expression and
Externí odkaz:
https://doaj.org/article/dc4bcc3fd9a94543a5c2f94cf91155fd
Publikováno v:
Genome Biology, Vol 23, Iss 1, Pp 1-21 (2022)
Abstract Few methods have been developed to investigate copy number variants (CNVs) based on their predicted pathogenicity. We introduce TADA, a method to prioritise pathogenic CNVs through assisted manual filtering and automated classification, base
Externí odkaz:
https://doaj.org/article/3dc8554ea6034c72bfd25e69808f62c1
Autor:
Franziska Witte, Jorge Ruiz-Orera, Camilla Ciolli Mattioli, Susanne Blachut, Eleonora Adami, Jana Felicitas Schulz, Valentin Schneider-Lunitz, Oliver Hummel, Giannino Patone, Michael Benedikt Mücke, Jan Šilhavý, Matthias Heinig, Leonardo Bottolo, Daniel Sanchis, Martin Vingron, Marina Chekulaeva, Michal Pravenec, Norbert Hubner, Sebastiaan van Heesch
Publikováno v:
Genome Biology, Vol 22, Iss 1, Pp 1-34 (2021)
Abstract Background Little is known about the impact of trans-acting genetic variation on the rates with which proteins are synthesized by ribosomes. Here, we investigate the influence of such distant genetic loci on the efficiency of mRNA translatio
Externí odkaz:
https://doaj.org/article/19d7de0ec8794ef6952216fe9ea71d99
Autor:
Anna Ramisch, Verena Heinrich, Laura V. Glaser, Alisa Fuchs, Xinyi Yang, Philipp Benner, Robert Schöpflin, Na Li, Sarah Kinkley, Anja Römer-Hillmann, John Longinotto, Steffen Heyne, Beate Czepukojc, Sonja M. Kessler, Alexandra K. Kiemer, Cristina Cadenas, Laura Arrigoni, Nina Gasparoni, Thomas Manke, Thomas Pap, John A. Pospisilik, Jan Hengstler, Jörn Walter, Sebastiaan H. Meijsing, Ho-Ryun Chung, Martin Vingron
Publikováno v:
Genome Biology, Vol 20, Iss 1, Pp 1-23 (2019)
Abstract We present the software Condition-specific Regulatory Units Prediction (CRUP) to infer from epigenetic marks a list of regulatory units consisting of dynamically changing enhancers with their target genes. The workflow consists of a novel pr
Externí odkaz:
https://doaj.org/article/0837b27a1c654e23a698084a3171e903
Publikováno v:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-12 (2019)
Abstract Background Eukaryotic gene regulation is a complex process comprising the dynamic interaction of enhancers and promoters in order to activate gene expression. In recent years, research in regulatory genomics has contributed to a better under
Externí odkaz:
https://doaj.org/article/485b1df9f49a486f847fe8343b0d5140
Autor:
Xinyi Yang, Martin Vingron
Publikováno v:
BMC Biology, Vol 16, Iss 1, Pp 1-19 (2018)
Abstract Background Characterizing recurring sequence patterns in human promoters has been a challenging undertaking even nowadays where a near-complete overview of promoters exists. However, with the more recent availability of genomic location (ChI
Externí odkaz:
https://doaj.org/article/901c35ad8f69466f9575c432d3bf6ef0
Autor:
M-Hossein Moeinzadeh, Jun Yang, Evgeny Muzychenko, Giuseppe Gallone, David Heller, Knut Reinert, Stefan Haas, Martin Vingron
Publikováno v:
PLoS Computational Biology, Vol 16, Iss 5, p e1007843 (2020)
Reconstructing haplotypes from sequencing data is one of the major challenges in genetics. Haplotypes play a crucial role in many analyses, including genome-wide association studies and population genetics. Haplotype reconstruction becomes more diffi
Externí odkaz:
https://doaj.org/article/fa3a7d2c32c746ac998c1762bf531048