Zobrazeno 1 - 10
of 194
pro vyhledávání: '"Mathieu, Blanchette"'
Autor:
Chrisostomos Drogaris, Yanlin Zhang, Eric Zhang, Elena Nazarova, Roman Sarrazin-Gendron, Sélik Wilhelm-Landry, Yan Cyr, Jacek Majewski, Mathieu Blanchette, Jérôme Waldispühl
Publikováno v:
BMC Bioinformatics, Vol 25, Iss 1, Pp 1-14 (2024)
Abstract Over the past two decades, scientists have increasingly realized the importance of the three-dimensional (3D) genome organization in regulating cellular activity. Hi-C and related experiments yield 2D contact matrices that can be used to inf
Externí odkaz:
https://doaj.org/article/9883fb4235054b849ee2e9030d8e56ba
Publikováno v:
Frontiers in Bioinformatics, Vol 3 (2024)
Hi-C is one of the most widely used approaches to study three-dimensional genome conformations. Contacts captured by a Hi-C experiment are represented in a contact frequency matrix. Due to the limited sequencing depth and other factors, Hi-C contact
Externí odkaz:
https://doaj.org/article/f5cebd6f57544fea9b82ee960cee3fc2
Publikováno v:
iScience, Vol 27, Iss 2, Pp 109002- (2024)
Summary: This study focuses on enhancing the prediction of regulatory functional sites in DNA and RNA sequences, a crucial aspect of gene regulation. Current methods, such as motif overrepresentation and machine learning, often lack specificity. To a
Externí odkaz:
https://doaj.org/article/f9bff602b6ad426f9be84e6d0387eb37
Autor:
Melissa Zwaig, Audrey Baguette, Bo Hu, Michael Johnston, Hussein Lakkis, Emily M. Nakada, Damien Faury, Nikoleta Juretic, Benjamin Ellezam, Alexandre G. Weil, Jason Karamchandani, Jacek Majewski, Mathieu Blanchette, Michael D. Taylor, Marco Gallo, Claudia L. Kleinman, Nada Jabado, Jiannis Ragoussis
Publikováno v:
BMC Cancer, Vol 22, Iss 1, Pp 1-13 (2022)
Abstract Background Juvenile Pilocytic Astrocytomas (JPAs) are one of the most common pediatric brain tumors, and they are driven by aberrant activation of the mitogen-activated protein kinase (MAPK) signaling pathway. RAF-fusions are the most common
Externí odkaz:
https://doaj.org/article/4381905f37b94a1eb20515d76b4091cd
Autor:
Yanlin Zhang, Mathieu Blanchette
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-12 (2022)
Predicting topological structures from Hi-C data provides insight into comprehending gene expression and regulation. Here, the authors present RefHiC, an attention-based deep learning framework that leverages a reference panel of Hi-C datasets to ass
Externí odkaz:
https://doaj.org/article/51b3fddd600a4de99e9d42ad3959ed31
Publikováno v:
BMC Research Notes, Vol 13, Iss 1, Pp 1-4 (2020)
Abstract Objective Ligation-Mediated Amplification (LMA) is a versatile biochemical tool for amplifying selected DNA sequences. LMA has increased in popularity due to its integration within chromosome conformation capture (5C) and chromatin immunopre
Externí odkaz:
https://doaj.org/article/10f3daefd8bf451497c7b8ba1859c0bb
Autor:
Alessandro Bonetti, Federico Agostini, Ana Maria Suzuki, Kosuke Hashimoto, Giovanni Pascarella, Juliette Gimenez, Leonie Roos, Alex J. Nash, Marco Ghilotti, Christopher J. F. Cameron, Matthew Valentine, Yulia A. Medvedeva, Shuhei Noguchi, Eneritz Agirre, Kaori Kashi, Samudyata, Joachim Luginbühl, Riccardo Cazzoli, Saumya Agrawal, Nicholas M. Luscombe, Mathieu Blanchette, Takeya Kasukawa, Michiel de Hoon, Erik Arner, Boris Lenhard, Charles Plessy, Gonçalo Castelo-Branco, Valerio Orlando, Piero Carninci
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-14 (2020)
Mammalian genomes encode tens of thousands of ncRNAs that have important roles in regulation of gene expression and chromatin organization. Here, the authors present RADICLseq to map RNA-chromatin interactions in intact nuclei to shed light on these
Externí odkaz:
https://doaj.org/article/3ee35708eeee438bbb6649cdd0169ea5
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-15 (2020)
Abstract Hi-C is a popular technique to map three-dimensional chromosome conformation. In principle, Hi-C’s resolution is only limited by the size of restriction fragments. However, insufficient sequencing depth forces researchers to artificially r
Externí odkaz:
https://doaj.org/article/6f2be5e0bc9c4a4db400423d3ebc5bac
Autor:
Sharon Harel, Veronica Sanchez, Alaa Moamer, Javier E. Sanchez-Galan, Mohammad N. Abid Hussein, Dominique Mayaki, Mathieu Blanchette, Sabah N. A. Hussain
Publikováno v:
Frontiers in Physiology, Vol 12 (2021)
BackgroundAngiopoietin-1 (Ang-1) is the main ligand of Tie-2 receptors. It promotes endothelial cell (EC) survival, migration, and differentiation. Little is known about the transcription factors (TFs) in ECs that are downstream from Tie-2 receptors.
Externí odkaz:
https://doaj.org/article/f3899ee968d44985baad7e2ba6141391
Autor:
Xue Qing David Wang, Christopher J. F. Cameron, Denis Paquette, Dana Segal, Reid Warsaba, Mathieu Blanchette, Josée Dostie
Publikováno v:
BMC Genomics, Vol 20, Iss 1, Pp 1-16 (2019)
Abstract Background Understanding how transcription occurs requires the integration of genome-wide and locus-specific information gleaned from robust technologies. Chromatin immunoprecipitation (ChIP) is a staple in gene expression studies, and while
Externí odkaz:
https://doaj.org/article/c42efafcb2e14cee9062b99d184e3af9