DS-PACK: Tool assembly for the end-to-end support of controlled access human data sharing

Autor: Pinar Alper, Vilém Dĕd, Sascha Herzinger, Valentin Grouès, Sarah Peter, Jacek Lebioda, Linda Ebermann, Marina Popleteeva, Nene Djenaba Barry, Danielle Welter, Soumyabrata Ghosh, Regina Becker, Reinhard Schneider, Wei Gu, Christophe Trefois, Venkata Satagopam

Publikováno v: Scientific Data, Vol 11, Iss 1, Pp 1-11 (2024)

Abstract The EU General Data Protection Regulation (GDPR) requirements have prompted a shift from centralised controlled access genome-phenome archives to federated models for sharing sensitive human data. In a data-sharing federation, a central node

Externí odkaz: https://doaj.org/article/3699a1adddf64a0187083ad77ea3e226

Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches

Autor: Anna Niarakis, Marek Ostaszewski, Alexander Mazein, Inna Kuperstein, Martina Kutmon, Marc E. Gillespie, Akira Funahashi, Marcio Luis Acencio, Ahmed Hemedan, Michael Aichem, Karsten Klein, Tobias Czauderna, Felicia Burtscher, Takahiro G. Yamada, Yusuke Hiki, Noriko F. Hiroi, Finterly Hu, Nhung Pham, Friederike Ehrhart, Egon L. Willighagen, Alberto Valdeolivas, Aurelien Dugourd, Francesco Messina, Marina Esteban-Medina, Maria Peña-Chilet, Kinza Rian, Sylvain Soliman, Sara Sadat Aghamiri, Bhanwar Lal Puniya, Aurélien Naldi, Tomáš Helikar, Vidisha Singh, Marco Fariñas Fernández, Viviam Bermudez, Eirini Tsirvouli, Arnau Montagud, Vincent Noël, Miguel Ponce-de-Leon, Dieter Maier, Angela Bauch, Benjamin M. Gyori, John A. Bachman, Augustin Luna, Janet Piñero, Laura I. Furlong, Irina Balaur, Adrien Rougny, Yohan Jarosz, Rupert W. Overall, Robert Phair, Livia Perfetto, Lisa Matthews, Devasahayam Arokia Balaya Rex, Marija Orlic-Milacic, Luis Cristobal Monraz Gomez, Bertrand De Meulder, Jean Marie Ravel, Bijay Jassal, Venkata Satagopam, Guanming Wu, Martin Golebiewski, Piotr Gawron, Laurence Calzone, Jacques S. Beckmann, Chris T. Evelo, Peter D’Eustachio, Falk Schreiber, Julio Saez-Rodriguez, Joaquin Dopazo, Martin Kuiper, Alfonso Valencia, Olaf Wolkenhauer, Hiroaki Kitano, Emmanuel Barillot, Charles Auffray, Rudi Balling, Reinhard Schneider, the COVID-19 Disease Map Community

Publikováno v: Frontiers in Immunology, Vol 14 (2024)

IntroductionThe COVID-19 Disease Map project is a large-scale community effort uniting 277 scientists from 130 Institutions around the globe. We use high-quality, mechanistic content describing SARS-CoV-2-host interactions and develop interoperable b

Externí odkaz: https://doaj.org/article/ac53015acf3143cf9c3f232ae67ad161

Structural and Morphological Studies of Pt in the As-Grown and Encapsulated States and Dependency on Film Thickness

Autor: Berkin Nergis, Sondes Bauer, Xiaowei Jin, Lukas Horak, Reinhard Schneider, Vaclav Holy, Klaus Seemann, Sven Ulrich, Tilo Baumbach

Publikováno v: Nanomaterials, Vol 14, Iss 8, p 725 (2024)

The morphology and crystal structure of Pt films grown by pulsed laser deposition (PLD) on yttria-stabilized zirconia (YSZ)at high temperatures Tg = 900 °C was studied for four different film thicknesses varying between 10 and 70 nm. During the subs

Externí odkaz: https://doaj.org/article/d550802240cd478786d6c4e379d9f244

Visualization of automatically combined disease maps and pathway diagrams for rare diseases

Autor: Piotr Gawron, David Hoksza, Janet Piñero, Maria Peña-Chilet, Marina Esteban-Medina, Jose Luis Fernandez-Rueda, Vincenza Colonna, Ewa Smula, Laurent Heirendt, François Ancien, Valentin Groues, Venkata P. Satagopam, Reinhard Schneider, Joaquin Dopazo, Laura I. Furlong, Marek Ostaszewski

Publikováno v: Frontiers in Bioinformatics, Vol 3 (2023)

Introduction: Investigation of molecular mechanisms of human disorders, especially rare diseases, require exploration of various knowledge repositories for building precise hypotheses and complex data interpretation. Recently, increasingly more resou

Externí odkaz: https://doaj.org/article/2a8ecff469be48179eb1a3911ed85df0

Applications of Boolean modeling to study the dynamics of a complex disease and therapeutics responses

Autor: Ahmed Abdelmonem Hemedan, Reinhard Schneider, Marek Ostaszewski

Publikováno v: Frontiers in Bioinformatics, Vol 3 (2023)

Computational modeling has emerged as a critical tool in investigating the complex molecular processes involved in biological systems and diseases. In this study, we apply Boolean modeling to uncover the molecular mechanisms underlying Parkinson’s

Externí odkaz: https://doaj.org/article/3b3e66a0c8f248a59b329ca400709c4e