Publications

Nacira Abbas, Kholoud Alghamdi, Mortaza Alinam, Francesca Alloatti, Glenda Amaral, Claudia d'Amato, Luigi Asprino, Martin Beno, Felix Bensmann, Russa Biswas, Ling Cai, Riley Capshaw, Valentina Anita Carriero, Irene Celino, Amine Dadoun, Stefano De Giorgis, Harm Delva, John Domingue, Michel Dumontier, Vincent Emonet, Marieke van Erp, Paola Espinoza Arias, Omaima Fallatah, Sebastián Ferrada, Marc Gallofré Ocaña, Michalis Georgiou, Genet Asefa Gesese, Frances Gillis-Webber, Francesca Giovannetti, Mar\`ıa Granados Buey, Ismail Harrando, Ivan Heibi, Vitor Horta, Laurine Huber, Federico Igne, Mohamad Yaser Jaradeh, Neha Keshan, Aneta Koleva, Bilal Koteich, Kabul Kurniawan, Mengya Liu, Chuangtao Ma, Lientje Maas, Martin Mansfield, Fabio Mariani, Eleonora Marzi, Sepideh Mesbah, Maheshkumar Mistry, Alba Catalina Morales Tirado, Anna Nguyen, Viet Bach Nguyen, Allard Oelen, Valentina Pasqual, Heiko Paulheim, Axel Polleres, Margherita Porena, Jan Portisch, Valentina Presutti, Kader Pustu-Iren, Ariam Rivas Mendez, Soheil Roshankish, Sebastian Rudolph, Harald Sack, Ahmad Sakor, Jaime Salas, Thomas Schleider, Meilin Shi, Gianmarco Spinaci, Chang Sun, Tabea Tietz, Molka Tounsi Dhouib, Alessandro Umbrico, Wouter van den Berg, and Weiqin Xu. Knowledge Graphs evolution and preservation -- A technical report from ISWS 2019. arXiv, 2020. [PUMA: topic_lifescience]

Ali Al-Fatlawi, Negin Malekian, Sebastián Garc\'ıa, Andreas Henschel, Ilwook Kim, Andreas Dahl, Beatrix Jahnke, Peter Bailey, Sarah Naomi Bolz, Anna R Poetsch, Sandra Mahler, Robert Grützmann, Christian Pilarsky, and Michael Schroeder. Deep learning improves pancreatic cancer diagnosis using RNA-based variants. Cancers (Basel), (13)11:2654, MDPI AG, May 2021. [PUMA: cancer; pancreatitis; study transcriptome-wide deep learning; topic_lifescience association pancreatic chronic]

Nicola J Armstrong, Karen A Mather, Muralidharan Sargurupremraj, Maria J Knol, Rainer Malik, Claudia L Satizabal, Lisa R Yanek, Wei Wen, Vilmundur G Gudnason, Nicole D Dueker, Lloyd T Elliott, Edith Hofer, Joshua Bis, Neda Jahanshad, Shuo Li, Mark A Logue, Michelle Luciano, Markus Scholz, Albert V Smith, Stella Trompet, Dina Vojinovic, Rui Xia, Fidel Alfaro-Almagro, David Ames, Najaf Amin, Philippe Amouyel, Alexa S Beiser, Henry Brodaty, Ian J Deary, Christine Fennema-Notestine, Piyush G Gampawar, Rebecca Gottesman, Ludovica Griffanti, Clifford R Jack, Jr, Mark Jenkinson, Jiyang Jiang, Brian G Kral, John B Kwok, Leonie Lampe, David C M Liewald, Pauline Maillard, Jonathan Marchini, Mark E Bastin, Bernard Mazoyer, Lukas Pirpamer, José Rafael Romero, Gennady V Roshchupkin, Peter R Schofield, Matthias L Schroeter, David J Stott, Anbupalam Thalamuthu, Julian Trollor, Christophe Tzourio, Jeroen van der Grond, Meike W Vernooij, Veronica A Witte, Margaret J Wright, Qiong Yang, Zoe Morris, Siggi Siggurdsson, Bruce Psaty, Arno Villringer, Helena Schmidt, Asta K Haberg, Cornelia M van Duijn, J Wouter Jukema, Martin Dichgans, Ralph L Sacco, Clinton B Wright, William S Kremen, Lewis C Becker, Paul M Thompson, Thomas H Mosley, Joanna M Wardlaw, M Arfan Ikram, Hieab H H Adams, Sudha Seshadri, Perminder S Sachdev, Stephen M Smith, Lenore Launer, William Longstreth, Charles DeCarli, Reinhold Schmidt, Myriam Fornage, Stephanie Debette, and Paul A Nyquist. Common genetic variation indicates separate causes for periventricular and deep white matter hyperintensities. Stroke, (51)7:2111--2121, Ovid Technologies (Wolters Kluwer Health), July 2020. [PUMA: genome-wide neuroimaging; white study; topic_lifescience association brain; risk factors; matter]

Mina Ghadimi Atigh, Martin Keller-Ressel, and Pascal Mettes. Hyperbolic Busemann Learning with ideal prototypes. arXiv, 2021. [PUMA: topic_lifescience]

Franz Baader, and Filippo De Bortoli. Description Logics that Count, and What They Can and Cannot Count (Extended Abstract). In Stefan Borgwardt, and Thomas Meyer (Eds.), Proceedings of the 33rd International Workshop on Description Logics (DL'20), (2663)CEUR-WS, Online, 2020. [PUMA: topic_lifescience]

Franz Baader, and Francesco Kriegel. Pushing Optimal ABox Repair from ℰℒ Towards More Expressive Horn-DLs (Extended Version). 22-02Dresden, Germany, 2022. [PUMA: topic_lifescience area_methods]

Manuel Bodirsky, Thomas Feller, Simon Knauer, and Sebastian Rudolph. On Logics and Homomorphism Closure. 2021 36th Annual ACM/IEEE Symposium on Logic in Computer Science (LICS), IEEE, June 2021. [PUMA: topic_lifescience]

Alexander Bondarenko, Maik Fröbe, Johannes Kiesel, Ferdinand Schlatt, Valentin Barriere, Brian Ravenet, Léo Hemamou, Simon Luck, Jan Heinrich Reimer, Benno Stein, Martin Potthast, and Matthias Hagen. Overview of touché 2023: Argument and causal retrieval. Lecture Notes in Computer Science, 527--535, Springer Nature Switzerland, Cham, 2023. [PUMA: topic_lifescience]

Nina G Bozhanova, Andrew I Flyak, Benjamin P Brown, Stormy E Ruiz, Jordan Salas, Semi Rho, Robin G Bombardi, Luke Myers, Cinque Soto, Justin R Bailey, James E Crowe, Jr, Pamela J Bjorkman, and Jens Meiler. Computational identification of HCV neutralizing antibodies with a common HCDR3 disulfide bond motif in the antibody repertoires of infected individuals. Nat. Commun., (13)1:3178, Springer Science and Business Media LLC, June 2022. [PUMA: topic_lifescience]

Nina G Bozhanova, Joel M Harp, Brian J Bender, Alexey S Gavrikov, Dmitry A Gorbachev, Mikhail S Baranov, Christina B Mercado, Xuan Zhang, Konstantin A Lukyanov, Alexander S Mishin, and Jens Meiler. Computational redesign of a fluorogen activating protein with Rosetta. PLoS Comput. Biol., (17)11:e1009555, Public Library of Science (PLoS), November 2021. [PUMA: topic_lifescience]

Titus J Brinker, Max Schmitt, Eva I Krieghoff-Henning, Raymond Barnhill, Helmut Beltraminelli, Stephan A Braun, Richard Carr, Maria-Teresa Fernandez-Figueras, Gerardo Ferrara, Sylvie Fraitag, Raffaele Gianotti, Mar Llamas-Velasco, Cornelia S L Müller, Antonio Perasole, Luis Requena, Omar P Sangueza, Carlos Santonja, Hans Starz, Esmeralda Vale, Wolfgang Weyers, Achim Hekler, Jakob N Kather, Stefan Fröhling, Dieter Krahl, Tim Holland-Letz, Jochen S Utikal, Andrea Saggini, and Heinz Kutzner. Diagnostic performance of artificial intelligence for histologic melanoma recognition compared to 18 international expert pathologists. J. Am. Acad. Dermatol., (86)3:640--642, Elsevier BV, March 2022. [PUMA: topic_lifescience]

Benjamin P Brown, Jeffrey Mendenhall, Alexander R Geanes, and Jens Meiler. General purpose structure-based drug discovery neural network score functions with human-interpretable pharmacophore maps. J. Chem. Inf. Model., (61)2:603--620, American Chemical Society (ACS), February 2021. [PUMA: topic_lifescience]

Benjamin P Brown, Oanh Vu, Alexander R Geanes, Sandeepkumar Kothiwale, Mariusz Butkiewicz, Edward W Lowe, Jr, Ralf Mueller, Richard Pape, Jeffrey Mendenhall, and Jens Meiler. Introduction to the BioChemical Library (BCL): An application-based open-source toolkit for integrated cheminformatics and machine learning in computer-aided drug discovery. Front. Pharmacol., (13):833099, Frontiers Media SA, February 2022. [PUMA: discovery; library; cheminformatics; deep network; neural biochemical open-source BCL; drug design; topic_lifescience QSAR;]

Björn Böttcher, Martin Keller-Ressel, and René L Schilling. Distance multivariance: New dependence measures for random vectors. Ann. Stat., (47)5:2757--2789, Institute of Mathematical Statistics, October 2019. [PUMA: topic_lifescience]

Gail Davies, Max Lam, Sarah E Harris, Joey W Trampush, Michelle Luciano, W David Hill, Saskia P Hagenaars, Stuart J Ritchie, Riccardo E Marioni, Chloe Fawns-Ritchie, David C M Liewald, Judith A Okely, Ari V Ahola-Olli, Catriona L K Barnes, Lars Bertram, Joshua C Bis, Katherine E Burdick, Andrea Christoforou, Pamela DeRosse, Srdjan Djurovic, Thomas Espeseth, Stella Giakoumaki, Sudheer Giddaluru, Daniel E Gustavson, Caroline Hayward, Edith Hofer, M Arfan Ikram, Robert Karlsson, Emma Knowles, Jari Lahti, Markus Leber, Shuo Li, Karen A Mather, Ingrid Melle, Derek Morris, Christopher Oldmeadow, Teemu Palviainen, Antony Payton, Raha Pazoki, Katja Petrovic, Chandra A Reynolds, Muralidharan Sargurupremraj, Markus Scholz, Jennifer A Smith, Albert V Smith, Natalie Terzikhan, Anbupalam Thalamuthu, Stella Trompet, Sven J van der Lee, Erin B Ware, B Gwen Windham, Margaret J Wright, Jingyun Yang, Jin Yu, David Ames, Najaf Amin, Philippe Amouyel, Ole A Andreassen, Nicola J Armstrong, Amelia A Assareh, John R Attia, Deborah Attix, Dimitrios Avramopoulos, David A Bennett, Anne C Böhmer, Patricia A Boyle, Henry Brodaty, Harry Campbell, Tyrone D Cannon, Elizabeth T Cirulli, Eliza Congdon, Emily Drabant Conley, Janie Corley, Simon R Cox, Anders M Dale, Abbas Dehghan, Danielle Dick, Dwight Dickinson, Johan G Eriksson, Evangelos Evangelou, Jessica D Faul, Ian Ford, Nelson A Freimer, He Gao, Ina Giegling, Nathan A Gillespie, Scott D Gordon, Rebecca F Gottesman, Michael E Griswold, Vilmundur Gudnason, Tamara B Harris, Annette M Hartmann, Alex Hatzimanolis, Gerardo Heiss, Elizabeth G Holliday, Peter K Joshi, Mika Kähönen, Sharon L R Kardia, Ida Karlsson, Luca Kleineidam, David S Knopman, Nicole A Kochan, Bettina Konte, John B Kwok, Stephanie Le Hellard, Teresa Lee, Terho Lehtimäki, Shu-Chen Li, Christina M Lill, Tian Liu, Marisa Koini, Edythe London, Will T Longstreth, Jr, Oscar L Lopez, Anu Loukola, Tobias Luck, Astri J Lundervold, Anders Lundquist, Leo-Pekka Lyytikäinen, Nicholas G Martin, Grant W Montgomery, Alison D Murray, Anna C Need, Raymond Noordam, Lars Nyberg, William Ollier, Goran Papenberg, Alison Pattie, Ozren Polasek, Russell A Poldrack, Bruce M Psaty, Simone Reppermund, Steffi G Riedel-Heller, Richard J Rose, Jerome I Rotter, Panos Roussos, Suvi P Rovio, Yasaman Saba, Fred W Sabb, Perminder S Sachdev, Claudia L Satizabal, Matthias Schmid, Rodney J Scott, Matthew A Scult, Jeannette Simino, P Eline Slagboom, Nikolaos Smyrnis, A\"ıcha Soumaré, Nikos C Stefanis, David J Stott, Richard E Straub, Kjetil Sundet, Adele M Taylor, Kent D Taylor, Ioanna Tzoulaki, Christophe Tzourio, André Uitterlinden, Veronique Vitart, Aristotle N Voineskos, Jaakko Kaprio, Michael Wagner, Holger Wagner, Leonie Weinhold, K Hoyan Wen, Elisabeth Widen, Qiong Yang, Wei Zhao, Hieab H H Adams, Dan E Arking, Robert M Bilder, Panos Bitsios, Eric Boerwinkle, Ornit Chiba-Falek, Aiden Corvin, Philip L De Jager, Stéphanie Debette, Gary Donohoe, Paul Elliott, Annette L Fitzpatrick, Michael Gill, David C Glahn, Sara Hägg, Narelle K Hansell, Ahmad R Hariri, M Kamran Ikram, J Wouter Jukema, Eero Vuoksimaa, Matthew C Keller, William S Kremen, Lenore Launer, Ulman Lindenberger, Aarno Palotie, Nancy L Pedersen, Neil Pendleton, David J Porteous, Katri Räikkönen, Olli T Raitakari, Alfredo Ramirez, Ivar Reinvang, Igor Rudan, Dan Rujescu, Reinhold Schmidt, Helena Schmidt, Peter W Schofield, Peter R Schofield, John M Starr, Vidar M Steen, Julian N Trollor, Steven T Turner, Cornelia M Van Duijn, Arno Villringer, Daniel R Weinberger, David R Weir, James F Wilson, Anil Malhotra, Andrew M McIntosh, Catharine R Gale, Sudha Seshadri, Thomas H Mosley, Jr, Jan Bressler, Todd Lencz, and Ian J Deary. Study of 300,486 individuals identifies 148 independent genetic loci influencing general cognitive function. Nat. Commun., (9)1Springer Science and Business Media LLC, May 2018. [PUMA: topic_lifescience]

Diego Del Alamo, Kevin L Jagessar, Jens Meiler, and Hassane S Mchaourab. Methodology for rigorous modeling of protein conformational changes by Rosetta using DEER distance restraints. PLoS Comput. Biol., (17)6:e1009107, Public Library of Science (PLoS), June 2021. [PUMA: topic_lifescience]

Jan-Niklas Eckardt, Waldemar Hahn, Christoph Röllig, Sebastian Stasik, Uwe Platzbecker, Carsten Müller-Tidow, Hubert Serve, Claudia D. Baldus, Christoph Schliemann, Kerstin Schäfer-Eckart, Maher Hanoun, Martin Kaufmann, Andreas Burchert, Christian Thiede, Johannes Schetelig, Martin Sedlmayr, Martin Bornhäuser, Markus Wolfien, and Jan Moritz Middeke. Mimicking clinical trials with synthetic acute myeloid leukemia patients using generative artificial intelligence. npj Digital Medicine, (7)1:76, March 2024. [PUMA: topic_lifescience] URL

Nico Eisenhauer, Karin Frank, Alexandra Weigelt, Bartosz Bartkowski, Rémy Beugnon, Katja Liebal, Miguel Mahecha, Martin Quaas, Djamil Al-Halbouni, Ana Bastos, Friedrich J. Bohn, Mariana Madruga de Brito, Joachim Denzler, Hannes Feilhauer, Rico Fischer, Immo Fritsche, Claudia Guimaraes-Steinicke, Martin Hänsel, Daniel B. M. Haun, Hartmut Herrmann, Andreas Huth, Heike Kalesse-Los, Michael Koetter, Nina Kolleck, Melanie Krause, Marlene Kretschmer, Pedro J. Leitão, Torsten Masson, Karin Mora, Birgit Müller, Jian Peng, Mira L. Pöhlker, Leonie Ratzke, Markus Reichstein, Solveig Richter, Nadja Rüger, Beatriz Sánchez-Parra, Maha Shadaydeh, Sebastian Sippel, Ina Tegen, Daniela Thrän, Josefine Umlauft, Manfred Wendisch, Kevin Wolf, Christian Wirth, Hannes Zacher, Sönke Zaehle, and Johannes Quaas. A belowground perspective on the nexus between biodiversity change, climate change, and human well-being. Journal of Sustainable Agriculture and Environment, (3)2:e212108, 2024. [PUMA: change, well-being, biodiversity topic_lifescience climate soil human] URL

Theresa Elstner, Johannes Kiesel, Lars Meyer, Max Martius, Sebastian Schmidt, Benno Stein, and Martin Potthast. Visual Web Archive Quality Assessment. Linking Theory and Practice of Digital Libraries, 365--371, Springer International Publishing, Cham, 2022. [PUMA: topic_lifescience]

Maik Fröbe, Jan Heinrich Reimer, Sean MacAvaney, Niklas Deckers, Simon Reich, Janek Bevendorff, Benno Stein, Matthias Hagen, and Martin Potthast. The information retrieval experiment platform. Proceedings of the 46th International ACM SIGIR Conference on Research and Development in Information Retrieval, ACM, New York, NY, USA, July 2023. [PUMA: topic_lifescience]