Publications

Ilyes Abdelhamid, Alessandro Muscoloni, Danny Marc Rotscher, Matthias Lieber, Ulf Markwardt, and Carlo Vittorio Cannistraci. Network shape intelligence outperforms AlphaFold2 intelligence in vanilla protein interaction prediction. bioRxiv, August 2023. [PUMA: AlphaFold2 intelligence interaction prediction protein vanilla xack]

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 Digit. Med., (7)1:76, March 2024. [PUMA: ai artificial clinical generative intelligence leukemia myeloid synthetic trials yaff]

Logics in Artificial Intelligence: 18th European Conference, JELIA 2023, Dresden, Germany, September 20--22, 2023, Proceedings. In Sarah Gaggl, Maria Vanina Martinez, and Magdalena Ortiz (Eds.), Lecture notes in computer science, Springer Nature Switzerland, Cham, 2023. [PUMA: AI Intelligence Logics in nopdf artificial]

Andre de Carvalho, Robson Bonidia, Jude Dzevela Kong, Mariana Dauhajre, Claudio Struchiner, Guilherme Goedert, Peter F. Stadler, Maria Emilia Walter, Danilo Sanches, Troy Day, Marcia Castro, John Edmunds, Manuel Colome-Hidalgo, Demian Arturo Herrera Morban, Edian F. Franco, Cesar Ugarte-Gil, Patricia Espinoza-Lopez, Gabriel Carrasco-Escobar, and Ulisses Rocha. Democratising Artificial Intelligence for Pandemic Preparedness and Global Governance in Latin American and Caribbean Countries. arXiv, 2024. [PUMA: Computer FOS Intelligence and information sciences zno artificial] URL

Ekaterina Borisova, Raia Abu Ahmad, Georg Rehm, Ricardo Usbeck, Jennifer D’Souza, Markus Stocker, Sören Auer, Judith Gilsbach, Anastasia Wolschewski, Johannes Keller, Daniel Schneider, Thomas Neumuth, and Sonja Schimmler. NFDI4DS Transfer and Application. Gesellschaft für Informatik e.V., 2023. [PUMA: Infrastructures Intelligence NFDI NFDI4DS Research Science zno artificial data] URL

Ngoc Thanh Nguyen, Bogdan Franczyk, André Ludwig, Manuel Núñez, Jan Treur, Gottfried Vossen, and Adrianna Kozierkiewicz. Advances in Computational Collective Intelligence: 16th International Conference, ICCCI 2024, Leipzig, Germany, September 9-11, 2024, Proceedings, Part II. (2166)Springer Nature, 2024. [PUMA: 2024 Collective Computational ICCCI Intelligence Leipzig nopdf]

Antonio Bikić, and Sayan Mukherjee. Pragmatist Intelligence: Where the Principle of Usefulness Can Take ANNs. 2024. [PUMA: ANN Intelligence; Pragmatist Usefulness; topic_mathfoundation yaff intelligence] URL

Céline N Heinz, Amelie Echle, Sebastian Foersch, Andrey Bychkov, and Jakob Nikolas Kather. The future of artificial intelligence in digital pathology - results of a survey across stakeholder groups. Histopathology, (80)7:1121--1127, Wiley, June 2022. [PUMA: artificial digital intelligence pathology survey topic_lifescience zno]

David Nam, Julius Chapiro, Valerie Paradis, Tobias Paul Seraphin, and Jakob Nikolas Kather. Artificial intelligence in liver diseases: Improving diagnostics, prognostics and response prediction. JHEP Rep., (4)4:100443, Elsevier BV, April 2022. [PUMA: AI CNN Communications DICOM Diagnosis Digital HCC Imaging Individual ML MVI Medicine NAFLD NASH Prognosis Reporting TACE TRIPOD Transparent WSIs a and artificial carcinoma chemoembolisation convolutional data deep diagnostic disease fatty for hepatocellular images imaging in integration intelligence invasion learning liver machine microvascular model multimodal multivariable network neural non-alcoholic of or prediction slide steatohepatitis support system topic_lifescience transarterial whole zno]

Chiara Maria Lavinia Loeffler, Nadina Ortiz Bruechle, Max Jung, Lancelot Seillier, Michael Rose, Narmin Ghaffari Laleh, Ruth Knuechel, Titus J Brinker, Christian Trautwein, Nadine T Gaisa, and Jakob N Kather. Artificial intelligence-based detection of FGFR3 mutational status directly from routine histology in bladder cancer: A possible preselection for molecular testing?. Eur. Urol. Focus, (8)2:472--479, Elsevier BV, March 2022. [PUMA: Bladder FGFR3 Molecular cancer factor fibroblast for growth intelligence learning mutations receptor testing therapy topic_lifescience zno artificial deep]

Roman C Maron, Achim Hekler, Sarah Haggenmüller, Christof von Kalle, Jochen S Utikal, Verena Müller, Maria Gaiser, Friedegund Meier, Sarah Hobelsberger, Frank F Gellrich, Mildred Sergon, Axel Hauschild, Lars E French, Lucie Heinzerling, Justin G Schlager, Kamran Ghoreschi, Max Schlaak, Franz J Hilke, Gabriela Poch, Sören Korsing, Carola Berking, Markus V Heppt, Michael Erdmann, Sebastian Haferkamp, Dirk Schadendorf, Wiebke Sondermann, Matthias Goebeler, Bastian Schilling, Jakob N Kather, Stefan Fröhling, Daniel B Lipka, Eva Krieghoff-Henning, and Titus J Brinker. Model soups improve performance of dermoscopic skin cancer classifiers. Eur. J. Cancer, (173):307--316, Elsevier BV, September 2022. [PUMA: Calibration Dermatology Ensembles Generalisation Melanoma Model Nevus Robustness intelligence learning soups topic_lifescience zno artificial deep]

Didem Cifci, Sebastian Foersch, and Jakob Nikolas Kather. Artificial intelligence to identify genetic alterations in conventional histopathology. J. Pathol., (257)4:430--444, Wiley, July 2022. [PUMA: artificial image oncology precision topic_lifescience zno intelligence biomarker analysis]

Scarlet Brockmoeller, Amelie Echle, Narmin Ghaffari Laleh, Susanne Eiholm, Marie Louise Malmstrøm, Tine Plato Kuhlmann, Katarina Levic, Heike Irmgard Grabsch, Nicholas P West, Oliver Lester Saldanha, Katerina Kouvidi, Aurora Bono, Lara R Heij, Titus J Brinker, Ismayil Gögenür, Philip Quirke, and Jakob Nikolas Kather. Deep learning identifies inflamed fat as a risk factor for lymph node metastasis in early colorectal cancer. J. Pathol., (256)3:269--281, Wiley, March 2022. [PUMA: AI; LNM adipose and artificial bowel colorectal deep digital early inflamed metastasis; new pT1 pT2 prediction predictive tissue; topic_lifescience zno learning intelligence pathology biomarker cancer]

Peter Leonard Schrammen, Narmin Ghaffari Laleh, Amelie Echle, Daniel Truhn, Volkmar Schulz, Titus J Brinker, Hermann Brenner, Jenny Chang-Claude, Elizabeth Alwers, Alexander Brobeil, Matthias Kloor, Lara R Heij, Dirk Jäger, Christian Trautwein, Heike I Grabsch, Philip Quirke, Nicholas P West, Michael Hoffmeister, and Jakob Nikolas Kather. Weakly supervised annotation-free cancer detection and prediction of genotype in routine histopathology. J. Pathol., (256)1:50--60, Wiley, January 2022. [PUMA: Lynch artificial colorectal computational deep digital instability microsatellite syndrome; topic_lifescience zno learning intelligence pathology cancer]

Narmin Ghaffari Laleh, Hannah Sophie Muti, Chiara Maria Lavinia Loeffler, Amelie Echle, Oliver Lester Saldanha, Faisal Mahmood, Ming Y Lu, Christian Trautwein, Rupert Langer, Bastian Dislich, Roman D Buelow, Heike Irmgard Grabsch, Hermann Brenner, Jenny Chang-Claude, Elizabeth Alwers, Titus J Brinker, Firas Khader, Daniel Truhn, Nadine T Gaisa, Peter Boor, Michael Hoffmeister, Volkmar Schulz, and Jakob Nikolas Kather. Benchmarking weakly-supervised deep learning pipelines for whole slide classification in computational pathology. Med. Image Anal., (79)102474:102474, Elsevier BV, July 2022. [PUMA: Computational Convolutional Learning; Multiple-Instance Vision Weakly-supervised deep learning neural topic_lifescience transformers; zno artificial intelligence pathology networks]

Katja Hauser, Alexander Kurz, Sarah Haggenmüller, Roman C Maron, Christof von Kalle, Jochen S Utikal, Friedegund Meier, Sarah Hobelsberger, Frank F Gellrich, Mildred Sergon, Axel Hauschild, Lars E French, Lucie Heinzerling, Justin G Schlager, Kamran Ghoreschi, Max Schlaak, Franz J Hilke, Gabriela Poch, Heinz Kutzner, Carola Berking, Markus V Heppt, Michael Erdmann, Sebastian Haferkamp, Dirk Schadendorf, Wiebke Sondermann, Matthias Goebeler, Bastian Schilling, Jakob N Kather, Stefan Fröhling, Daniel B Lipka, Achim Hekler, Eva Krieghoff-Henning, and Titus J Brinker. Explainable artificial intelligence in skin cancer recognition: A systematic review. Eur. J. Cancer, (167):54--69, Elsevier BV, May 2022. [PUMA: Dermatology; Man-machine Skin Systematic neoplasms; review systems; topic_lifescience zno artificial intelligence]

Qinghe Zeng, Christophe Klein, Stefano Caruso, Pascale Maille, Narmin Ghaffari Laleh, Daniele Sommacale, Alexis Laurent, Giuliana Amaddeo, David Gentien, Audrey Rapinat, Hélène Regnault, Cécile Charpy, Cong Trung Nguyen, Christophe Tournigand, Raffaele Brustia, Jean Michel Pawlotsky, Jakob Nikolas Kather, Maria Chiara Maiuri, Nicolas Loménie, and Julien Calderaro. Artificial intelligence predicts immune and inflammatory gene signatures directly from hepatocellular carcinoma histology. J. Hepatol., (77)1:116--127, Elsevier BV, July 2022. [PUMA: artificial deep gene image immune signatures; slide topic_lifescience whole zno learning intelligence pathology]

Chiara Maria Lavinia Loeffler, Nadine T Gaisa, Hannah Sophie Muti, Marko van Treeck, Amelie Echle, Narmin Ghaffari Laleh, Christian Trautwein, Lara R Heij, Heike I Grabsch, Nadina Ortiz Bruechle, and Jakob Nikolas Kather. Predicting mutational status of driver and suppressor genes directly from histopathology with Deep Learning: A systematic study across 23 solid tumor types. Front. Genet., (12):806386, 2021. [PUMA: (AI); TCGA; artificail cancer deep genes; genetic intelligence pathway pathway; zno learning]