Publications by authors named "Simon Lukas"

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Single-nucleus multiomics reveals the disrupted regulatory programs in three brain regions of sporadic early-onset Alzheimer's disease.
Andi Liu, Citu Citu, Nitesh Enduru, Xian Chen, Chia-Hao Tung, Lukas M Simon

Sci Adv· December 2025

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TCA cycle mode switch determines the fate of pirtobrutinib-tolerant persister cells in mantle cell lymphoma.
Wei Wang, Qingsong Cai, Yang Liu, Lei Nie, Heng-Huan Lee, Lukas Mikolaj Simon

Blood· November 2025

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FADVI: disentangled representation learning for robust integration of single-cell and spatial omics data.
Wendao Liu, Gang Qu, Lukas M Simon, Fabian J Theis, Zhongming Zhao

bioRxiv· November 2025

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Single-cell multiome characterizing intercellular communication and intracellular regulation of epithelium and mesenchymal during secondary palate development in mice.
Usama Hussein, Yulin Dai, Andi Liu, Toshiyuki Itai, Fangfang Yan, Lukas M Simon

Comput Struct Biotechnol J· October 2025

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Let-7 restrains an epigenetic circuit in AT2 cells to prevent fibrogenic intermediates in pulmonary fibrosis.
Matthew J Seasock, Md Shafiquzzaman, Maria E Ruiz-Echartea, Rupa S Kanchi, Brandon T Tran, Lukas M Simon

Nat Commun· May 2025

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restrains an oncogenic circuit in AT2 cells to prevent fibrogenic cell intermediates in pulmonary fibrosis.
Matthew J Seasock, Md Shafiquzzaman, Maria E Ruiz-Echartea, Rupa S Kanchi, Brandon T Tran, Lukas M Simon

bioRxiv· February 2025

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Long-term FXa inhibition attenuates thromboinflammation after acute myocardial infarction and stroke by platelet proteome alteration.
Amin Polzin, Marcel Benkhoff, Manuela Thienel, Maike Barcik, Philipp Mourikis, Lukas Simon

J Thromb Haemost· February 2025

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Bio-primed machine learning to enhance discovery of relevant biomarkers.
David M Henke, Alexander Renwick, Joseph R Zoeller, Jitendra K Meena, Nicholas J Neill, Lukas M Simon

NPJ Precis Oncol· February 2025

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MYC Induces Oncogenic Stress through RNA Decay and Ribonucleotide Catabolism in Breast Cancer.
Jitendra K Meena, Jarey H Wang, Nicholas J Neill, Dianne Keough, Nagireddy Putluri, Lukas M Simon

Cancer Discov· September 2024

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Single-nucleus multiomics reveals the disrupted regulatory programs in three brain regions of sporadic early-onset Alzheimer's disease.
Zhongming Zhao, Andi Liu, Citu Citu, Nitesh Enduru, Xian Chen, Lukas Simon

Res Sq· August 2024

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DeepFace: Deep-learning-based framework to contextualize orofacial-cleft-related variants during human embryonic craniofacial development.
Yulin Dai, Toshiyuki Itai, Guangsheng Pei, Fangfang Yan, Yan Chu, Lukas M Simon

HGG Adv· July 2024

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Investigating gene functions and single-cell expression profiles of de novo variants in orofacial clefts.
Toshiyuki Itai, Fangfang Yan, Andi Liu, Yulin Dai, Chihiro Iwaya, Lukas M Simon

HGG Adv· July 2024

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DeepFace: Deep-learning-based framework to contextualize orofacial-cleft-related variants during human embryonic craniofacial development.
Yulin Dai, Toshiyuki Itai, Guangsheng Pei, Fangfang Yan, Yan Chu, Lukas M Simon

HGG Adv· July 2024

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Author Correction: IRE1α-XBP1s pathway promotes prostate cancer by activating c-MYC signaling.
Xia Sheng, Hatice Zeynep Nenseth, Su Qu, Omer F Kuzu, Turid Frahnow, Lukas Simon

Nat Commun· July 2024

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Leveraging Integrated RNA Sequencing to Decipher Adrenomedullin's Protective Mechanisms in Experimental Bronchopulmonary Dysplasia.
Subarna Palit, Amrit Kumar Shrestha, Shyam Thapa, Sandra L Grimm, Cristian Coarfa, Lukas M Simon

Genes (Basel)· June 2024

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Single-nucleus multiomics reveals the disrupted regulatory programs in three brain regions of sporadic early-onset Alzheimer's disease.
Andi Liu, Citu Citu, Nitesh Enduru, Xian Chen, Astrid M Manuel, Lukas M Simon

bioRxiv· June 2024

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The HSP90-MYC-CDK9 network drives therapeutic resistance in mantle cell lymphoma.
Fangfang Yan, Vivian Jiang, Alexa Jordan, Yuxuan Che, Yang Liu, Lukas M Simon

Exp Hematol Oncol· February 2024

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Single-cell multiomics decodes regulatory programs for mouse secondary palate development.
Fangfang Yan, Akiko Suzuki, Chihiro Iwaya, Guangsheng Pei, Xian Chen, Lukas M Simon

Nat Commun· January 2024

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Microbial fingerprints reveal interaction between museum objects, curators, and visitors.
Lukas M Simon, Cecilia Flocco, Franziska Burkart, Anika Methner, David Henke

iScience· September 2023

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MitoTrace: A Computational Framework for Analyzing Mitochondrial Variation in Single-Cell RNA Sequencing Data.
Mingqiang Wang, Wankun Deng, David C Samuels, Zhongming Zhao, Lukas M Simon

Genes (Basel)· June 2023

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deCS: A Tool for Systematic Cell Type Annotations of Single-cell RNA Sequencing Data among Human Tissues.
Guangsheng Pei, Fangfang Yan, Lukas M Simon, Yulin Dai, Peilin Jia

Genomics Proteomics Bioinformatics· April 2023

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Hypothesis of a potential BrainBiota and its relation to CNS autoimmune inflammation.
Maria L Elkjaer, Lukas Simon, Tobias Frisch, Lisa-Marie Bente, Tim Kacprowski

Front Immunol· December 2022

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Acute depletion of human core nucleoporin reveals direct roles in transcription control but dispensability for 3D genome organization.
Xiaoyu Zhu, Chuangye Qi, Ruoyu Wang, Joo-Hyung Lee, Jiaofang Shao, Lukas M Simon

Cell Rep· November 2022

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Knee Ligament Sprains: Diagnosing Anterior Cruciate Ligament Injuries by Patient Interview. Development and Evaluation of the Anterior Cruciate Ligament Injury Score (ACLIS).
Simon Lukas, Sophie Putman, Cyril Delay, Alexandre Blairon, Emmanuel Chazard

Orthop Traumatol Surg Res· May 2022

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EmptyNN: A neural network based on positive and unlabeled learning to remove cell-free droplets and recover lost cells in scRNA-seq data.
Fangfang Yan, Zhongming Zhao, Lukas M Simon

Patterns (N Y)· August 2021

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