Best practices for single-cell analysis across modalities L Heumos, AC Schaar, C Lance, A Litinetskaya, F Drost, L Zappia, ... Nature Reviews Genetics 24 (8), 550-572, 2023 | 263 | 2023 |
An integrated cell atlas of the lung in health and disease L Sikkema, C Ramírez-Suástegui, DC Strobl, TE Gillett, L Zappia, ... Nature Medicine 29 (6), 1563-1577, 2023 | 226* | 2023 |
The scverse project provides a computational ecosystem for single-cell omics data analysis I Virshup*, D Bredikhin*, L Heumos*, G Palla, G Sturm, A Gayoso, I Kats, ... Nature biotechnology 41 (5), 604-606, 2023 | 67 | 2023 |
Comparative targeting analysis of KLF1, BCL11A, and HBG1/2 in CD34+ HSPCs by CRISPR/Cas9 for the induction of fetal hemoglobin A Lamsfus-Calle, A Daniel-Moreno, JS Antony, T Epting, L Heumos, ... Scientific reports 10 (1), 10133, 2020 | 52 | 2020 |
The AIMe registry for artificial intelligence in biomedical research J Matschinske, N Alcaraz, A Benis, M Golebiewski, DG Grimm, L Heumos, ... Nature methods 18 (10), 1128-1131, 2021 | 44 | 2021 |
MHCquant: Automated and reproducible data analysis for immunopeptidomics L Bichmann, A Nelde, M Ghosh, L Heumos, C Mohr, A Peltzer, ... Journal of proteome research 18 (11), 3876-3884, 2019 | 41 | 2019 |
Sfaira accelerates data and model reuse in single cell genomics DS Fischer, L Dony, M König, A Moeed, L Zappia, L Heumos, S Tritschler, ... Genome biology 22 (1), 1-21, 2021 | 27 | 2021 |
Ex vivo tissue perturbations coupled to single-cell RNA-seq reveal multilineage cell circuit dynamics in human lung fibrogenesis NJ Lang, J Gote-Schniering, D Porras-Gonzalez, L Yang, LJ De Sadeleer, ... Science translational medicine 15 (725), eadh0908, 2023 | 13 | 2023 |
A mutation-agnostic hematopoietic stem cell gene therapy for metachromatic leukodystrophy JS Antony, A Daniel-Moreno, A Lamsfus-Calle, J Raju, M Kaftancioglu, ... The CRISPR Journal 5 (1), 66-79, 2022 | 12 | 2022 |
Probe set selection for targeted spatial transcriptomics LB Kuemmerle, MD Luecken, AB Firsova, LB de Andrade e Sousa, ... bioRxiv, 2022.08. 16.504115, 2022 | 5 | 2022 |
Universal gene correction approaches for β-hemoglobinopathies using CRISPR-Cas9 and adeno-associated virus serotype 6 donor templates A Lamsfus-Calle, A Daniel-Moreno, G Ureña-Bailén, J Rottenberger, ... The CRISPR Journal 4 (2), 207-222, 2021 | 4 | 2021 |
hadge: a comprehensive pipeline for donor deconvolution in single-cell studies F Curion*, X Wu*, L Heumos*, MMG André, L Halle, M Ozols, ... Genome Biology 25 (1), 109, 2024 | 2* | 2024 |
OpenMS 3 enables reproducible analysis of large-scale mass spectrometry data J Pfeuffer, C Bielow, S Wein, K Jeong, E Netz, A Walter, O Alka, L Nilse, ... Nature Methods, 1-3, 2024 | 2 | 2024 |
A spatially resolved extracellular matrix proteome atlas of the distal human lung Y Chen, J Gote-Schniering, M Müller, P Albanese, A Jankevics, ... European Respiratory Journal 62 (suppl 67), 2023 | 1 | 2023 |
mlf-core: a framework for deterministic machine learning L Heumos, P Ehmele, L Kuhn Cuellar, K Menden, E Miller, S Lemke, ... Bioinformatics 39 (4), btad164, 2023 | 1 | 2023 |
Ex vivo modeling of human lung fibrogenesis and drug mode of action screens using single cell RNA-seq in precision-cut lung slices NJ Lang, M Ansari, L Yang, S Zhou, D Porras-Gonzalez, A Agami, ... European Respiratory Journal 60 (suppl 66), 2022 | 1 | 2022 |
Cluster efficient pangenome graph construction with nf-core/pangenome S Heumos, ML Heuer, F Hanssen, L Heumos, A Guarracino, P Heringer, ... bioRxiv, 2024.05. 13.593871, 2024 | | 2024 |
Exploratory electronic health record analysis with ehrapy L Heumos, P Ehmele, T Treis, J Upmeier zu Belzen, A Namsaraeva, ... medRxiv, 2023.12. 11.23299816, 2023 | | 2023 |
Myeloid-dependent immunosuppressive features drive IPF progression T Kapellos, V Viteri, D Sirokha, F Greiffo, A Namsaraeva, L Heumos, ... European Respiratory Journal 62 (suppl 67), 2023 | | 2023 |
Myeloid-Dependent Immunosuppressive Features Drive IPF Progression IE Fernandez, T Kapellos, V Viteri, D Sirokha, F Greiffo, L Heumos, ... B65. IMMUNE AND ENDOTHELIAL CELLS HIT BACK AT LUNG REPAIR, A3960-A3960, 2023 | | 2023 |