LeukoSyStem

^{Lutz, R., A. M. Poos, L. Solé-Boldo, L. John, J. Wagner, N. Prokoph, M. A. Baertsch, D. Vonficht, S. Palit, A. Brobeil, G. Mechtersheimer, N. Hildenbrand, S. Hemmer, S. Steiger, S. Horn, W. Pepke, D. M. Spranz, C. Rehnitz, P. Sant, J.-P. Mallm, M. J. Friedrich, P. Reichert, S. Huhn, A. Trumpp, K. Rippe, L. Haghverdi, S. Fröhling, C. Müller-Tidow, D. Hübschmann, H. Goldschmidt, G. Willimsky, S. Sauer, M. S. Raab, S. Haas, and N. Weinhold (2025). "Bone marrow breakout lesions act as key sites for tumor-immune cell diversification in multiple myeloma." Science Immunology 10(104). doi.org/10.1126/sciimmunol.adp6667.}

^{Cess, C. G., and L. Haghverdi (2024). "Compound-SNE: comparative alignment of t-SNEs for multiple single-cell omics data visualization." Bioinformatics 40(7). doi.org/10.1093/bioinformatics/btae471.}

^{Marot-Lassauzaie, V., S. Beneyto-Calabuig, B. Obermayer, L. Velten, D. Beule, and L. Haghverdi (2024). "Identifying cancer cells from calling single-nucleotide variants in scRNA-seq data." Bioinformatics 40(9). doi.org/10.1093/bioinformatics/btae512.}

Beneyto-Calabuig, S., A. K. Merbach, J.-A. Kniffka, M. Antes, C. Szu-Tu, C. Rohde, A. Waclawiczek, P. Stelmach, S. Gräßle, P. Pervan, M. Janssen, J. J. M. Landry, V. Benes, A. Jauch, M. Brough, M. Bauer, B. Besenbeck, J. Felden, S. Bäumer, M. Hundemer, T. Sauer, C. Pabst, C. Wickenhauser, L. Angenendt, C. Schliemann, A. Trumpp, S. Haas, M. Scherer, S. Raffel, C. Müller-Tidow, and L. Velten (2023). "Clonally resolved single-cell multi-omics identifies routes of cellular differentiation in acute myeloid leukemia." Cell Stem Cell. doi.org/10.1016/j.stem.2023.04.001.

Bouman, B. J., Y. Demerdash, S. Sood, F. Grünschläger, F. Pilz, A. R. Itani, A. Kuck, V. Marot-Lassauzaie, S. Haas, L. Haghverdi, and M. A. G. Essers (2023). "Single-cell time series analysis reveals the dynamics of HSPC response to inflammation." Life Sci. Alliance 7(3). doi.org/10.26508/lsa.202302309.

Waclawiczek, A., A.-M. Leppä, S. Renders, K. Stumpf, C. Reyneri, B. Betz, M. Janssen, R. Shahswar, E. Donato, D. Karpova, V. Thiel, J. M. Unglaub, S. Grabowski, S. Gryzik, L. Vierbaum, R. F. Schlenk, C. Röllig, M. Hundemer, C. Pabst, M. Heuser, S. Raffel, C. Müller-Tidow, T. Sauer, and A. Trumpp (2023). "Combinatorial BCL2 Family Expression in Acute Myeloid Leukemia Stem Cells Predicts Clinical Response to Azacitidine/Venetoclax." Cancer Discov. 13(6): 1408–1427. doi.org/10.1158/2159-8290.CD-22-0939.

Zhou, F., N. Aroua, Y. Liu, C. Rohde, J. Cheng, A.-K. Wirth, D. Fijalkowska, S. Göllner, M. Lotze, H. Yun, X. Yu, C. Pabst, T. Sauer, T. Oellerich, H. Serve, C. Röllig, M. Bornhäuser, C. Thiede, C. Baldus, M. Frye, S. Raffel, J. Krijgsveld, I. Jeremias, R. Beckmann, A. Trumpp, and C. Müller-Tidow (2023). "A Dynamic rRNA Ribomethylome Drives Stemness in Acute Myeloid Leukemia." Cancer Discov 13(2): 332–347. doi.org/10.1158/2159-8290.CD-22-0210.

Hernandez-Malmierca, P., D. Vonficht, A. Schnell, H. J. Uckelmann, A. Bollhagen, M. A. A. Mahmoud, S. L. Landua, E. van der Salm, C. L. Trautmann, S. Raffel, F. Grunschlager, R. Lutz, M. Ghosh, S. Renders, N. Correia, E. Donato, K. O. Dixon, C. Hirche, C. Andresen, C. Robens, P. S. Werner, T. Boch, D. Eisel, W. Osen, F. Pilz, A. Przybylla, C. Klein, F. Buchholz, M. D. Milsom, M. A. G. Essers, S. B. Eichmuller, W. K. Hofmann, D. Nowak, D. Hubschmann, M. Hundemer, C. Thiede, L. Bullinger, C. Muller-Tidow, S. A. Armstrong, A. Trumpp, V. K. Kuchroo, and S. Haas (2022). "Antigen presentation safeguards the integrity of the hematopoietic stem cell pool." Cell Stem Cell 29(5): 760-775 e710. LeukoSyStem  www.ncbi.nlm.nih.gov/pubmed/35523139.

Marot-Lassauzaie, V., B. J. Bouman, F. D. Donaghy, Y. Demerdash, M. A. G. Essers, and L. Haghverdi (2022). "Towards reliable quantification of cell state velocities." PLoS Comput Biol 18(9): e1010031. LeukoSyStem  doi.org/10.1371/journal.pcbi.1010031.

Triana, S., D. Vonficht, L. Jopp-Saile, S. Raffel, R. Lutz, D. Leonce, M. Antes, P. Hernandez-Malmierca, D. Ordonez-Rueda, B. Ramasz, T. Boch, J. C. Jann, D. Nowak, W. K. Hofmann, C. Muller-Tidow, D. Hubschmann, T. Alexandrov, V. Benes, A. Trumpp, M. Paulsen, L. Velten and S. Haas (2021). "Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states." Nat Immunol 22(12): 1577-1589. LeukoSyStem www.ncbi.nlm.nih.gov/pubmed/34811546.

Velten, L., B. A. Story, P. Hernández-Malmierca, S. Raffel, D. R. Leonce, J. Milbank, M. Paulsen, A. Demir, C. Szu-Tu, R. Frömel, C. Lutz, D. Nowak, J.-C. Jann, C. Pabst, T. Boch, W.-K. Hofmann, C. Müller-Tidow, A. Trumpp, S. Haas and L. M. Steinmetz (2021). "Identification of leukemic and pre-leukemic stem cells by clonal tracking from single-cell transcriptomics." Nat. Commun. 12(1366): 1–13. LeukoSyStem doi.org/10.1038/s41467-021-21650-1.

Raffel, S., D. Klimmeck, M. Falcone, A. Demir, A. Pouya, P. Zeisberger, C. Lutz, M. Tinelli, O. Bischel, L. Bullinger, C. Thiede, A. Flocken, J. Westermann, G. Ehninger, A. D. Ho, C. Muller-Tidow, Z. Gu, C. Herrmann, J. Krijgsveld, A. Trumpp, and J. Hansson (2020). "Quantitative proteomics reveals specific metabolic features of acute myeloid leukemia stem cells." BLOOD 136(13): 1507–1519. doi.org/10.1182/blood.2019003654.