American Journal of Hematology

Genome-wide association study follow-up identifies cyclin A2 as a regulator of the transition through cytokinesis during terminal erythropoiesis.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Cho, H., Wakabayashi, A., Eng, J.C., Ulirsch, J.C., Fleming, M.D., Lodish, H.F. and Sankaran, V.G.
American Journal of Hematology 90 (5): 386-91. May 2015

American Journal of Human Genetics

The genetic landscape of diamond-blackfan anemia.
Ulirsch, J.C., Verboon, J.M., Kazerounian, S., Guo, M.H., Yuan, D., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Handsaker, R.E., Abdulhay, N.J., Fiorini, C., Genovese, G., Lim, E.T., Cheng, A., Cummings, B.B., Chao, K.R., Beggs, A.H., Genetti, C.A., Sieff, C.A., Newburger, P.E., Niewiadomska, E., Matysiak, M., Vlachos, A., Lipton, J.M., Atsidaftos, E., Glader, B., Narla, A., Gleizes, P.E., O'Donohue, M.F., Montel-Lehry, N., Amor, D.J., McCarroll, S.A., O'Donnell-Luria, A.H., Gupta, N., Gabriel, S.B., MacArthur, D.G., Lander, E.S., Lek, M., Da Costa, L., Nathan, D.G., Korostelev, A.A., Do, R., Sankaran, V.G. and Gazda, H.T.
American Journal of Human Genetics 103 (6): 930-947. 6 December 2018

American Journal of Medical Genetics C

Emerging cellular and gene therapies for congenital anemias.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Khajuria, R.K. and Sankaran, V.G.
American Journal of Medical Genetics C 172C (4): 332-348. 12 December 2016

BIOspektrum

Einfluss genetischer Varianten auf die humane Erythropoese [Influence of genetic variants on human erythropoiesis].
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
BIOspektrum 22 (7): 768-769. November 2016

BMC Bioinformatics

cDNA-detector: detection and removal of cDNA contamination in DNA sequencing libraries.
Qi, M. ORCID: https://orcid.org/0000-0002-8671-3110, Nayar, U. ORCID: https://orcid.org/0000-0002-9024-6084, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Wagle, N. and Rheinbay, E. ORCID: https://orcid.org/0000-0002-5566-6729
BMC Bioinformatics 22 (1): 611. 24 December 2021

Blood

The chromatin accessibility landscape of pediatric AML.
Giguelay, A.M. ORCID: https://orcid.org/0000-0003-0417-1109 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Blood 145 (11): 1109-1111. 13 March 2025

Congenital anemia reveals distinct targeting mechanisms for master transcription factor GATA1.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Bao, E.L., Liu, N. ORCID: https://orcid.org/0000-0002-8314-0900, Utsugisawa, T., Tseng, A.M., Myers, S.A. ORCID: https://orcid.org/0000-0001-7636-0887, Verboon, J.M. ORCID: https://orcid.org/0000-0002-4454-6043, Ulirsch, J.C., Luo, W., Muus, C., Fiorini, C., Olive, M.E. ORCID: https://orcid.org/0000-0001-8287-9474, Vockley, C.M., Munschauer, M., Hunter, A., Ogura, H., Yamamoto, T. ORCID: https://orcid.org/0000-0002-9484-3505, Inada, H., Nakagawa, S., Ozono, S. ORCID: https://orcid.org/0000-0003-0009-9365, Subramanian, V., Chiarle, R. ORCID: https://orcid.org/0000-0003-1564-8531, Glader, B., Carr, S.A., Aryee, M.J. ORCID: https://orcid.org/0000-0002-6848-1344, Kundaje, A. ORCID: https://orcid.org/0000-0003-3084-2287, Orkin, S., Regev, A., McCavit, T., Kanno, H. and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Blood 139 (16): 2534-2546. 21 April 2022

Confounding in ex vivo models of Diamond-Blackfan anemia.
Ulirsch, J.C., Lareau, C. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Mohandas, N., Nathan, D.G. and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Blood 130 (9): 1165-1168. 31 August 2017

Blood Advances

Longitudinal assessment of clonal mosaicism in human hematopoiesis via mitochondrial mutation tracking.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164 and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Blood Advances 3 (24): 4161-4165. 23 December 2019

Blood Cancer Discovery

Tracking rare single donor and recipient immune and leukemia cells after allogeneic hematopoietic cell transplantation using mitochondrial DNA mutations.
Penter, L. ORCID: https://orcid.org/0000-0002-9060-0207, Cieri, N., Maurer, K., Kwok, M., Lyu, H., Lu, W.S., Oliveira, G., Gohil, S.H., Leshchiner, I., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Neuberg, D.S., Kim, H.T., Li, S., Bullinger, L. ORCID: https://orcid.org/0000-0002-5890-5510, Ritz, J., Getz, G., Garcia, J.S., Soiffer, R.J., Livak, K.J. and Wu, C.J.
Blood Cancer Discovery 5 (6): 442-459. 1 November 2024

Cancer Cell

Clonal lineage tracing of innate immune cells in human cancer.
Liu, Vincent, Sandor, Katalin, Yan, Patrick K., Miao, Zhuang, Yin, Yajie, Stickels, Robert R., Chen, Andy Y., Hiam-Galvez, Kamir, Gutierrez, Jacob, Zhang, Wenxi, Sajjath, Sairaj M., Valbuena, Raeline, Wang, Steven, Daniel, Bence, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Howitt, Brooke E., Lareau, Caleb A. ORCID: https://orcid.org/0000-0003-4179-4807 and Satpathy, Ansuman T.
Cancer Cell 4 June 2026 (In Press)

Cancer Discovery

Longitudinal single-cell dynamics of chromatin accessibility and mitochondrial mutations in chronic lymphocytic leukemia mirror disease history.
Penter, L., Gohil, S.H., Lareau, C. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Parry, E.M., Huang, T., Li, S., Zhang, W., Livitz, D., Leshchiner, I., Parida, L., Getz, G., Rassenti, L.Z., Kipps, T.J., Brown, J.R., Davids, M.S., Neuberg, D.S., Livak, K.J., Sankaran, V.G. and Wu, C.J.
Cancer Discovery 11 (12): 3048-3063. December 2021

Cancer Medicine

Deep learning-based analysis of gene expression data and gene-related information in pediatric surgical oncology: a scoping review.
Berhe, Simon, Fuchs, Steffen E., Akalin, Altuna ORCID: https://orcid.org/0000-0002-0468-0117, van der Steeg, Alida F.W., Warmann, Steven W., Buser, Myrthe A.D. ORCID: https://orcid.org/0000-0003-0640-6434 and Markel, Moritz
Cancer Medicine 15 (5): e71976. May 2026

Cancer Research

Mitochondrial DNA mutations as natural barcodes for lineage tracing of murine tumor models.
Penter, L. ORCID: https://orcid.org/0000-0002-9060-0207, Ten Hacken, E., Southard, J. ORCID: https://orcid.org/0000-0002-3025-9406, Lareau, C. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Li, S., Neuberg, D.S. ORCID: https://orcid.org/0000-0003-2566-3145, Livak, K.J. ORCID: https://orcid.org/0000-0001-9105-5856 and Wu, C.J. ORCID: https://orcid.org/0000-0002-3348-5054
Cancer Research 83 (5): 667-672. 1 March 2023

Cardiovascular Research

Integrated left ventricular multi-omics landscape of human cardiometabolic HFpEF.
Capone, Federico ORCID: https://orcid.org/0000-0001-8127-5564, Rommel, Karl-Philipp, Forbes, Martin ORCID: https://orcid.org/0000-0001-7775-8352, Fahjen, Pauline ORCID: https://orcid.org/0000-0002-5015-0643, Strocchi, Stefano ORCID: https://orcid.org/0009-0002-8879-6156, Rosch, Sebastian, Wang, Rongling ORCID: https://orcid.org/0000-0001-8719-938X, Bode, David, Nambiar, Natasha ORCID: https://orcid.org/0009-0004-3538-8081, Eroglu, Tolga ORCID: https://orcid.org/0000-0003-3404-2754, Santiago-Padilla, Leandro ORCID: https://orcid.org/0000-0002-0873-7205, Morieri, Mario Luca, Liu, Luo, Farrelly, Catherine, Vacca, Antonio ORCID: https://orcid.org/0000-0003-0051-7723, Mastrobuoni, Guido ORCID: https://orcid.org/0000-0003-4509-1295, Jung, Simone, Diezel, Saskia A., Liévano Contreras, Sarah V., Hübner, Norbert ORCID: https://orcid.org/0000-0002-1218-6223, Mertins, Philipp ORCID: https://orcid.org/0000-0002-2245-528X, Kempa, Stefan ORCID: https://orcid.org/0000-0002-0696-9299, Lurz, Philipp and Schiattarella, Gabriele G. ORCID: https://orcid.org/0000-0002-7582-7171
Cardiovascular Research 122 (8): 984-1000. May 2026

Cell

Lineage tracing in humans enabled by mitochondrial mutations and single-cell genomics.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ulirsch, J.C., Christian, E., Muus, C., Li, L.H., Pelka, K., Ge, W., Oren, Y., Brack, A., Law, T., Rodman, C., Chen, J.H., Boland, G.M., Hacohen, N., Rozenblatt-Rosen, O., Aryee, M.J., Buenrostro, J.D., Regev, A. and Sankaran, V.G.
Cell 176 (6): 1325-1339. 7 March 2019

Ribosome levels selectively regulate translation and lineage commitment in human hematopoiesis.
Khajuria, R.K., Munschauer, M. ORCID: https://orcid.org/0000-0001-6143-4548, Ulirsch, J.C., Fiorini, C., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, McFarland, S.K., Abdulhay, N.J., Specht, H., Keshishian, H., Mani, D.R., Jovanovic, M., Ellis, S.R., Fulco, C.P., Engreitz, J.M., Schütz, S., Lian, J., Gripp, K.W., Weinberg, O.K., Pinkus, G.S., Gehrke, L., Regev, A., Lander, E.S., Gazda, H.T., Lee, W.Y., Panse, V.G., Carr, S.A. and Sankaran, V.G.
Cell 173 (1): 90-103. 22 March 2018

Cell Reports

Transcriptional states and chromatin accessibility underlying human erythropoiesis.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Bao, E.L., Nandakumar, S.K., Muus, C., Ulirsch, J.C., Chowdhary, K., Buenrostro, J.D., Mohandas, N., An, X., Aryee, M.J., Regev, A. and Sankaran, V.G.
Cell Reports 27 (11): 3228-3240. 11 June 2019

Cell Stem Cell

Targeted application of human genetic variation can improve red blood cell production from stem cells.
Giani, F.C., Fiorini, C., Wakabayashi, A., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Salem, R.M., Jobaliya, C.D., Regan, S.N., Ulirsch, J.C., Liang, G., Steinberg-Shemer, O., Guo, M.H., Esko, T., Tong, W., Brugnara, C., Hirschhorn, J.N., Weiss, M.J., Zon, L.I., Chou, S.T., French, D.L., Musunuru, K. and Sankaran, V.G.
Cell Stem Cell 18 (1): 73-78. 7 January 2016

Cellular and Molecular Gastroenterology and Hepatology

Coordinated IFN-γ/TNF axis drives selective loss of activated enteric glia in inflammatory bowel diseases.
Bubeck, Marvin, Penkert, Klara A. ORCID: https://orcid.org/0000-0002-9948-533X, Limberger, Heidi, González Acera, Miguel, Plattner, Christina, Ziegler, Svenja, Muppirala, Anoohya, Forster, Patrycja, Jakob, Manuel, Gamez-Belmonte, Reyes, Erkert, Lena, Kulkarni, Subhash, Günther, Claudia, Atreya, Raja, Kühl, Anja A., Hegazy, Ahmed N., Hildner, Kai, Trajanoski, Zlatko, Siegmund, Britta, Neurath, Markus F., Rao, Meenakshi, Progatzky, Fränze, Lie, Dieter Chichung, Becker, Christoph, Romagnani, Chiara, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Klose, Christoph S.N. and Patankar, Jay V.
Cellular and Molecular Gastroenterology and Hepatology : 101827. 12 June 2026 (In Press)

Cellular and molecular gastroenterology and hepatology

Early gut-vascular barrier breakdown precedes colitis onset in murine models.
Abdou, Mariam Mohamed, Kreiß, Lucas, Schmid, Benjamin, Thoma, Oana-Maria, Krüger, René, Bénard, Alan, Müller, Tanja M., Knauss, Annkathrin, Gabel, Michael, González-Acera, Miguel, Lyu, Yanmin, Petter, Katja, Lindemann, Aylin, Saad, Mina Saad Aziz, Eichhorn, Philip, Becker, Christoph, Naschberger, Elisabeth, Zundler, Sebastian, Weigmann, Benno, Rath, Timo, Atreya, Raja, Kühl, Anja A., Trajanoski, Zlatko, Friedrich, Oliver, Waldner, Maximilian J., Neurath, Markus F., Herrmann, Martin, Schürmann, Sebastian, Britzen-Laurent, Nathalie and Stürzl, Michael
Cellular and molecular gastroenterology and hepatology : 101795. 29 April 2026 (In Press)

Clinical Hematology International

Single-cell genomics-based immune and disease monitoring in blood malignancies.
Rathgeber, A.C. ORCID: https://orcid.org/0000-0003-3264-1040, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164 and Penter, L. ORCID: https://orcid.org/0000-0002-9060-0207
Clinical Hematology International 6 (2): 62-84. 14 June 2024

EMBO Molecular Medicine

IL-36 signaling as a drug target in Crohn's disease patients with IL36RN mutations.
Hecker, J. ORCID: https://orcid.org/0000-0002-4118-3961, Plattner, C. ORCID: https://orcid.org/0000-0002-3217-3278, Cancino, C.A., Löscher, B.S., Saurenbach, J., Letizia, M., Rieder, D., Freise, I., Koop, K., Neufert, C., Kunkel, D., Al Khatim, Z., Schaafs, L.A., Schütz, A. ORCID: https://orcid.org/0000-0002-0606-2574, Becker, C., Atreya, R., Trajanoski, Z. ORCID: https://orcid.org/0000-0002-0636-7351, Franke, A., Sonnenberg, E., Hegazy, A.N., Siegmund, B. ORCID: https://orcid.org/0000-0002-0055-958X and Weidinger, C. ORCID: https://orcid.org/0000-0002-9948-0088
EMBO Molecular Medicine 17 (7): 1539-1555. 11 July 2025

European Genome-Phenome Archive (EGA)

5' scRNAseq data of control and n-irAEs patients pre or post ICI treatment.
Giguelay, Ambre M. ORCID: https://orcid.org/0000-0003-0417-1109
[Dataset] 2024 (Submitted)

TCR-seq data of control and n-irAEs patients pre or post ICI treatment.
Giguelay, Ambre M. ORCID: https://orcid.org/0000-0003-0417-1109
[Dataset] 2024 (Submitted)

European Journal of Immunology

Clonally expanded PD-1-expressing T cells are enriched in synovial fluid of juvenile idiopathic arthritis patients.
Vanni, A., Mazzoni, A., Semeraro, R., Capone, M., Maschmeyer, P. ORCID: https://orcid.org/0000-0002-1705-5302, Lamacchia, G., Salvati, L. ORCID: https://orcid.org/0000-0001-5831-0392, Carnasciali, A., Farahvachi, P., Giani, T., Simonini, G., Filocamo, G., Romano, M., Liotta, F., Mashreghi, M.F. ORCID: https://orcid.org/0000-0002-8015-6907, Cosmi, L. ORCID: https://orcid.org/0000-0002-8150-8177, Cimaz, R., Magi, A., Maggi, L. and Annunziato, F. ORCID: https://orcid.org/0000-0001-8798-7589
European Journal of Immunology 53 (7): 2250162. July 2023

Frontiers in Bioengineering and Biotechnology

Generation of decellularized human brain tissue for investigating cell-matrix interactions: a proof-of-concept study.
Bueno, R.J., Fernández-Zapata, C., Salla, M. ORCID: https://orcid.org/0009-0003-8453-2935, Campo Garcia, J., Alacam, A., Klein, O., Böttcher, C. ORCID: https://orcid.org/0000-0002-6226-586X, Radbruch, H. ORCID: https://orcid.org/0000-0001-6941-3397, Paul, F. ORCID: https://orcid.org/0000-0002-6378-0070, Starossom, S.C. ORCID: https://orcid.org/0000-0001-7935-9910, Silva, R.V. ORCID: https://orcid.org/0000-0002-8687-2154 and Infante-Duarte, C. ORCID: https://orcid.org/0000-0003-3005-351X
Frontiers in Bioengineering and Biotechnology 13 : 1578467. 5 June 2025

Frontiers in Immunology

Editorial: Lineage tracing, hematopoietic stem cell and immune cell dynamics.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Romagnani, C. and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Frontiers in Immunology 13 : 1062415. 18 October 2022

Gastroenterology

IBDome: an integrated molecular, histopathological, and clinical atlas of inflammatory bowel diseases.
Plattner, Christina, Sturm, Gregor, Kühl, Anja A., Atreya, Raja, Carollo, Sandro, Rieder, Dietmar, Gronauer, Raphael, Günther, Michael, Ormanns, Steffen, Manzl, Claudia, Wirtz, Stefan, Meneghetti, Asier Rabasco, Hegazy, Ahmed N., Patankar, Jay V., Carrero, Zunamys I., Grabherr, Felix, Meyer, Moritz, Adolph, Timon E., Tilg, Herbert, Neurath, Markus F., Kather, Jakob Nikolas, Becker, Christoph, Siegmund, Britta and Trajanoski, Zlatko
Gastroenterology 10 June 2026 (In Press)

Fecal detection of calprotectin subunits links inflammatory bowel disease activity with chronicity of intestinal inflammation.
Jukic, Almina, Hilbe, Richard, Zundel, Luis, Willeit, Peter, Faserl, Klaus, Plattner, Christina, Zollner, Andreas, Meyer, Moritz, Siegmund, Kerstin, Klepsch, Victoria, Marteau, Valentin, Vich Vila, Arnau, Schwärzler, Julian, Vouk, Kathrin, Kozsar, Anna, Rieder, Dietmar, Weichberger, Amos, Sarg, Bettina, Grabherr, Felix, Mayr, Lisa, Moser, Patrizia, Nemati, Niloofar, Scholl-Bürgi, Sabine, Karall, Daniela, Vogel, Georg F., Welz, Lina, Aldrian, Denise, Koch, Robert, Pfister, Alexandra, Ran, Qitao, Kaser, Arthur, Blumberg, Richard S., Tancevski, Ivan, Sommer, Felix, Bacher, Petra, Schreiber, Stefan, Rosenstiel, Philip, Aden, Konrad, Baier, Gottfried, Bakiri, Latifa, Müller, Thomas, Weiss, Günter, Weersma, Rinse K., Trajanoski, Zlatko, Wagner, Erwin F., Tilg, Herbert and Adolph, Timon E.
Gastroenterology 170 (3): 523-538. March 2026

Engineering therapeutic regulatory T cells to overexpress G protein-coupled receptor 15 improves functional fitness for in vivo gut homing.
Müller, T.M., Liu, L.J., Wiesinger, M., Neurath, M.F., Voskens, C.J. and Zundler, S.
Gastroenterology 168 (2): 389-392. February 2025

Multimodal profiling of peripheral blood identifies proliferating circulating effector CD4(+) T cells as predictors for response to integrin α4β7-blocking therapy in inflammatory bowel disease.
Horn, V., Cancino, C.A., Steinheuer, L.M., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Fritz, K., Nguyen, A.L., Juhran, K.S., Plattner, C., Bösel, D., Oldenburg, L., Burns, M., Schulz, A.R., Saliutina, M., Mantzivi, E., Lissner, D., Conrad, T. ORCID: https://orcid.org/0000-0001-5618-6295, Mashreghi, M.F., Zundler, S., Sonnenberg, E., Schumann, M., Haag, L.M., Beule, D. ORCID: https://orcid.org/0000-0002-3284-0632, Flatz, L., Trjanoski, Z., D'Haens, G., Weidinger, C., Mei, H.E., Siegmund, B., Thurley, K. and Hegazy, A.N.
Gastroenterology 168 (2): 327-343. February 2025

Gene Expression Omnibus (GEO)

Single-cell mitochondrial genotyping of exonuclease-deficient DNA polymerase γ (POLGD274A) knock-in HEK293 cell lines.
Hsieh, Y.H. ORCID: https://orcid.org/0000-0003-3037-8728, Liebold, J. and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
[Dataset] 10 April 2026

Clonally expanded effector CD4+ cytotoxic T lymphocytes are associated with severe neurological adverse events after immune checkpoint inhibitor therapy.
Maschmeyer, P. ORCID: https://orcid.org/0000-0002-1705-5302, Giguelay, A.M. ORCID: https://orcid.org/0000-0003-0417-1109 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
[Dataset] 3 December 2025

Genes & Development

Cyclin D3 coordinates the cell cycle during differentiation to regulate erythrocyte size and number.
Sankaran, V.G., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Sicinska, E., Xu, J., Bauer, D.E., Eng, J.C., Patterson, H.C., Metcalf, R.A., Natkunam, Y., Orkin, S.H., Sicinski, P., Lander, E.S. and Lodish, H.F.
Genes & Development 26 (18): 2075-2087. 15 September 2012

Genome Biology

Single-cell epigenetic and transcriptomic states across the continuum of monoclonal B cell lymphocytosis to chronic lymphocytic leukemia.
Rathgeber, Anja C. ORCID: https://orcid.org/0000-0003-3264-1040, Fernandes, Stacey M., Nagler, Adi, Li, Shuqiang, Dorfman, David M., Bullinger, Lars ORCID: https://orcid.org/0000-0002-5890-5510, Davids, Matthew S., Brown, Jennifer R., Livak, Kenneth J., Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Wu, Catherine J. and Penter, Livius ORCID: https://orcid.org/0000-0002-9060-0207
Genome Biology 27 (1): 175. 21 May 2026

Genome Medicine

circVDJ-seq for T cell clonotype detection in single-cell and spatial multi-omics.
Plumbom, Izabela ORCID: https://orcid.org/0009-0006-3720-3700, Obermayer, Benedikt ORCID: https://orcid.org/0000-0002-9116-630X, Raspe, Raphael, Pascual-Reguant, Anna, Theurillat, Ilan ORCID: https://orcid.org/0000-0002-1125-1951, Pentimalli, Tancredi Massimo ORCID: https://orcid.org/0000-0002-8461-7918, Hsieh, Yu-Hsin ORCID: https://orcid.org/0000-0003-3037-8728, Gil, Marine ORCID: https://orcid.org/0000-0002-3885-7806, Dietrich, Carola, Seeger-Zografakis, Michaela, Quedenau, Claudia ORCID: https://orcid.org/0000-0002-6846-4915, Wilde, Jeannine, Braeuning, Caroline ORCID: https://orcid.org/0009-0007-1439-9920, Fischer, Cornelius ORCID: https://orcid.org/0000-0003-0329-2435, Schuelke, Markus ORCID: https://orcid.org/0000-0003-2824-3891, Seitz, Volkhard, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Eggert, Angelika, Rajewsky, Nikolaus ORCID: https://orcid.org/0000-0002-4785-4332, Borodina, Tatiana ORCID: https://orcid.org/0000-0002-6978-016X, Beule, Dieter ORCID: https://orcid.org/0000-0002-3284-0632, Altmueller, Janine ORCID: https://orcid.org/0000-0003-4372-1521, Radbruch, Helena ORCID: https://orcid.org/0000-0001-6941-3397, Hauser, Anja Erika and Conrad, Thomas ORCID: https://orcid.org/0000-0001-5618-6295
Genome Medicine 18 (1): 84. 11 June 2026

Gut

Integrated multimodel analysis of intestinal inflammation exposes key molecular features of preclinical and clinical IBD.
Gonzalez-Acera, Miguel, Patankar, Jay V. ORCID: https://orcid.org/0000-0002-1884-7424, Erkert, Lena, Cineus, Roodline, Gamez-Belmonte, Reyes, Leupold, Tamara, Bubeck, Marvin, Bao, Li-Li, Dinkel, Martin, Wang, Ru, Schickedanz, Laura, Limberger, Heidi, Stolzer, Iris, Gerlach, Katharina, Diemand, Leonard, Mascia, Fabrizio, Gupta, Pooja, Naschberger, Elisabeth ORCID: https://orcid.org/0000-0003-1291-622X, Koop, Kristina ORCID: https://orcid.org/0000-0002-1672-7234, Plattner, Christina, Sturm, Gregor, Weigmann, Benno ORCID: https://orcid.org/0000-0002-2398-0844, Günther, Claudia ORCID: https://orcid.org/0000-0001-8360-3525, Wirtz, Stefan, Stürzl, Michael ORCID: https://orcid.org/0000-0002-9276-2824, Hildner, Kai, Kühl, Anja A., Siegmund, Britta ORCID: https://orcid.org/0000-0002-0055-958X, Gießl, Andreas, Atreya, Raja ORCID: https://orcid.org/0000-0002-8556-8433, Hegazy, Ahmed N., Trajanoski, Zlatko, Neurath, Markus F. ORCID: https://orcid.org/0000-0003-4344-1474 and Becker, Christoph ORCID: https://orcid.org/0000-0002-1388-1041
Gut 74 (10): 1602-1615. 8 September 2025

Journal for ImmunoTherapy of Cancer

Clonally expanded effector CD4(+) cytotoxic T lymphocytes are associated with severe neurological adverse events after immune checkpoint inhibitor therapy.
Giguelay, Ambre Manon ORCID: https://orcid.org/0000-0003-0417-1109, Maschmeyer, Patrick ORCID: https://orcid.org/0000-0002-1705-5302, Müller-Jensen, Leonie ORCID: https://orcid.org/0000-0002-6388-9375, Schinke, Christian, Maierhof, Smilla K., Nambiar, Natasha ORCID: https://orcid.org/0009-0004-3538-8081, Meyer, Manpreet ORCID: https://orcid.org/0009-0004-5700-8529, Huehnchen, Petra ORCID: https://orcid.org/0000-0002-6825-7270, Boehmerle, Wolfgang ORCID: https://orcid.org/0000-0001-7195-3894, Endres, Matthias ORCID: https://orcid.org/0000-0001-6520-3720, Knauss, Samuel and Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164
Journal for ImmunoTherapy of Cancer 13 (10): e012350. 30 October 2025

Journal of Clinical Investigation

X-linked macrocytic dyserythropoietic anemia in females with an ALAS2 mutation.
Sankaran, V.G., Ulirsch, J.C., Tchaikovskii, V., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Wakabayashi, A., Kadirvel, S., Lindsley, R.C., Bejar, R., Shi, J., Lovitch, S.B., Bishop, D.F. and Steensma, D.P.
Journal of Clinical Investigation 125 (4): 1665-1669. 1 April 2015

Journal of Crohn's & Colitis

Pharmacological inhibitors of the gamma-secretase enzyme complex disrupt epithelial cell function triggering colitis in mice.
Erkert, Lena, Kabisch, Melanie, Gamez-Belmonte, Reyes, Gonzalez-Acera, Miguel, Patankar, Jay V, Schödel, Lena, Hofmann, Katharina, Wagner, Yara, Plattner, Christina, Spath, Eva-Maria, Distler, Ute, Tenzer, Stefan, Neufert, Clemens, Neurath, Markus F and Becker, Christoph
Journal of Crohn's & Colitis 19 (7): jjaf096. July 2025

ST6GAL1 promotes IBD B cell recruitment to the inflamed colon in a CD22-dependent mechanism.
Liu, Li-Juan, Müller, Tanja M., Dedden, Mark, Schramm, Sebastian, Leppkes, Moritz, Atreya, Raja ORCID: https://orcid.org/0000-0002-8556-8433, Atreya, Imke, Neurath, Markus F. and Zundler, Sebastian ORCID: https://orcid.org/0000-0003-0888-2784
Journal of Crohn's & Colitis 19 (7): jjaf097. July 2025

Spatial single cell profiling using imaging mass cytometry: inflammatory versus penetrating Crohn's disease.
Lehmann, M. ORCID: https://orcid.org/0000-0002-3786-7375, Weixler, B., Elezkurtaj, S., Loddenkemper, C., Kühl, A.A. and Siegmund, B. ORCID: https://orcid.org/0000-0002-0055-958X
Journal of Crohn's & Colitis 18 (8): 1305-1318. August 2024

Journal of Experimental Medicine

Familial thrombocytopenia due to a complex structural variant resulting in a WAC-ANKRD26 fusion transcript.
Wahlster, L. ORCID: https://orcid.org/0000-0001-8409-7580, Verboon, J.M. ORCID: https://orcid.org/0000-0002-4454-6043, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Black, S.C. ORCID: https://orcid.org/0000-0002-0209-6283, Luo, W. ORCID: https://orcid.org/0000-0002-7041-823X, Garg, K. ORCID: https://orcid.org/0000-0003-0124-7710, Voit, R.A. ORCID: https://orcid.org/0000-0002-6790-8641, Collins, R.L. ORCID: https://orcid.org/0000-0003-1268-9995, Garimella, K. ORCID: https://orcid.org/0000-0002-6212-5736, Costello, M. ORCID: https://orcid.org/0000-0002-0281-3035, Chao, K.R. ORCID: https://orcid.org/0000-0003-2897-2410, Goodrich, J.K. ORCID: https://orcid.org/0000-0003-0480-1924, DiTroia, S.P. ORCID: https://orcid.org/0000-0002-6847-6780, O’Donnell-Luria, A. ORCID: https://orcid.org/0000-0001-6418-9592, Talkowski, M.E. ORCID: https://orcid.org/0000-0003-2889-0992, Michelson, A.D. ORCID: https://orcid.org/0000-0002-1746-4819, Cantor, A.B. ORCID: https://orcid.org/0000-0002-5136-028X and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Journal of Experimental Medicine 218 (6): e20210444. 7 June 2021

Impaired human hematopoiesis due to a cryptic intronic splicing mutation.
Abdulhay, N.J., Fiorini, C., Verboon, J.M., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Ulirsch, J.C., Zieger, B., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Mi, X., Roy, A. ORCID: https://orcid.org/0000-0001-8607-5748, Obeng, E.A. ORCID: https://orcid.org/0000-0002-8691-7439, Erlacher, M. ORCID: https://orcid.org/0000-0002-7261-1447, Gupta, N., Gabriel, S.B., Ebert, B.L., Niemeyer, C.M., Khoriaty, R.N., Ancliff, P., Gazda, H.T., Wlodarski, M.W. and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Journal of Experimental Medicine 216 (5): 1050-1060. 6 May 2019

Journal of Molecular Medicine

Methylation matters: binding of Ets-1 to the demethylated Foxp3 gene contributes to the stabilization of Foxp3 expression in regulatory T cells.
Polansky, J.K., Schreiber, L., Thelemann, C., Ludwig, L. ORCID: https://orcid.org/0000-0002-2916-2164, Krüger, M., Baumgrass, R., Cording, S., Floess, S., Hamann, A. and Huehn, J.
Journal of Molecular Medicine 88 (10): 1029-1040. October 2010

Leukemia

Dynamics of clonal hematopoiesis and cellular responses to stress-induced toxicity in autologous stem cell transplantation.
Stein, Catarina M. ORCID: https://orcid.org/0000-0002-9015-7671, Hablesreiter, Raphael ORCID: https://orcid.org/0000-0002-4586-932X, Christen, Friederike ORCID: https://orcid.org/0000-0001-8868-2533, Löwe, Pelle, Fustero-Torre, Coral, Kopp, Klara, Locher, Benjamin N., Nitsch, Lena ORCID: https://orcid.org/0000-0003-0775-1969, Altwasser, Robert ORCID: https://orcid.org/0009-0002-6216-6068, Kerschbaum, Johanna Franziska, Bullinger, Lars ORCID: https://orcid.org/0000-0002-5890-5510, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Strzelecka, Paulina M. ORCID: https://orcid.org/0000-0003-0226-6788 and Damm, Frederik ORCID: https://orcid.org/0000-0001-5553-1173
Leukemia 40 (2): 314-324. February 2026

Med

JAK inhibition in a patient with a STAT1 gain-of-function variant reveals STAT1 dysregulation as a common feature of aplastic anemia.
Rosenberg, J.M., Peters, J.M., Hughes, T., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Massoth, L.R., Austin-Tse, C., Rehm, H.L., Bryson, B., Chen, Y.B., Regev, A., Shalek, A.K., Fortune, S.M. and Sykes, D.B.
Med 3 (1): 42-57.e5. 14 January 2022

Methods in Molecular Biology

Concomitant sequencing of accessible chromatin and mitochondrial genomes in single cells using mtscATAC-seq.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164 and Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807
Methods in Molecular Biology 2611 : 269-282. 2023

Mucosal Immunology

TIFA renders intestinal epithelial cells responsive to microbial ADP-heptose and drives colonic inflammation in mice.
Erkert, L., Ruder, B., Kabisch, M., Gamez Belmonte, R., Patankar, J.V., Gonzalez Acera, M., Schödel, L., Chiriac, M.T., Cineus, R., Gnafakis, S., Leupold, T. ORCID: https://orcid.org/0000-0002-2026-4340, Thoma, O.M. ORCID: https://orcid.org/0000-0002-1665-9753, Stolzer, I., Taut, A., Thonn, V., Zundler, S., Günther, C., Diefenbach, A., Kühl, A.A., Hegazy, A.N., Waldner, M., Basic, M. ORCID: https://orcid.org/0000-0002-1995-618X, Bleich, A., Neurath, M.F., Wirtz, S. and Becker, C. ORCID: https://orcid.org/0000-0002-1388-1041
Mucosal Immunology 18 (2): 453-466. April 2025

Nature

Population-scale sequencing resolves determinants of persistent EBV DNA.
Nyeo, Sherry S., Cumming, Erin M., Burren, Oliver S., Pagadala, Meghana S., Gutierrez, Jacob C., Ali, Thahmina A., Kida, Laura C., Chen, Yifan, Chu, Hoyin, Hu, Fengyuan, Zou, Xueqing Zoe, Hollis, Benjamin, Fabre, Margarete A., MacArthur, Stewart, Wang, Quanli, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164, Dey, Kushal K., Petrovski, Slavé, Dhindsa, Ryan S. and Lareau, Caleb A. ORCID: https://orcid.org/0000-0003-4179-4807
Nature 650 (8102): 664-672. 19 February 2026

Clonal tracing with somatic epimutations reveals dynamics of blood ageing.
Scherer, M., Singh, I., Braun, M.M., Szu-Tu, C., Sanchez Sanchez, P., Lindenhofer, D., Jakobsen, N.A., Körber, V., Kardorff, M., Nitsch, L. ORCID: https://orcid.org/0000-0003-0775-1969, Kautz, P. ORCID: https://orcid.org/0000-0002-9658-1676, Rühle, J., Bianchi, A., Cozzuto, L., Frömel, R., Beneyto-Calabuig, S., Lareau, C. ORCID: https://orcid.org/0000-0003-4179-4807, Satpathy, A.T., Beekman, R., Steinmetz, L.M., Raffel, S., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Vyas, P., Rodriguez-Fraticelli, A. and Velten, L.
Nature 643 (8071): 478-487. 10 July 2025

Genome-wide CRISPR screen in human T cells reveals regulators of FOXP3.
Chen, K.Y., Kibayashi, T., Giguelay, A. ORCID: https://orcid.org/0000-0003-0417-1109, Hata, M., Nakajima, S., Mikami, N., Takeshima, Y., Ichiyama, K., Omiya, R., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Hattori, K. and Sakaguchi, S.
Nature 642 (8066): 191-200. 5 June 2025

Deciphering the impact of genomic variation on function.

Nature 633 (8028): 47-57. 5 September 2024

Latent human herpesvirus 6 is reactivated in CAR T cells.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Yin, Y. ORCID: https://orcid.org/0000-0002-2220-005X, Maurer, K. ORCID: https://orcid.org/0000-0002-4160-181X, Sandor, K.D. ORCID: https://orcid.org/0000-0003-2892-4865, Daniel, B. ORCID: https://orcid.org/0000-0002-2410-8767, Yagnik, G., Peña, J. ORCID: https://orcid.org/0000-0002-9662-906X, Crawford, J.C. ORCID: https://orcid.org/0000-0003-4096-6048, Spanjaart, A.M. ORCID: https://orcid.org/0000-0003-0167-6021, Gutierrez, J.C., Haradhvala, N.J. ORCID: https://orcid.org/0000-0003-1113-3135, Riberdy, J.M., Abay, T. ORCID: https://orcid.org/0009-0009-0024-2732, Stickels, R.R. ORCID: https://orcid.org/0000-0003-4326-4084, Verboon, J.M., Liu, V. ORCID: https://orcid.org/0000-0002-6790-6603, Buquicchio, F.A., Wang, F. ORCID: https://orcid.org/0009-0000-8310-3088, Southard, J., Song, R., Li, W., Shrestha, A., Parida, L. ORCID: https://orcid.org/0000-0002-7872-5074, Getz, G. ORCID: https://orcid.org/0000-0002-0936-0753, Maus, M.V. ORCID: https://orcid.org/0000-0002-7578-0393, Li, S. ORCID: https://orcid.org/0000-0001-9106-6141, Moore, A., Roberts, Z.J., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Talleur, A.C. ORCID: https://orcid.org/0000-0002-6558-6706, Thomas, P.G. ORCID: https://orcid.org/0000-0001-7955-0256, Dehghani, H., Pertel, T., Kundaje, A. ORCID: https://orcid.org/0000-0003-3084-2287, Gottschalk, S. ORCID: https://orcid.org/0000-0003-3991-7468, Roth, T.L. ORCID: https://orcid.org/0000-0002-3970-9573, Kersten, M.J. ORCID: https://orcid.org/0000-0002-8904-3802, Wu, C.J. ORCID: https://orcid.org/0000-0002-3348-5054, Majzner, R.G. ORCID: https://orcid.org/0000-0001-6969-8011 and Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X
Nature 623 : 608-615. 16 November 2023

Skin-resident innate lymphoid cells converge on a pathogenic effector state.
Bielecki, P., Riesenfeld, S.J., Hütter, J.C., Torlai Triglia, E. ORCID: https://orcid.org/0000-0002-6059-0116, Kowalczyk, M.S., Ricardo-Gonzalez, R.R., Lian, M., Amezcua Vesely, M.C., Kroehling, L., Xu, H., Slyper, M., Muus, C., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Christian, E., Tao, L., Kedaigle, A.J., Steach, H.R., York, A.G., Skadow, M.H., Yaghoubi, P., Dionne, D., Jarret, A., McGee, H.M., Porter, C.B.M., Licona-Limón, P., Bailis, W., Jackson, R., Gagliani, N., Gasteiger, G., Locksley, R.M., Regev, A. and Flavell, R.A.
Nature 592 (7852): 128-132. 1 April 2021

Nature Biomedical Engineering

Induction of antigen-specific tolerance by nanobody-antigen adducts that target class-II major histocompatibility complexes.
Pishesha, N. ORCID: https://orcid.org/0000-0002-8124-1265, Harmand, T., Smeding, L.Y. ORCID: https://orcid.org/0000-0002-3850-1746, Ma, W., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Janssen, R., Islam, A., Xie, Y.J., Fang, T., McCaul, N. ORCID: https://orcid.org/0000-0002-7888-7815, Pinney, W., Sugito, H.R., Rossotti, M.A., Gonzalez-Sapienza, G. and Ploegh, H.L. ORCID: https://orcid.org/0000-0002-1090-6071
Nature Biomedical Engineering 5 (11): 1389-1401. November 2021

Nature Biotechnology

Systematic benchmarking of single-cell ATAC-sequencing protocols.
De Rop, F.V. ORCID: https://orcid.org/0000-0001-5241-924X, Hulselmans, G., Flerin, C. ORCID: https://orcid.org/0000-0003-1883-871X, Soler-Vila, P., Rafels, A., Christiaens, V., González-Blas, C.B., Marchese, D., Caratù, G. ORCID: https://orcid.org/0000-0003-1085-8062, Poovathingal, S., Rozenblatt-Rosen, O. ORCID: https://orcid.org/0000-0001-6313-3570, Slyper, M., Luo, W. ORCID: https://orcid.org/0000-0002-7041-823X, Muus, C. ORCID: https://orcid.org/0000-0003-2779-0893, Duarte, F. ORCID: https://orcid.org/0000-0002-1261-4929, Shrestha, R., Bagdatli, S.T., Corces, M.R. ORCID: https://orcid.org/0000-0001-7465-7652, Mamanova, L., Knights, A., Meyer, K.B. ORCID: https://orcid.org/0000-0001-5906-1498, Mulqueen, R. ORCID: https://orcid.org/0000-0002-3903-7594, Taherinasab, A., Maschmeyer, P. ORCID: https://orcid.org/0000-0002-1705-5302, Pezoldt, J. ORCID: https://orcid.org/0000-0001-7143-5691, Lambert, C.L.G., Iglesias, M. ORCID: https://orcid.org/0000-0003-1757-7343, Najle, S.R. ORCID: https://orcid.org/0000-0002-0654-9147, Dossani, Z.Y. ORCID: https://orcid.org/0000-0001-9264-6340, Martelotto, L.G., Burkett, Z. ORCID: https://orcid.org/0000-0002-5153-485X, Lebofsky, R. ORCID: https://orcid.org/0000-0002-3728-6415, Martin-Subero, J.I. ORCID: https://orcid.org/0000-0001-8809-5195, Pillai, S., Sebé-Pedrós, A. ORCID: https://orcid.org/0000-0002-9896-9746, Deplancke, B. ORCID: https://orcid.org/0000-0001-9935-843X, Teichmann, S.A. ORCID: https://orcid.org/0000-0002-6294-6366, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Braun, T.P., Adey, A.C. ORCID: https://orcid.org/0000-0001-7648-8717, Greenleaf, W.J. ORCID: https://orcid.org/0000-0003-1409-3095, Buenrostro, J.D. ORCID: https://orcid.org/0000-0001-9958-3987, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158, Aerts, S. ORCID: https://orcid.org/0000-0002-8006-0315 and Heyn, H. ORCID: https://orcid.org/0000-0002-3276-1889
Nature Biotechnology 42 (6): 916-926. June 2024

Single-cell profiling of proteins and chromatin accessibility using PHAGE-ATAC.
Fiskin, E., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Eraslan, G. ORCID: https://orcid.org/0000-0001-9579-2909, Liu, F., Ring, A.M. ORCID: https://orcid.org/0000-0003-3699-2446, Xavier, R.J. and Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158
Nature Biotechnology 40 (3): 374-381. March 2022

Mitochondrial variant enrichment from high-throughput single-cell RNA sequencing resolves clonal populations.
Miller, T.E., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Verga, J.A., DePasquale, E.A.K., Liu, V. ORCID: https://orcid.org/0000-0002-6790-6603, Ssozi, D. ORCID: https://orcid.org/0000-0002-1664-2951, Sandor, K. ORCID: https://orcid.org/0000-0003-2892-4865, Yin, Y. ORCID: https://orcid.org/0000-0002-2220-005X, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, El Farran, C.A. ORCID: https://orcid.org/0000-0002-9374-103X, Morgan, D.M. ORCID: https://orcid.org/0000-0002-3253-1362, Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X, Griffin, G.K., Lane, A.A. ORCID: https://orcid.org/0000-0001-7380-0226, Love, J.C. ORCID: https://orcid.org/0000-0003-0921-3144, Bernstein, B.E. ORCID: https://orcid.org/0000-0002-5726-6278, Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X and van Galen, P. ORCID: https://orcid.org/0000-0002-0735-1570
Nature Biotechnology 40 (7): 1030-1034. 24 February 2022

Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells.
Mimitou, E.P., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Chen, K.Y. ORCID: https://orcid.org/0000-0002-4406-2604, Zorzetto-Fernandes, A.L., Hao, Y., Takeshima, Y. ORCID: https://orcid.org/0000-0001-8312-9309, Luo, W. ORCID: https://orcid.org/0000-0002-7041-823X, Huang, T.S. ORCID: https://orcid.org/0000-0001-8902-5439, Yeung, B.Z., Papalexi, E., Thakore, P.I., Kibayashi, T., Wing, J.B. ORCID: https://orcid.org/0000-0002-3462-1003, Hata, M., Satija, R. ORCID: https://orcid.org/0000-0001-9448-8833, Nazor, K.L., Sakaguchi, S., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158 and Smibert, P. ORCID: https://orcid.org/0000-0003-0772-1647
Nature Biotechnology 39 (10): 1246-1258. October 2021

Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Muus, C. ORCID: https://orcid.org/0000-0003-2779-0893, Gohil, S.H., Zhao, T., Chiang, Z., Pelka, K., Verboon, J.M., Luo, W., Christian, E., Rosebrock, D., Getz, G. ORCID: https://orcid.org/0000-0002-0936-0753, Boland, G.M., Chen, F. ORCID: https://orcid.org/0000-0003-2308-3649, Buenrostro, J.D. ORCID: https://orcid.org/0000-0001-9958-3987, Hacohen, N. ORCID: https://orcid.org/0000-0002-2349-2656, Wu, C.J. ORCID: https://orcid.org/0000-0002-3348-5054, Aryee, M.J., Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158 and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Nature Biotechnology 39 (4): 451-461. April 2021

Nature Communications

Single-cell multi-omic analysis of mitochondrial mutational mosaicism and dynamics.
Hsieh, Yu-Hsin ORCID: https://orcid.org/0000-0003-3037-8728, Kautz, Pauline ORCID: https://orcid.org/0000-0002-9658-1676, Nitsch, Lena ORCID: https://orcid.org/0000-0003-0775-1969, Giguelay, Ambre M. ORCID: https://orcid.org/0000-0003-0417-1109, Liebold, Janet, Dimitrova, Veronika ORCID: https://orcid.org/0009-0007-6915-7136, Contreras Castillo, Stephania ORCID: https://orcid.org/0000-0002-5551-8697, Jungen, Freya ORCID: https://orcid.org/0009-0007-7857-701X, Zsurka, Gabor ORCID: https://orcid.org/0000-0002-6379-849X, Trombly, Genevieve, Schuelke, Markus ORCID: https://orcid.org/0000-0003-2824-3891, Kunz, Wolfram S. ORCID: https://orcid.org/0000-0003-1113-3493, Lareau, Caleb A. ORCID: https://orcid.org/0000-0003-4179-4807 and Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164
Nature Communications 17 (1): 2532. 17 March 2026

Personalized CRISPR knock-in cytokine gene therapy to remodel the tumor microenvironment and enhance CAR T cell therapy in solid tumors.
Launspach, Michael ORCID: https://orcid.org/0000-0001-5337-5605, Macos, Julia ORCID: https://orcid.org/0009-0008-9196-3975, Afzal, Shoaib ORCID: https://orcid.org/0009-0009-5490-6098, Hohmann, Janik ORCID: https://orcid.org/0009-0001-5374-1350, Appis, Marc L. ORCID: https://orcid.org/0000-0002-0155-1918, Pilgram, Maximilian ORCID: https://orcid.org/0009-0002-3423-5249, Beez, Stefanie, Ohlendorf, Emily, van der Ven, Casper F.T. ORCID: https://orcid.org/0000-0001-7947-6105, Lachiheb, Chahrazad, Töws, Karin, Andersch, Lena, Jens, Marvin ORCID: https://orcid.org/0000-0002-6660-8743, Zirngibl, Felix ORCID: https://orcid.org/0000-0003-1764-4841, Kath, Jonas ORCID: https://orcid.org/0000-0001-7721-7978, Stecklum, Maria ORCID: https://orcid.org/0009-0001-7951-5730, Rodriguez-Fos, Elias ORCID: https://orcid.org/0000-0002-2555-0178, Anders, Kathleen ORCID: https://orcid.org/0000-0002-0429-200X, Wagner, Dimitrios L. ORCID: https://orcid.org/0000-0002-2189-3579, Henssen, Anton G. ORCID: https://orcid.org/0000-0003-1534-778X, Kühn, Ralf ORCID: https://orcid.org/0000-0003-1694-9803, Eggert, Angelika and Künkele, Annette ORCID: https://orcid.org/0000-0002-8406-5412
Nature Communications 16 (1): 10987. 9 December 2025

Prioritizing disease and trait causal variants at the TNFAIP3 locus using functional and genomic features.
Ray, J.P., de Boer, C.G., Fulco, C.P. ORCID: https://orcid.org/0000-0002-6592-1279, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Kanai, M. ORCID: https://orcid.org/0000-0001-5165-4408, Ulirsch, J.C. ORCID: https://orcid.org/0000-0002-7947-0827, Tewhey, R. ORCID: https://orcid.org/0000-0002-4607-8001, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Reilly, S.K., Bergman, D.T. ORCID: https://orcid.org/0000-0002-8314-7088, Engreitz, J.M. ORCID: https://orcid.org/0000-0002-5754-1719, Issner, R., Finucane, H.K. ORCID: https://orcid.org/0000-0003-3864-9828, Lander, E.S. ORCID: https://orcid.org/0000-0003-2662-4631, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158 and Hacohen, N. ORCID: https://orcid.org/0000-0002-2349-2656
Nature Communications 11 (1): 1237. 6 March 2020

Nature Genetics

Transcript-specific enrichment enables profiling of rare cell states via single-cell RNA sequencing.
Abay, T., Stickels, R.R. ORCID: https://orcid.org/0000-0003-4326-4084, Takizawa, M.T., Nalbant, B.N., Hsieh, Y.H. ORCID: https://orcid.org/0000-0003-3037-8728, Hwang, S., Snopkowski, C., Yu, K.K.H. ORCID: https://orcid.org/0000-0002-2394-4990, Abou-Mrad, Z. ORCID: https://orcid.org/0000-0001-6387-8396, Tabar, V. ORCID: https://orcid.org/0000-0002-1284-1670, Howitt, B.E ORCID: https://orcid.org/0000-0002-0309-6680, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Chaligné, R. ORCID: https://orcid.org/0000-0003-4332-3291, Satpathy, A.T ORCID: https://orcid.org/0000-0002-5167-537X and Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807
Nature Genetics 57 (2): 451-460. February 2025

Mitochondrial genetics through the lens of single-cell multi-omics.
Nitsch, L. ORCID: https://orcid.org/0000-0003-0775-1969, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Nature Genetics 56 (7): 1355-1365. July 2024

Single-cell multi-omics of mitochondrial DNA disorders reveals dynamics of purifying selection across human immune cells.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Dubois, S.M. ORCID: https://orcid.org/0000-0002-3169-2893, Buquicchio, F.A., Hsieh, Y.H. ORCID: https://orcid.org/0000-0003-3037-8728, Garg, K., Kautz, P. ORCID: https://orcid.org/0000-0002-9658-1676, Nitsch, L. ORCID: https://orcid.org/0000-0003-0775-1969, Praktiknjo, S.D. ORCID: https://orcid.org/0000-0002-0186-5271, Maschmeyer, P. ORCID: https://orcid.org/0000-0002-1705-5302, Verboon, J.M., Gutierrez, J.C., Yin, Y. ORCID: https://orcid.org/0000-0002-2220-005X, Fiskin, E., Luo, W., Mimitou, E.P. ORCID: https://orcid.org/0000-0001-9737-6394, Muus, C., Malhotra, R., Parikh, S., Fleming, M.D. ORCID: https://orcid.org/0000-0003-0948-4024, Oevermann, L., Schulte, J. ORCID: https://orcid.org/0000-0003-0671-1201, Eckert, C., Kundaje, A. ORCID: https://orcid.org/0000-0003-3084-2287, Smibert, P. ORCID: https://orcid.org/0000-0003-0772-1647, Vardhana, S.A. ORCID: https://orcid.org/0000-0002-3100-1298, Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158, Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X, Agarwal, S. ORCID: https://orcid.org/0000-0003-4910-3118 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Nature Genetics 55 (7): 1198-1209. July 2023

Interrogation of human hematopoiesis at single-cell and single-variant resolution.
Ulirsch, J.C. ORCID: https://orcid.org/0000-0002-7947-0827, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Bao, E.L. ORCID: https://orcid.org/0000-0002-6074-6766, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Guo, M.H., Benner, C., Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X, Kartha, V.K., Salem, R.M. ORCID: https://orcid.org/0000-0001-8816-6862, Hirschhorn, J.N., Finucane, H.K. ORCID: https://orcid.org/0000-0003-3864-9828, Aryee, M.J. ORCID: https://orcid.org/0000-0002-6848-1344, Buenrostro, J.D. ORCID: https://orcid.org/0000-0001-9958-3987 and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Nature Genetics 51 (4): 683-693. April 2019

Nature Immunology

The IL-22–oncostatin M axis promotes intestinal inflammation and tumorigenesis.
Cineus, R. ORCID: https://orcid.org/0000-0003-4393-5757, Luo, Y. ORCID: https://orcid.org/0009-0003-0401-467X, Saliutina, M., Manna, S. ORCID: https://orcid.org/0000-0003-2360-0618, Cancino, C.A., Velasco Blázquez, L., Wang, L., Bösel, D., Abdelrahman, A., Klementowicz, J.E., Scherl, A., Hainbuch, S., Bréart, B., Kwon, G., Konopka, A., Guerra, G.M., von Coburg, E. ORCID: https://orcid.org/0009-0001-8546-8854, Gerbeth, Lo., Roels, J., Heinrich, F. ORCID: https://orcid.org/0000-0001-6097-5422, Müller, N. ORCID: https://orcid.org/0000-0003-1559-7711, Durek, P. ORCID: https://orcid.org/0000-0002-6179-0670, Deigendesch, N. ORCID: https://orcid.org/0000-0002-6036-3327, Ziai, J., Hung, J., Conrad, T. ORCID: https://orcid.org/0000-0001-5618-6295, Kühl, A.A. ORCID: https://orcid.org/0000-0003-2293-5387, Wirtz, S. ORCID: https://orcid.org/0000-0001-6936-7431, Löhning, M. ORCID: https://orcid.org/0000-0001-6382-7281, Keir, M. ORCID: https://orcid.org/0000-0002-0637-4092, Diefenbach, A. ORCID: https://orcid.org/0000-0002-9176-9530, Mashreghi, M.F. ORCID: https://orcid.org/0000-0002-8015-6907, Siegmund, B. ORCID: https://orcid.org/0000-0002-0055-958X, Schumann, M., Romagnani, C. ORCID: https://orcid.org/0000-0002-5167-7463, West, N.R. and Hegazy, A.N. ORCID: https://orcid.org/0000-0002-2946-8251
Nature Immunology 26 (6): 837-853. June 2025

Clonal expansion and epigenetic inheritance of long-lasting NK cell memory.
Rückert, T. ORCID: https://orcid.org/0000-0003-1433-1372, Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Mashreghi, M.F. ORCID: https://orcid.org/0000-0002-8015-6907, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164 and Romagnani, C. ORCID: https://orcid.org/0000-0002-5167-7463
Nature Immunology 23 (11): 1551-1563. November 2022

Nature Medicine

Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Muus, C. ORCID: https://orcid.org/0000-0003-2779-0893, Luecken, M.D. ORCID: https://orcid.org/0000-0001-7464-7921, Eraslan, G., Sikkema, L. ORCID: https://orcid.org/0000-0001-9686-6295, Waghray, A., Heimberg, G., Kobayashi, Y., Vaishnav, E.D. ORCID: https://orcid.org/0000-0003-3720-8051, Subramanian, A. ORCID: https://orcid.org/0000-0002-4134-7612, Smillie, C., Jagadeesh, K.A., Duong, E.T. ORCID: https://orcid.org/0000-0001-7122-4448, Fiskin, E., Triglia, E.T. ORCID: https://orcid.org/0000-0002-6059-0116, Ansari, M. ORCID: https://orcid.org/0000-0002-8819-7965, Cai, P., Lin, B. ORCID: https://orcid.org/0000-0002-8851-3534, Buchanan, J., Chen, S., Shu, J., Haber, A.L., Chung, H., Montoro, D.T., Adams, T., Aliee, H., Allon, S.J., Andrusivova, Z., Angelidis, I., Ashenberg, O., Bassler, K., Bécavin, C., Benhar, I., Bergenstråhle, J., Bergenstråhle, L., Bolt, L., Braun, E., Bui, L.T., Callori, S., Chaffin, M., Chichelnitskiy, E., Chiou, J., Conlon, T.M., Cuoco, M.S., Cuomo, A.S.E., Deprez, M., Duclos, G., Fine, D., Fischer, D.S., Ghazanfar, S., Gillich, A., Giotti, B., Gould, J., Guo, M., Gutierrez, A.J., Habermann, A.C., Harvey, T., He, P., Hou, X., Hu, L., Hu, Y., Jaiswal, A., Ji, L., Jiang, P., Kapellos, T.S., Kuo, C.S., Larsson, L., Leney-Greene, M.A., Lim, K., Litviňuková, M. ORCID: https://orcid.org/0000-0002-6713-3647, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Lukassen, S., Luo, W., Maatz, H., Madissoon, E., Mamanova, L., Manakongtreecheep, K., Leroy, S., Mayr, C.H., Mbano, I.M., McAdams, A.M., Nabhan, A.N., Nyquist, S.K., Penland, L., Poirion, O.B., Poli, S., Qi, C.C., Queen, R., Reichart, D., Rosas, I., Schupp, J.C., Shea, C.V., Shi, X., Sinha, R., Sit, R.V., Slowikowski, K., Slyper, M., Smith, N.P., Sountoulidis, A., Strunz, M., Sullivan, T.B., Sun, D., Talavera-López, C., Tan, P., Tantivit, J., Travaglini, K.J., Tucker, N.R., Vernon, K.A., Wadsworth, M.H., Waldman, J., Wang, X., Xu, K., Yan, W., Zhao, W. and Ziegler, C.G.K.
Nature Medicine 27 (3): 546-559. 2 March 2021

Altered translation of GATA1 in Diamond-Blackfan anemia.
Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Gazda, H.T., Eng, J.C., Eichhorn, S.W., Thiru, P., Ghazvinian, R., George, T.I., Gotlib, J.R., Beggs, A.H., Sieff, C.A., Lodish, H.F., Lander, E.S. and Sankaran, V.G.
Nature Medicine 20 (7): 748-753. July 2014

Nature Methods

The next generation of in situ multi-omics.
Salla, M. ORCID: https://orcid.org/0009-0003-8453-2935, Penkert, K. ORCID: https://orcid.org/0000-0002-9948-533X and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Nature Methods 22 (3): 461-462. March 2025

Nature Protocols

Mitochondrial single-cell ATAC-seq for high-throughput multi-omic detection of mitochondrial genotypes and chromatin accessibility.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Liu, V. ORCID: https://orcid.org/0000-0002-6790-6603, Muus, C., Praktiknjo, S.D. ORCID: https://orcid.org/0000-0002-0186-5271, Nitsch, L. ORCID: https://orcid.org/0000-0003-0775-1969, Kautz, P. ORCID: https://orcid.org/0000-0002-9658-1676, Sandor, K. ORCID: https://orcid.org/0000-0003-2892-4865, Yin, Y. ORCID: https://orcid.org/0000-0002-2220-005X, Gutierrez, J.C., Pelka, K. ORCID: https://orcid.org/0000-0003-2856-8602, Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X, Regev, A., Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Nature Protocols 18 (5): 1416-1440. May 2023

Neuron

A transcriptional atlas of gut-innervating neurons reveals activation of interferon signaling and ferroptosis during intestinal inflammation.
Forster, P.M., Jakob, M.O., Yusuf, D., Bubeck, M., Limberger, H., Luo, Y., Thieme, P., Polici, A., Sterczyk, N., Boulekou, S., Bartel, L., Cosovanu, C., Witkowski, M., González-Acera, M., Kühl, A.A., Weidinger, C., Backofen, R., Hegazy, A.N., Patankar, J.V. and Klose, C.S.N.
Neuron 113 (9): 1333-1351. 7 May 2025

New England Journal of Medicine

Purifying selection against pathogenic mitochondrial DNA in human T cells.
Walker, M.A., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Karaa, A., Sankaran, V.G., Regev, A. and Mootha, V.K.
New England Journal of Medicine 383 (16): 1556-1563. 15 October 2020

Proceedings of the National Academy of Sciences of the United States of America

Cell type-specific purifying selection of synonymous mitochondrial DNA variation.
Lareau, Caleb A. ORCID: https://orcid.org/0000-0003-4179-4807, Maschmeyer, Patrick ORCID: https://orcid.org/0000-0002-1705-5302, Yin, Yajie ORCID: https://orcid.org/0000-0002-2220-005X, Gutierrez, Jacob C., Dhindsa, Ryan S. ORCID: https://orcid.org/0000-0002-8965-0813, Gribling-Burrer, Anne-Sophie, Zielinski, Sebastian ORCID: https://orcid.org/0000-0001-5070-1209, Hsieh, Yu-Hsin ORCID: https://orcid.org/0000-0003-3037-8728, Nitsch, Lena ORCID: https://orcid.org/0000-0003-0775-1969, Dimitrova, Veronika ORCID: https://orcid.org/0009-0007-6915-7136, Nalbant, Benan, Buquicchio, Frank A. ORCID: https://orcid.org/0000-0002-9910-4947, Abay, Tsion ORCID: https://orcid.org/0009-0009-0024-2732, Stickels, Robert R., Ulirsch, Jacob C., Yan, Patrick, Wang, Fangyi ORCID: https://orcid.org/0009-0000-8310-3088, Miao, Zhuang, Sandor, Katalin ORCID: https://orcid.org/0000-0003-2892-4865, Daniel, Bence, Liu, Vincent, Mendez, Paul L. ORCID: https://orcid.org/0000-0003-2025-7981, Knaus, Petra, Meyer, Manpreet ORCID: https://orcid.org/0009-0004-5700-8529, Greenleaf, William J. ORCID: https://orcid.org/0000-0003-1409-3095, Kundaje, Anshul ORCID: https://orcid.org/0000-0003-3084-2287, Smyth, Redmond P. ORCID: https://orcid.org/0000-0002-1580-0671, Munschauer, Mathias ORCID: https://orcid.org/0000-0001-6143-4548, Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164 and Satpathy, Ansuman T. ORCID: https://orcid.org/0000-0002-5167-537X
Proceedings of the National Academy of Sciences of the United States of America 122 (30): e2505704122. 29 July 2025

Insight into GATA1 transcriptional activity through interrogation of cis elements disrupted in human erythroid disorders.
Wakabayashi, A., Ulirsch, J.C., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Fiorini, C., Yasuda, M., Choudhuri, A., McDonel, P., Zon, L.I. and Sankaran, V.G.
Proceedings of the National Academy of Sciences of the United States of America 113 (16): 4434-4439. 19 April 2016

Science Translational Medicine

Epithelial OPA1 links mitochondrial fusion to inflammatory bowel disease.
Bao, L.L. ORCID: https://orcid.org/0009-0003-3081-7062, Yu, Y.Q. ORCID: https://orcid.org/0000-0002-4847-8877, González-Acera, M. ORCID: https://orcid.org/0009-0008-9445-5650, Patankar, J.V. ORCID: https://orcid.org/0000-0002-1884-7424, Giessl, A. ORCID: https://orcid.org/0000-0002-9768-2049, Sturm, G. ORCID: https://orcid.org/0000-0001-9584-7842, Kühl, A.A. ORCID: https://orcid.org/0000-0003-2293-5387, Atreya, R. ORCID: https://orcid.org/0000-0002-8556-8433, Erkert, L., Gámez-Belmonte, R. ORCID: https://orcid.org/0000-0002-7159-8957, Krug, S.M. ORCID: https://orcid.org/0000-0002-1293-2484, Schmid, B. ORCID: https://orcid.org/0000-0002-9327-2296, Tripal, P., Chiriac, M.T., Hildner, K., Siegmund, B. ORCID: https://orcid.org/0000-0002-0055-958X, Wirtz, S. ORCID: https://orcid.org/0000-0001-6936-7431, Stürzl, M. ORCID: https://orcid.org/0000-0002-9276-2824, Mohamed Abdou, M. ORCID: https://orcid.org/0009-0002-7352-166X, Trajanoski, Z. ORCID: https://orcid.org/0000-0002-0636-7351, Neurath, M.F. ORCID: https://orcid.org/0000-0003-4344-1474, Zorzano, A. ORCID: https://orcid.org/0000-0002-1638-0306 and Becker, C. ORCID: https://orcid.org/0000-0002-1388-1041
Science Translational Medicine 17 (781): eadn8699. January 2025

Stem Cell Reports

Single-cell multi-omics and lineage tracing to dissect cell fate decision-making.
Haghverdi, L. ORCID: https://orcid.org/0000-0001-9280-9170 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
Stem Cell Reports 18 (1): 13-25. 10 January 2023

Viruses

Detection of Bombali virus in a Mops condylurus bat in Kyela, Tanzania.
Düx, A., Lwitiho, S.E., Ayouba, A. ORCID: https://orcid.org/0000-0002-5081-1632, Röthemeier, C., Merkel, K., Weiss, S. ORCID: https://orcid.org/0000-0002-4835-3695, Thaurignac, G. ORCID: https://orcid.org/0000-0002-8679-0546, Lander, A., Kouadio, L. ORCID: https://orcid.org/0000-0003-1819-3333, Nowak, K. ORCID: https://orcid.org/0000-0001-7537-5200, Corman, V. ORCID: https://orcid.org/0000-0002-3605-0136, Drosten, C., Couacy-Hymann, E., Krüger, D.H., Kurth, A. ORCID: https://orcid.org/0000-0002-9660-9878, Calvignac-Spencer, S., Peeters, M., Ntinginya, N.E., Leendertz, F.H. and Mangu, C.
Viruses 16 (8): 1227. August 2024

Zenodo

10X FFPE snRNASeq single Glia transcriptomes from IBD patients and controls.
Patankar, Jay V. ORCID: https://orcid.org/0000-0002-1884-7424, Penkert, Klara ORCID: https://orcid.org/0000-0002-9948-533X, Romagnani, Chiara ORCID: https://orcid.org/0000-0002-5167-7463 and Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164
[Dataset] 20 February 2026

bioRxiv

Cryo-mtscATAC-seq for single-cell mitochondrial DNA genotyping and clonal tracing in archived human tissues.
Salla, Maren ORCID: https://orcid.org/0009-0003-8453-2935, Obermayer, Benedikt ORCID: https://orcid.org/0000-0002-9116-630X, Cotta, Marie ORCID: https://orcid.org/0000-0002-2589-3189, Friebel, Ekaterina ORCID: https://orcid.org/0000-0003-1419-2376, Campo-Garcia, Juliana, Charalambous, Georgia, Bueno, Roemel Jeusep, Lieu, Dustin, Dabek, Patryk, Helmuth, Ashley, Tellides, George, Assi, Roland, Bankov, Katrin, Lodrini, Marco, Deubzer, Hedwig ORCID: https://orcid.org/0000-0002-6115-4893, Beule, Dieter ORCID: https://orcid.org/0000-0002-3284-0632, Chung, Hattie ORCID: https://orcid.org/0000-0001-8417-5606, Radbruch, Helena ORCID: https://orcid.org/0000-0001-6941-3397, Capper, David, Heppner, Frank ORCID: https://orcid.org/0000-0001-9816-8917, Starossom, Sarah C. ORCID: https://orcid.org/0000-0001-7935-9910, Lareau, Caleb A. ORCID: https://orcid.org/0000-0003-4179-4807, Liu, Ilon ORCID: https://orcid.org/0000-0002-6186-3630 and Ludwig, Leif S. ORCID: https://orcid.org/0000-0002-2916-2164
bioRxiv : 2025.09.17.675534. 20 September 2025

Tissue-specific apparent mtDNA heteroplasmy and its relationship with ageing and mtDNA gene expression.
Wengert, S., Giannoulis, X., Kreitmaier, P., Kautz, P. ORCID: https://orcid.org/0000-0002-9658-1676, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Prokisch, H. ORCID: https://orcid.org/0000-0003-2379-6286, Casale, F.P. ORCID: https://orcid.org/0000-0002-5450-1981, Heinig, M. ORCID: https://orcid.org/0000-0002-5612-1720 and Cai, N. ORCID: https://orcid.org/0000-0001-7496-2075
bioRxiv : 2024.12.11.627989. 16 December 2024

Artifacts in single-cell mitochondrial DNA mutation analyses misinform phylogenetic inference.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Chapman, M.S. ORCID: https://orcid.org/0000-0002-5320-8193, Penter, L. ORCID: https://orcid.org/0000-0002-9060-0207, Nawy, T. ORCID: https://orcid.org/0000-0003-3720-3699, Pe’er, D. ORCID: https://orcid.org/0000-0002-9259-8817 and Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164
bioRxiv : 2024.07.28.605517v2. 5 October 2024

eLife

Gene-centric functional dissection of human genetic variation uncovers regulators of hematopoiesis.
Nandakumar, S.K. ORCID: https://orcid.org/0000-0002-7853-426X, McFarland, S.K., Mateyka, L.M., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ulirsch, J.C., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Agarwal, G., Engreitz, J.M. ORCID: https://orcid.org/0000-0002-5754-1719, Przychodzen, B., McConkey, M., Cowley, G.S., Doench, J.G. ORCID: https://orcid.org/0000-0002-3707-9889, Maciejewski, J.P., Ebert, B.L., Root, D.E. and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
eLife 8 : e44080. 9 May 2019