Recent highlights and links are below, and a full list of publications can be found here. Please don’t hesitate to contact us!
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A reference induced pluripotent stem cell line for large-scale collaborative studies. , , , , ,
- Whole-genome analysis of human embryonic stem cells enables rational line selection based on genetic variation. Florian T Merkle*$, Sulagna Ghosh*, Giulio Genovese, Robert E Handsaker, Seva Kashin, Daniel Meyer, Konrad J Karczewski, Colm O’Dushlaine, Carlos Pato, Michele Pato, Daniel G MacArthur, Steven A McCarroll$, Kevin Eggan$. March 3, 2022 Cell Stem Cell volume 29(3), pages 472-486. e7 https://doi.org/10.1016/j.stem.2022.01.011
- The Genetic Architecture of DNA Replication Timing in Human Pluripotent Stem Cells. Qiliang Ding, Matthew M. Edwards, Michelle L. Hulke, Alexa N. Bracci, Ya Hu, Yao Tong, Xiang Zhu, Joyce Hsiao, Christine J. Charvet, Sulagna Ghosh, Robert E. Handsaker, Kevin Eggan, Florian T. Merkle, Jeannine Gerhardt, Dieter Egli, Andrew G. Clark, Amnon Koren. Nature Communications 2021 Nov 19 volume 12, Article number: 6746 https://www.nature.com/articles/s41467-021-27115-9
- POMC neurons functional heterogeneity relies on mTORC1 signaling. Nicolas Saucisse, Wilfrid Mazier, Vincent Simon, Elke Binder, Caterina Catania, Luigi Bellocchio, Roman A. Romanov, Isabelle Matias, Philippe Zizzari, Stephane Leon, Carmelo Quarta, Astrid Cannich, Kana Meece, Delphine Gonzales, Samantha Clark, Julia M. Becker, Giles S.H. Yeo, Florian T. Merkle, Sharon L. Wardlaw, Tibor Harkany, Federico Massa, Giovanni Marsicano, Daniela Cota. Cell Reports 2021 Oct 12;37(2):109800.doi: 10.1016/j.celrep.2021.109800. PMID: 34644574
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation. J Jerber, DD Seaton, ASE Cuomo, N Kumasaka, J Haldane, J Steer, M Patel, D Pearce, M Andersson, MJ Bonder, E Mountjoy, M Ghoussaini, MA Lancaster, HipSci Consortium, JC Marioni$, FT Merkle$, DJ Gaffney$, O Stegle$. Nature Genetics volume 53, pages304–312(2021), https://www.nature.com/articles/s41588-021-00801-6
- Kirwan P, Kay RG, Brouwers B, Herranz-Pérez V, Jura M, Larraufie P, Jerber J, Pembroke J, Bartels T, White A, Gribble FM, Reimann F, Farooqi IS, O’Rahilly S, Merkle FT$. Quantitative mass spectrometry for human melanocortin peptides in vitro and in vivo suggests prominent roles for β-MSH and desacetyl α-MSH in energy homeostasis. Mol Metab. 2018 Nov;17:82-97. doi: 10.1016/j.molmet.2018.08.006. Epub 2018 Aug 21.
- Merkle FT*, Ghosh S*, Kamataki N, Mitchell J, Avior Y, Mello C, Kashin S, Mekhoubad S, Ilic D, Charlton M, Saphier G, Handsaker RE, Genovese G, Bar S, Benvenisty N, McCarroll S, Eggan K. Human pluripotent stem cells recurrently acquire and expand dominant negative P53 mutations. Nature, 2017 April 26. doi:10.1038/nature22312
- Santos D, Kiskinis E, Eggan K, and Merkle, FT$. Comprehensive protocols for CRISPR/Cas9-based gene editing in human pluripotent stem cells. Current Protocols in Stem Cell Biology. 2016 Aug 17, pp 6.1-5B. 6.60
- Merkle FT*, Neuhausser WM*, Santos D, Gagnon J, Valen E, Maas K, Schier AF, and Eggan K. Efficient CRISPR-Cas9-Mediated Generation of Knockin Human Pluripotent Stem Cells Lacking Undesired Mutations at the Targeted Locus. Cell Reports, 2015 May 5;11 (6), 875-883.
- Liu J, Merkle FT, Gandhi AV, Woods IG, Chiy CH, Shimogori T, Schier AF, Prober DA. Evolutionarily conserved regulation of hypocretin neuron specification by Lhx9. Development. 2015 Feb 27; pii: dev.117424.
- Merkle FT, Maroof A, Wataya T, Sasai Y, Studer L, Eggan KC, Schier AF. Generation of neuropeptidergic hypothalamic neurons from human pluripotent stem cells. Development. 2015 Feb 2;142 (4), 633-643.
- Merkle FT, Eggan K. Modeling human disease with pluripotent stem cells: from genome association to function. Cell Stem Cell.2013 Jun 6;12(6):656-68. PMID: 23746975.
*equal contribution; $corresponding author