A selection of recent stem cell papers from members of the Center for Stem Cell Biology is provided below:

Chen W, Choi J, Li X, Nathans JF, Martin B, Yang W, Hamazaki N, Qiu C, Lalanne JB, Regalado S, Kim H, Agarwal V, Nichols E, Leith A, Lee C, Shendure J. Symbolic recording of signalling and cis-regulatory element activity to DNA. Nature. 2024 Jul 17. doi: 10.1038/s41586-024-07706-4. PMID: 39020177

Kim TW, Koo SY, Riessland M, Chaudhry F, Kolisnyk B, Cho HS, Russo MV, Saurat N, Mehta S, Garippa R, Betel D, Studer L. TNF-NF-κB-p53 axis restricts in vivo survival of hPSC-derived dopamine neurons. Cell. 2024 Jul 11;187(14):3671-3689.e23. doi: 10.1016/j.cell.2024.05.030. PMID: 38866017

Singhal A, Styers HC, Rub J, Li Z, Torborg SR, Kim JY, Grbovic-Huezo O, Feng H, Tarcan ZC, Sahin Ozkan H, Hallin J, Basturk O, Yaeger R, Christensen JG, Betel D, Yan Y, Chio IIC, de Stanchina E, Tammela T. A classical epithelial state drives acute resistance to KRAS inhibition in pancreas cancer. Cancer Discov. 2024 Jul 8. doi: 10.1158/2159-8290.CD-24-0740. PMID: 38975873

Saurat N, Minotti AP, Rahman MT, Sikder T, Zhang C, Cornacchia D, Jungverdorben J, Ciceri G, Betel D, Studer L. Genome-wide CRISPR screen identifies neddylation as a regulator of neuronal aging and AD neurodegeneration. Cell Stem Cell. 2024 Jun 21:S1934-5909(24)00210-8. doi: 10.1016/j.stem.2024.06.001. PMID: 38917806

Jackson BT, Finley LWS. Cell Stem Cell. Metabolic regulation of the hallmarks of stem cell biology.  2024 Feb 1;31(2):161-180. doi: 10.1016/j.stem.2024.01.003. PMID: 38306993 Review.

Ciceri G, Baggiolini A, Cho HS, Kshirsagar M, Benito-Kwiecinski S, Walsh RM, Aromolaran KA, Gonzalez-Hernandez AJ, Munguba H, Koo SY, Xu N, Sevilla KJ, Goldstein PA, Levitz J, Leslie CS, Koche RP, Studer L. An epigenetic barrier sets the timing of human neuronal maturation.  Nature. 2024 Feb;626(8000):881-890. doi: 10.1038/s41586-023-06984-8. Epub 2024 Jan 31. PMID: 38297124

Yang L, Kim TW, Han Y, Nair MS, Harschnitz O, Zhu J, Wang P, Koo SY, Lacko LA, Chandar V, Bram Y, Zhang T, Zhang W, He F, Pan C, Wu J, Huang Y, Evans T, van der Valk P, Titulaer MJ, Spoor JKH, Furler O’Brien RL, Bugiani M, D J Van de Berg W, Schwartz RE, Ho DD, Studer L, Chen S. SARS-CoV-2 infection causes dopaminergic neuron senescence. Cell Stem Cell. 2024 Feb 1;31(2):196-211.e6. doi: 10.1016/j.stem.2023.12.012. Epub 2024 Jan 17. PMID: 38237586

Hergenreder E, Minotti AP, Zorina Y, Oberst P, Zhao Z, Munguba H, Calder EL, Baggiolini A, Walsh RM, Liston C, Levitz J, Garippa R, Chen S, Ciceri G, Studer L. Combined small-molecule treatment accelerates maturation of human pluripotent stem cell-derived neurons. Nat Biotechnol. 2024 Jan 2. doi: 10.1038/s41587-023-02031-z. Online ahead of print. PMID: 38168993

Luo H, Cortés-López M, Tam CL, Xiao M, Wakiro I, Chu KL, Pierson A, Chan M, Chang K, Yang X, Fecko D, Han G, Ahn EE, Morris QD, Landau DA, Kharas MG. SON is an essential m⁶A target for hematopoietic stem cell fate. Cell Stem Cell. 2023 Dec 7;30(12):1658-1673.e10. doi: 10.1016/j.stem.2023.11.006. PMID: 38065069

Luo R, Yan J, Oh JW, Xi W, Shigaki D, Wong W, Cho HS, Murphy D, Cutler R, Rosen BP, Pulecio J, Yang D, Glenn RA, Chen T, Li QV, Vierbuchen T, Sidoli S, Apostolou E, Huangfu D, Beer MA. Dynamic network-guided CRISPRi screen identifies CTCF-loop-constrained nonlinear enhancer gene regulatory activity during cell state transitions. Nat Genet. 2023 Aug;55(8):1336-1346. doi: 10.1038/s41588-023-01450-7. Epub 2023 Jul 24. PMID: 37488417

Majd H, Amin S, Ghazizadeh Z, Cesiulis A, Arroyo E, Lankford K, Majd A, Farahvashi S, Chemel AK, Okoye M, Scantlen MD, Tchieu J, Calder EL, Le Rouzic V, Shibata B, Arab A, Goodarzi H, Pasternak G, Kocsis JD, Chen S, Studer L, Fattahi F. Deriving Schwann cells from hPSCs enables disease modeling and drug discovery for diabetic peripheral neuropathy. Cell Stem Cell. 2023 May 4;30(5):632-647.e10. doi: 10.1016/j.stem.2023.04.006. PMID: 37146583

Fan Y, Hackland J, Baggiolini A, Hung LY, Zhao H, Zumbo P, Oberst P, Minotti AP, Hergenreder E, Najjar S, Huang Z, Cruz NM, Zhong A, Sidharta M, Zhou T, de Stanchina E, Betel D, White RM, Gershon M, Margolis KG, Studer L. hPSC-derived sacral neural crest enables rescue in a severe model of Hirschsprung’s disease. Cell Stem Cell. 2023 Mar 2;30(3):264-282.e9. doi: 10.1016/j.stem.2023.02.003. PMID: 36868194

Joyner AL, Bayin NS. Cerebellum lineage allocation, morphogenesis and repair: impact of interplay amongst cells. Development. 2022 Sep 15;149(18):dev185587. doi: 10.1242/dev.185587. Epub 2022 Sep 29. PMID: 36172987. Review

Abuhashem A, Chivu AG, Zhao Y, Rice EJ, Siepel A, Danko CG, Hadjantonakis AK. RNA Pol II pausing facilitates phased pluripotency transitions by buffering transcription. Genes Dev. 2022 Aug 18;36(13-14):770-89. doi: 10.1101/gad.349565.122. Online ahead of print. PMID: 35981753

van der Stegen SJC, Lindenbergh PL, Petrovic RM, Xie H, Diop MP, Alexeeva V, Shi Y, Mansilla-Soto J, Hamieh M, Eyquem J, Cabriolu A, Wang X, Abujarour R, Lee T, Clarke R, Valamehr B, Themeli M, Riviere I, Sadelain M. Generation of T-cell-receptor-negative CD8αβ-positive CAR T cells from T-cell-derived induced pluripotent stem cells. Nat Biomed Eng. 2022 Nov;6(11):1284-1297. doi: 10.1038/s41551-022-00915-0. Epub 2022 Aug 8. PMID: 35941192

Medina-Cano D, Corrigan EK, Glenn RA, Islam MT, Lin Y, Kim J, Cho H, Vierbuchen T. Development. Rapid and robust directed differentiation of mouse epiblast stem cells into definitive endoderm and forebrain organoids. 2022 Oct 15;149(20):dev200561. doi: 10.1242/dev.200561. Epub 2022 Sep 5. PMID: 35899604

Abuhashem A, Lee AS, Joyner AL, Hadjantonakis AK. Rapid and efficient degradation of endogenous proteins in vivo identifies stage-specific roles of RNA Pol II pausing in mammalian development. Dev Cell. 2022 Apr 25;57(8):1068-1080.e6. doi: 10.1016/j.devcel.2022.03.013. Epub 2022 Apr 13. PMID: 35421370

Weiss JM, Hunter MV, Cruz NM, Baggiolini A, Tagore M, Ma Y, Misale S, Marasco M, Simon-Vermot T, Campbell NR, Newell F, Wilmott JS, Johansson PA, Thompson JF, Long GV, Pearson JV, Mann GJ, Scolyer RA, Waddell N, Montal ED, Huang TH, Jonsson P, Donoghue MTA, Harris CC, Taylor BS, Xu T, Chaligné R, Shliaha PV, Hendrickson R, Jungbluth AA, Lezcano C, Koche R, Studer L, Ariyan CE, Solit DB, Wolchok JD, Merghoub T, Rosen N, Hayward NK, White RM. Anatomic position determines oncogenic specificity in melanoma.

Nature. 2022 Apr;604(7905):354-361. doi: 10.1038/s41586-022-04584-6. Epub 2022 Mar 30. PMID: 35355015

Arnold PK, Jackson BT, Paras KI, Brunner JS, Hart ML, Newsom OJ, Alibeckoff SP, Endress J, Drill E, Sullivan LB, Finley LWS. A non-canonical tricarboxylic acid cycle underlies cellular identity. Nature. 2022 Mar;603(7901):477-481. doi: 10.1038/s41586-022-04475-w. Epub 2022 Mar 9. PMID: 35264789

Giacomelli E, Vahsen BF, Calder EL, Xu Y, Scaber J, Gray E, Dafinca R, Talbot K, Studer L. Human stem cell models of neurodegeneration: From basic science of amyotrophic lateral sclerosis to clinical translation. Cell Stem Cell. 2022 Jan 6;29(1):11-35. doi: 10.1016/j.stem.2021.12.008. PMID: 34995492

Lukaszewicz A, Lange J, Keeney S, Jasin M. De novo deletions and duplications at recombination hotspots in mouse germlines. Cell. 2021 Nov 24;184(24):5970-5984.e18. doi: 10.1016/j.cell.2021.10.025. Epub 2021 Nov 17. PMID: 34793701

Funato K, Smith RC, Saito Y, Tabar V. Dissecting the impact of regional identity and the oncogenic role of human-specific NOTCH2NL in an hESC model of H3.3G34R-mutant glioma.  Cell Stem Cell. 2021 May 6;28(5):894-905.e7. doi: 10.1016/j.stem.2021.02.003. Epub 2021 Feb 24. PMID: 33631117

Dixon G, Pan H, Yang D, Rosen BP, Jashari T, Verma N, Pulecio J, Caspi I, Lee K, Stransky S, Glezer A, Liu C, Rivas M, Kumar R, Lan Y, Torregroza I, He C, Sidoli S, Evans T, Elemento O, Huangfu D. QSER1 protects DNA methylation valleys from de novo methylation. Science. 2021 Apr 9;372(6538):eabd0875. doi: 10.1126/science.abd0875. PMID: 33833093

Bao Z, Baylies MK, Hadjantonakis AK, Huangfu D, Jasin M, Joyner AL, Lacy E, Lai EC, Studer L, Vierbuchen T, Zallen JA. Cell. Kathryn Anderson (1952-2020). 2021 Mar 4;184(5):1123-1126. doi: 10.1016/j.cell.2021.01.054. PMID: 33667364

Piao J, Zabierowski S, Dubose BN, Hill EJ, Navare M, Claros N, Rosen S, Ramnarine K, Horn C, Fredrickson C, Wong K, Safford B, Kriks S, El Maarouf A, Rutishauser U, Henchcliffe C, Wang Y, Riviere I, Mann S, Bermudez V, Irion S, Studer L, Tomishima M, Tabar V. Preclinical Efficacy and Safety of a Human Embryonic Stem Cell-Derived Midbrain Dopamine Progenitor Product, MSK-DA01.  Cell Stem Cell. 2021 Feb 4;28(2):217-229.e7. doi: 10.1016/j.stem.2021.01.004. PMID: 33545080

Tigano M, Vargas DC, Tremblay-Belzile S, Fu Y, Sfeir A. Nuclear sensing of breaks in mitochondrial DNA enhances immune surveillance. Nature. 2021 Mar;591(7850):477-481. doi: 10.1038/s41586-021-03269-w. Epub 2021 Feb 24. PMID: 33627873

Guttikonda SR, Sikkema L, Tchieu J, Saurat N, Walsh RM, Harschnitz O, Ciceri G, Sneeboer M, Mazutis L, Setty M, Zumbo P, Betel D, de Witte LD, Pe’er D, Studer L. Fully defined human pluripotent stem cell-derived microglia and tri-culture system model C3 production in Alzheimer’s disease. Nat Neurosci. 2021 Mar;24(3):343-354. doi: 10.1038/s41593-020-00796-z. Epub 2021 Feb 8. PMID: 33558694

Kim TW, Piao J, Koo SY, Kriks S, Chung SY, Betel D, Socci ND, Choi SJ, Zabierowski S, Dubose BN, Hill EJ, Mosharov EV, Irion S, Tomishima MJ, Tabar V, Studer L. Biphasic Activation of WNT Signaling Facilitates the Derivation of Midbrain Dopamine Neurons from hESCs for Translational Use. Cell Stem Cell. 2021 Feb 4;28(2):343-355.e5. doi: 10.1016/j.stem.2021.01.005. PMID: 33545081