Amander Clark*
Phone: 310-794-4201
Office: 490B BSRB
Amander Clark, PhD is the Founding Director of the UCLA Center for Reproductive Science, Health and Education. The goal of the Center is to provide a home for researchers and students interested in the science and social science of reproductive bodies, pregnancy and pregnancy outcomes. She is also a Professor of Molecular Cell and Developmental Biology in the College of Letters and Science. Professor Clark is an award-winning scientist and internationally recognized expert on topics in stem cell biology and reproductive science, being regularly invited to appear as a subject matter expert for media outlets including the New York Times, the Economist, the New Yorker and Public Radio. Results from the Clark Lab provide the basis for engineering models of reproductive organs. Her current emphasis is on engineering models of the ovary to understand ovarian development, as well as ovarian disease and dysfunction which affect millions of women and girls around the world. She also serves on the National Academies of Science Engineering and Medicine Board of Health Sciences Policy. In 2023 Professor Clark began her elected role as President of the International Society for Stem Cell Research, a global non-profit that promotes excellence in stem cell science and applications to human health.
Websites:
Lab Website
Department Website
Center Website
Research Interests:
Stem Cell Biology, Reproductive biology, Genetics, Development, Cell Biology, Epigenetics,Publications:
Clark AT, Goolam M, Hanna JH, Long K, Nicol D, Petropoulos S, Saitou M, Tam PPL, Wang H. Human developmental biology - a global perspective. Development. 2024 Sep 01; 151(17). view on PubMed
Clark AT, Rossant J, Lovell-Badge R. When boundaries benefit science and society. Cell. 2024 Jun 20; 187(13):3187-3193. view on PubMed
Esfahani SN, Zheng Y, Arabpour A, Irizarry AMR, Kobayashi N, Xue X, Shao Y, Zhao C, Agranonik NL, Sparrow M, Hunt TJ, Faith J, Lara MJ, Wu QY, Silber S, Petropoulos S, Yang R, Chien KR, Clark AT, Fu J. Derivation of human primordial germ cell-like cells in an embryonic-like culture. Nat Commun. 2024 Jan 02; 15(1):167. view on PubMed
Verdikt R, Armstrong AA, Cheng J, Hwang YS, Clark AT, Yang X, Allard P. Metabolic memory of Δ9-tetrahydrocannabinol exposure in pluripotent stem cells and primordial germ cells-like cells. Elife. 2023 Dec 27; 12. view on PubMed
Lara MJD, Wamaitha SE, Arabpour A, Hennebold JD, Clark AT, Sosa E. Generation of a rhesus macaque induced pluripotent stem cell line (riPSC05) under feeder-free conditions. Stem Cell Res. 2023 12; 73:103241. view on PubMed
Sosa E, Mumu SK, Alvarado CC, Wu QY, Roberson I, Espinoza A, Hsu FM, Saito K, Hunt TJ, Faith JE, Lowe MG, DiRusso JA, Clark AT. Reconstituted ovaries self-assemble without an ovarian surface epithelium. Stem Cell Reports. 2023 11 14; 18(11):2190-2202. view on PubMed
Landecker HL, Clark AT. Human embryo models made from pluripotent stem cells are not synthetic; they aren't embryos, either. Cell Stem Cell. 2023 10 05; 30(10):1290-1293. view on PubMed
Verdikt R, Armstrong AA, Cheng J, Hwang YS, Clark AT, Yang X, Allard P. Metabolic memory of Δ9-tetrahydrocannabinol exposure in pluripotent stem cells and primordial germ cells-like cells. bioRxiv. 2023 Oct 02. view on PubMed
Wamaitha SE, Nie X, Pandolfi EC, Wang X, Yang Y, Stukenborg JB, Cairns BR, Guo J, Clark AT. Single-cell analysis of the developing human ovary defines distinct insights into ovarian somatic and germline progenitors. Dev Cell. 2023 10 23; 58(20):2097-2111.e3. view on PubMed
DiRusso JA, Clark AT. Transposable elements in early human embryo development and embryo models. Curr Opin Genet Dev. 2023 08; 81:102086. view on PubMed
Hsu FM, Wu QY, Fabyanic EB, Wei A, Wu H, Clark AT. TET1 facilitates specification of early human lineages including germ cells. iScience. 2023 Jul 21; 26(7):107191. view on PubMed
Pandolfi EC, Hsu FM, Duhon M, Zheng Y, Goldsmith S, Fu J, Silber SJ, Clark AT. In vitro germ cell induction from fertile and infertile monozygotic twin research participants. Cell Rep Med. 2022 10 18; 3(10):100782. view on PubMed
Watanabe M, Buth JE, Haney JR, Vishlaghi N, Turcios F, Elahi LS, Gu W, Pearson CA, Kurdian A, Baliaouri NV, Collier AJ, Miranda OA, Dunn N, Chen D, Sabri S, Torre-Ubieta L, Clark AT, Plath K, Christofk HR, Kornblum HI, Gandal MJ, Novitch BG. TGFβ superfamily signaling regulates the state of human stem cell pluripotency and capacity to create well-structured telencephalic organoids. Stem Cell Reports. 2022 10 11; 17(10):2220-2238. view on PubMed
Lowe MG, Yen MR, Hsu FM, Hosohama L, Hu Z, Chitiashvili T, Hunt TJ, Gorgy I, Bernard M, Wamaitha SE, Chen PY, Clark AT. EED is required for mouse primordial germ cell differentiation in the embryonic gonad. Dev Cell. 2022 06 20; 57(12):1482-1495.e5. view on PubMed
Chitiashvili T, Hsu FM, Dror I, Plath K, Clark A. FGFR3 is expressed by human primordial germ cells and is repressed after meiotic initiation to form primordial oocytes. Stem Cell Reports. 2022 06 14; 17(6):1268-1278. view on PubMed
Xiang X, Tao Y, DiRusso J, Hsu FM, Zhang J, Xue Z, Pontis J, Trono D, Liu W, Clark AT. Human reproduction is regulated by retrotransposons derived from ancient Hominidae-specific viral infections. Nat Commun. 2022 01 24; 13(1):463. view on PubMed
Desai VP, Chouaref J, Wu H, Pastor WA, Kan RL, Oey HM, Li Z, Ho J, Vonk KKD, San Leon Granado D, Christopher MA, Clark AT, Jacobsen SE, Daxinger L. The role of MORC3 in silencing transposable elements in mouse embryonic stem cells. Epigenetics Chromatin. 2021 10 27; 14(1):49. view on PubMed
Shetty G, Mitchell JM, Lam TNA, Phan TT, Zhang J, Tailor RC, Peters KA, Penedo MC, Hanna CB, Clark AT, Orwig KE, Meistrich ML. Postpubertal spermatogonial stem cell transplantation restores functional sperm production in rhesus monkeys irradiated before and after puberty. Andrology. 2021 09; 9(5):1603-1616. view on PubMed
Pandolfi EC, Hunt TJ, Goldsmith S, Hurlbut K, Silber SJ, Clark AT. Generation of three human induced pluripotent stem cell sublines (UCLAi004-A, UCLAi004-B, and UCLAi004-C) for reproductive science research. Stem Cell Res. 2021 07; 54:102446. view on PubMed
Pandolfi EC, Hunt TJ, Goldsmith S, Hurlbut K, Silber SJ, Clark AT. Generation of three human induced pluripotent stem cell sublines (UCLAi005-A, UCLAi005-B and UCLAi005-C) for reproductive science research. Stem Cell Res. 2021 07; 54:102409. view on PubMed
Clark AT, Brivanlou A, Fu J, Kato K, Mathews D, Niakan KK, Rivron N, Saitou M, Surani A, Tang F, Rossant J. Human embryo research, stem cell-derived embryo models and in vitro gametogenesis: Considerations leading to the revised ISSCR guidelines. Stem Cell Reports. 2021 06 08; 16(6):1416-1424. view on PubMed
Liu X, Tan JP, Schröder J, Aberkane A, Ouyang JF, Mohenska M, Lim SM, Sun YBY, Chen J, Sun G, Zhou Y, Poppe D, Lister R, Clark AT, Rackham OJL, Zenker J, Polo JM. Modelling human blastocysts by reprogramming fibroblasts into iBlastoids. Nature. 2021 Mar; 591(7851):627-632. view on PubMed
Hancock GV, Wamaitha SE, Peretz L, Clark AT. Mammalian primordial germ cell specification. Development. 2021 03 15; 148(6). view on PubMed
Pandolfi EC, Sosa E, Hunt TJ, Goldsmith S, Hurlbut K, Silber SJ, Clark AT. Generation of six human induced pluripotent stem cell sublines (MZT01E, MZT01F, MZT01N and MZT02D, MZT02G and MZT02H) for reproductive science research. Stem Cell Res. 2021 03; 51:102204. view on PubMed
Guo J, Sosa E, Chitiashvili T, Nie X, Rojas EJ, Oliver E, DonorConnect, Plath K, Hotaling JM, Stukenborg JB, Clark AT, Cairns BR. Single-cell analysis of the developing human testis reveals somatic niche cell specification and fetal germline stem cell establishment. Cell Stem Cell. 2021 04 01; 28(4):764-778.e4. view on PubMed
Chitiashvili T, Dror I, Kim R, Hsu FM, Chaudhari R, Pandolfi E, Chen D, Liebscher S, Schenke-Layland K, Plath K, Clark A. Female human primordial germ cells display X-chromosome dosage compensation despite the absence of X-inactivation. Nat Cell Biol. 2020 12; 22(12):1436-1446. view on PubMed
Liu X, Ouyang JF, Rossello FJ, Tan JP, Davidson KC, Valdes DS, Schröder J, Sun YBY, Chen J, Knaupp AS, Sun G, Chy HS, Huang Z, Pflueger J, Firas J, Tano V, Buckberry S, Paynter JM, Larcombe MR, Poppe D, Choo XY, O'Brien CM, Pastor WA, Chen D, Leichter AL, Naeem H, Tripathi P, Das PP, Grubman A, Powell DR, Laslett AL, David L, Nilsson SK, Clark AT, Lister R, Nefzger CM, Martelotto LG, Rackham OJL, Polo JM. Reprogramming roadmap reveals route to human induced trophoblast stem cells. Nature. 2020 10; 586(7827):101-107. view on PubMed
Gell JJ, Liu W, Sosa E, Chialastri A, Hancock G, Tao Y, Wamaitha SE, Bower G, Dey SS, Clark AT. An Extended Culture System that Supports Human Primordial Germ Cell-like Cell Survival and Initiation of DNA Methylation Erasure. Stem Cell Reports. 2020 03 10; 14(3):433-446. view on PubMed
Chen D, Sun N, Hou L, Kim R, Faith J, Aslanyan M, Tao Y, Zheng Y, Fu J, Liu W, Kellis M, Clark A. Human Primordial Germ Cells Are Specified from Lineage-Primed Progenitors. Cell Rep. 2019 12 24; 29(13):4568-4582.e5. view on PubMed
Vijayaraj P, Minasyan A, Durra A, Karumbayaram S, Mehrabi M, Aros CJ, Ahadome SD, Shia DW, Chung K, Sandlin JM, Darmawan KF, Bhatt KV, Manze CC, Paul MK, Wilkinson DC, Yan W, Clark AT, Rickabaugh TM, Wallace WD, Graeber TG, Damoiseaux R, Gomperts BN. Modeling Progressive Fibrosis with Pluripotent Stem Cells Identifies an Anti-fibrotic Small Molecule. Cell Rep. 2019 12 10; 29(11):3488-3505.e9. view on PubMed
Clark AT. Standing on the shoulders of giants: The changing landscape of pluripotent stem cells in research. Anat Rec (Hoboken). 2020 10; 303(10):2597-2602. view on PubMed
Pandolfi EC, Rojas EJ, Sosa E, Gell JJ, Hunt TJ, Goldsmith S, Fan Y, Silber SJ, Clark AT. Generation of three human induced pluripotent stem cell sublines (MZT04D, MZT04J, MZT04C) for reproductive science research. Stem Cell Res. 2019 10; 40:101576. view on PubMed
Clark AT. Human embryo implantation modelled in microfluidic channels. Nature. 2019 09; 573(7774):350-351. view on PubMed
Chen D, Liu W, Zimmerman J, Pastor WA, Kim R, Hosohama L, Ho J, Aslanyan M, Gell JJ, Jacobsen SE, Clark AT. The TFAP2C-Regulated OCT4 Naive Enhancer Is Involved in Human Germline Formation. Cell Rep. 2018 12 26; 25(13):3591-3602.e5. view on PubMed
Sosa E, Chen D, Rojas EJ, Hennebold JD, Peters KA, Wu Z, Lam TN, Mitchell JM, Sukhwani M, Tailor RC, Meistrich ML, Orwig KE, Shetty G, Clark AT. Differentiation of primate primordial germ cell-like cells following transplantation into the adult gonadal niche. Nat Commun. 2018 12 17; 9(1):5339. view on PubMed
Gell JJ, Clark AT. Restoring Fertility with Human Induced Pluripotent Stem Cells: Are We There Yet? Cell Stem Cell. 2018 12 06; 23(6):777-779. view on PubMed
Pastor WA, Liu W, Chen D, Ho J, Kim R, Hunt TJ, Lukianchikov A, Liu X, Polo JM, Jacobsen SE, Clark AT. TFAP2C regulates transcription in human naive pluripotency by opening enhancers. Nat Cell Biol. 2018 05; 20(5):553-564. view on PubMed
Clark AT, Orwig KE. Editorial. Stem Cell Res. 2018 05; 29:179. view on PubMed
Chen D, Clark AT. Mitochondrial DNA selection in human germ cells. Nat Cell Biol. 2018 02; 20(2):118-120. view on PubMed
Gupta S, Sivalingam D, Hain S, Makkar C, Sosa E, Clark A, Butler SJ. Deriving Dorsal Spinal Sensory Interneurons from Human Pluripotent Stem Cells. Stem Cell Reports. 2018 02 13; 10(2):390-405. view on PubMed
Gell JJ, Zhao J, Chen D, Hunt TJ, Clark AT. PRDM14 is expressed in germ cell tumors with constitutive overexpression altering human germline differentiation and proliferation. Stem Cell Res. 2018 03; 27:46-56. view on PubMed
Tao Y, Yen MR, Chitiashvili T, Nakano H, Kim R, Hosohama L, Tan YC, Nakano A, Chen PY, Clark AT. TRIM28-Regulated Transposon Repression Is Required for Human Germline Competency and Not Primed or Naive Human Pluripotency. Stem Cell Reports. 2018 01 09; 10(1):243-256. view on PubMed
Morselli M, Pastor WA, Montanini B, Nee K, Ferrari R, Fu K, Bonora G, Rubbi L, Clark AT, Ottonello S, Jacobsen SE, Pellegrini M. Correction: In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse. Elife. 2017 08 31; 6. view on PubMed
Clark AT, Gkountela S, Chen D, Liu W, Sosa E, Sukhwani M, Hennebold JD, Orwig KE. Primate Primordial Germ Cells Acquire Transplantation Potential by Carnegie Stage 23. Stem Cell Reports. 2017 07 11; 9(1):329-341. view on PubMed
Chen D, Gell JJ, Tao Y, Sosa E, Clark AT. Modeling human infertility with pluripotent stem cells. Stem Cell Res. 2017 05; 21:187-192. view on PubMed
Sosa E, Kim R, Rojas EJ, Hosohama L, Hennebold JD, Orwig KE, Clark AT. An integration-free, virus-free rhesus macaque induced pluripotent stem cell line (riPSC90) from embryonic fibroblasts. Stem Cell Res. 2017 05; 21:5-8. view on PubMed
O'Brien CM, Chy HS, Zhou Q, Blumenfeld S, Lambshead JW, Liu X, Kie J, Capaldo BD, Chung TL, Adams TE, Phan T, Bentley JD, McKinstry WJ, Oliva K, McMurrick PJ, Wang YC, Rossello FJ, Lindeman GJ, Chen D, Jarde T, Clark AT, Abud HE, Visvader JE, Nefzger CM, Polo JM, Loring JF, Laslett AL. New Monoclonal Antibodies to Defined Cell Surface Proteins on Human Pluripotent Stem Cells. Stem Cells. 2017 03; 35(3):626-640. view on PubMed
Nagaraj R, Sharpley MS, Chi F, Braas D, Zhou Y, Kim R, Clark AT, Banerjee U. Nuclear Localization of Mitochondrial TCA Cycle Enzymes as a Critical Step in Mammalian Zygotic Genome Activation. Cell. 2017 Jan 12; 168(1-2):210-223.e11. view on PubMed
Chen D, Liu W, Lukianchikov A, Hancock GV, Zimmerman J, Lowe MG, Kim R, Galic Z, Irie N, Surani MA, Jacobsen SE, Clark AT. Germline competency of human embryonic stem cells depends on eomesodermin. Biol Reprod. 2017 01 01; 97(6):850-861. view on PubMed
Patel S, Bonora G, Sahakyan A, Kim R, Chronis C, Langerman J, Fitz-Gibbon S, Rubbi L, Skelton RJP, Ardehali R, Pellegrini M, Lowry WE, Clark AT, Plath K. Human Embryonic Stem Cells Do Not Change Their X Inactivation Status during Differentiation. Cell Rep. 2017 01 03; 18(1):54-67. view on PubMed
Sahakyan A, Kim R, Chronis C, Sabri S, Bonora G, Theunissen TW, Kuoy E, Langerman J, Clark AT, Jaenisch R, Plath K. Human Naive Pluripotent Stem Cells Model X Chromosome Dampening and X Inactivation. Cell Stem Cell. 2017 01 05; 20(1):87-101. view on PubMed
Masaeli M, Gupta D, O'Byrne S, Tse HT, Gossett DR, Tseng P, Utada AS, Jung HJ, Young S, Clark AT, Di Carlo D. Multiparameter mechanical and morphometric screening of cells. Sci Rep. 2016 12 02; 6:37863. view on PubMed
Sosa E, Kim R, Rojas EJ, Hosohama L, Hennebold JD, Orwig KE, Clark AT. An integration-free, virus-free rhesus macaque induced pluripotent stem cell line (riPSC89) from embryonic fibroblasts. Stem Cell Res. 2016 09; 17(2):444-447. view on PubMed
Hargan-Calvopina J, Taylor S, Cook H, Hu Z, Lee SA, Yen MR, Chiang YS, Chen PY, Clark AT. Stage-Specific Demethylation in Primordial Germ Cells Safeguards against Precocious Differentiation. Dev Cell. 2016 10 10; 39(1):75-86. view on PubMed
Li S, Yen L, Pastor WA, Johnston JB, Du J, Shew CJ, Liu W, Ho J, Stender B, Clark AT, Burlingame AL, Daxinger L, Patel DJ, Jacobsen SE. Mouse MORC3 is a GHKL ATPase that localizes to H3K4me3 marked chromatin. Proc Natl Acad Sci U S A. 2016 08 30; 113(35):E5108-16. view on PubMed
Pastor WA, Chen D, Liu W, Kim R, Sahakyan A, Lukianchikov A, Plath K, Jacobsen SE, Clark AT. Naive Human Pluripotent Cells Feature a Methylation Landscape Devoid of Blastocyst or Germline Memory. Cell Stem Cell. 2016 Mar 03; 18(3):323-329. view on PubMed
Clark AT. DNA methylation remodeling in vitro and in vivo. Curr Opin Genet Dev. 2015 Oct; 34:82-7. view on PubMed
Clark AT, Zwaka TP. Editorial overview: Cell reprogramming, regeneration and repair: Reprogramming: the eternal circle. Curr Opin Genet Dev. 2015 Oct; 34:v-vi. view on PubMed
Oliveros-Etter M, Li Z, Nee K, Hosohama L, Hargan-Calvopina J, Lee SA, Joti P, Yu J, Clark AT. PGC Reversion to Pluripotency Involves Erasure of DNA Methylation from Imprinting Control Centers followed by Locus-Specific Re-methylation. Stem Cell Reports. 2015 Sep 08; 5(3):337-49. view on PubMed
Pastor WA, Stroud H, Nee K, Liu W, Pezic D, Manakov S, Lee SA, Moissiard G, Zamudio N, Bourc'his D, Aravin AA, Clark AT, Jacobsen SE. Erratum: MORC1 represses transposable elements in the mouse male germline. Nat Commun. 2015 Jul 10; 6:7604. view on PubMed
Gkountela S, Zhang KX, Shafiq TA, Liao WW, Hargan-Calvopiña J, Chen PY, Clark AT. DNA Demethylation Dynamics in the Human Prenatal Germline. Cell. 2015 Jun 04; 161(6):1425-36. view on PubMed
Calvopina JH, Cook H, Vincent JJ, Nee K, Clark AT. The Aorta-Gonad-Mesonephros Organ Culture Recapitulates 5hmC Reorganization and Replication-Dependent and Independent Loss of DNA Methylation in the Germline. Stem Cells Dev. 2015 Jul 01; 24(13):1536-45. view on PubMed
Morselli M, Pastor WA, Montanini B, Nee K, Ferrari R, Fu K, Bonora G, Rubbi L, Clark AT, Ottonello S, Jacobsen SE, Pellegrini M. In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse. Elife. 2015 Apr 07; 4:e06205. view on PubMed
Chen D, Clark AT. Human germline differentiation charts a new course. EMBO J. 2015 Apr 15; 34(8):975-7. view on PubMed
Li Z, Yu J, Hosohama L, Nee K, Gkountela S, Chaudhari S, Cass AA, Xiao X, Clark AT. The Sm protein methyltransferase PRMT5 is not required for primordial germ cell specification in mice. EMBO J. 2015 Mar 12; 34(6):748-58. view on PubMed
Pastor WA, Stroud H, Nee K, Liu W, Pezic D, Manakov S, Lee SA, Moissiard G, Zamudio N, Bourc'his D, Aravin AA, Clark AT, Jacobsen SE. MORC1 represses transposable elements in the mouse male germline. Nat Commun. 2014 Dec 12; 5:5795. view on PubMed
Gkountela S, Clark AT. A big surprise in the little zygote: the curious business of losing methylated cytosines. Cell Stem Cell. 2014 Oct 02; 15(4):393-394. view on PubMed
Ben-David U, Arad G, Weissbein U, Mandefro B, Maimon A, Golan-Lev T, Narwani K, Clark AT, Andrews PW, Benvenisty N, Carlos Biancotti J. Aneuploidy induces profound changes in gene expression, proliferation and tumorigenicity of human pluripotent stem cells. Nat Commun. 2014 Sep 08; 5:4825. view on PubMed
Gkountela S, Li Z, Chin CJ, Lee SA, Clark AT. PRMT5 is required for human embryonic stem cell proliferation but not pluripotency. Stem Cell Rev Rep. 2014 Apr; 10(2):230-9. view on PubMed
Valli H, Phillips BT, Shetty G, Byrne JA, Clark AT, Meistrich ML, Orwig KE. Germline stem cells: toward the regeneration of spermatogenesis. Fertil Steril. 2014 Jan; 101(1):3-13. view on PubMed
Feng Y, Maity R, Whitelegge JP, Hadjikyriacou A, Li Z, Zurita-Lopez C, Al-Hadid Q, Clark AT, Bedford MT, Masson JY, Clarke SG. Mammalian protein arginine methyltransferase 7 (PRMT7) specifically targets RXR sites in lysine- and arginine-rich regions. J Biol Chem. 2013 Dec 27; 288(52):37010-25. view on PubMed
Clark A. Human somatic cell nuclear transfer: a scientist's perspective. Mol Reprod Dev. 2013 Sep; 80(9):Fmi-Fmiii. view on PubMed
Awe JP, Lee PC, Ramathal C, Vega-Crespo A, Durruthy-Durruthy J, Cooper A, Karumbayaram S, Lowry WE, Clark AT, Zack JA, Sebastiano V, Kohn DB, Pyle AD, Martin MG, Lipshutz GS, Phelps PE, Pera RA, Byrne JA. Generation and characterization of transgene-free human induced pluripotent stem cells and conversion to putative clinical-grade status. Stem Cell Res Ther. 2013 Jul 26; 4(4):87. view on PubMed
Gkountela S, Clark AT. RNA-Seq Library Generation from Rare Human Cells Isolated by FACS. Bio Protoc. 2013 Jun 20; 3(12). view on PubMed
Vincent JJ, Huang Y, Chen PY, Feng S, Calvopiña JH, Nee K, Lee SA, Le T, Yoon AJ, Faull K, Fan G, Rao A, Jacobsen SE, Pellegrini M, Clark AT. Stage-specific roles for tet1 and tet2 in DNA demethylation in primordial germ cells. Cell Stem Cell. 2013 Apr 04; 12(4):470-8. view on PubMed
Gkountela S, Li Z, Vincent JJ, Zhang KX, Chen A, Pellegrini M, Clark AT. The ontogeny of cKIT+ human primordial germ cells proves to be a resource for human germ line reprogramming, imprint erasure and in vitro differentiation. Nat Cell Biol. 2013 Jan; 15(1):113-22. view on PubMed
Clark AT. Pluripotency takes off without Blimp1. Cell Stem Cell. 2012 Jul 06; 11(1):1-2. view on PubMed
Deshpande AM, Khalid O, Kim JJ, Kim Y, Lindgren A, Clark AT, Wong DT. Cdk2ap2 is a novel regulator for self-renewal of murine embryonic stem cells. Stem Cells Dev. 2012 Nov 01; 21(16):3010-8. view on PubMed
Gossett DR, Tse HT, Lee SA, Ying Y, Lindgren AG, Yang OO, Rao J, Clark AT, Di Carlo D. Hydrodynamic stretching of single cells for large population mechanical phenotyping. Proc Natl Acad Sci U S A. 2012 May 15; 109(20):7630-5. view on PubMed
Vincent JJ, Li Z, Lee SA, Liu X, Etter MO, Diaz-Perez SV, Taylor SK, Gkountela S, Lindgren AG, Clark AT. Single cell analysis facilitates staging of Blimp1-dependent primordial germ cells derived from mouse embryonic stem cells. PLoS One. 2011; 6(12):e28960. view on PubMed
Clark AT, Phillips BT, Orwig KE. Fruitful progress to fertility: male fertility in the test tube. Nat Med. 2011 Dec 06; 17(12):1564-5. view on PubMed
Diaz Perez SV, Kim R, Li Z, Marquez VE, Patel S, Plath K, Clark AT. Derivation of new human embryonic stem cell lines reveals rapid epigenetic progression in vitro that can be prevented by chemical modification of chromatin. Hum Mol Genet. 2012 Feb 15; 21(4):751-64. view on PubMed
Azghadi S, Clark AT. Epigenetically reprogramming of human embryonic stem cells by 3-deazaneplanocin a and sodium butyrate. Int J Prev Med. 2011 Apr; 2(2):73-8. view on PubMed
Mandal S, Lindgren AG, Srivastava AS, Clark AT, Banerjee U. Mitochondrial function controls proliferation and early differentiation potential of embryonic stem cells. Stem Cells. 2011 Mar; 29(3):486-95. view on PubMed
Lindgren AG, Natsuhara K, Tian E, Vincent JJ, Li X, Jiao J, Wu H, Banerjee U, Clark AT. Loss of Pten causes tumor initiation following differentiation of murine pluripotent stem cells due to failed repression of Nanog. PLoS One. 2011 Jan 27; 6(1):e16478. view on PubMed
Mayshar Y, Ben-David U, Lavon N, Biancotti JC, Yakir B, Clark AT, Plath K, Lowry WE, Benvenisty N. Identification and classification of chromosomal aberrations in human induced pluripotent stem cells. Cell Stem Cell. 2010 Oct 08; 7(4):521-31. view on PubMed
Tchieu J, Kuoy E, Chin MH, Trinh H, Patterson M, Sherman SP, Aimiuwu O, Lindgren A, Hakimian S, Zack JA, Clark AT, Pyle AD, Lowry WE, Plath K. Female human iPSCs retain an inactive X chromosome. Cell Stem Cell. 2010 Sep 03; 7(3):329-42. view on PubMed
Ambartsumyan G, Gill RK, Perez SD, Conway D, Vincent J, Dalal Y, Clark AT. Centromere protein A dynamics in human pluripotent stem cell self-renewal, differentiation and DNA damage. Hum Mol Genet. 2010 Oct 15; 19(20):3970-82. view on PubMed
Chodavarapu RK, Feng S, Bernatavichute YV, Chen PY, Stroud H, Yu Y, Hetzel JA, Kuo F, Kim J, Cokus SJ, Casero D, Bernal M, Huijser P, Clark AT, Krämer U, Merchant SS, Zhang X, Jacobsen SE, Pellegrini M. Relationship between nucleosome positioning and DNA methylation. Nature. 2010 Jul 15; 466(7304):388-92. view on PubMed
Kamei K, Ohashi M, Gschweng E, Ho Q, Suh J, Tang J, For Yu ZT, Clark AT, Pyle AD, Teitell MA, Lee KB, Witte ON, Tseng HR. Microfluidic image cytometry for quantitative single-cell profiling of human pluripotent stem cells in chemically defined conditions. Lab Chip. 2010 May 07; 10(9):1113-9. view on PubMed
Clark AT. Egg-citing advances in generating primordial germ cells in the laboratory. Biol Reprod. 2010 Feb; 82(2):233-4. view on PubMed
Chin MH, Mason MJ, Xie W, Volinia S, Singer M, Peterson C, Ambartsumyan G, Aimiuwu O, Richter L, Zhang J, Khvorostov I, Ott V, Grunstein M, Lavon N, Benvenisty N, Croce CM, Clark AT, Baxter T, Pyle AD, Teitell MA, Pelegrini M, Plath K, Lowry WE. Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures. Cell Stem Cell. 2009 Jul 02; 5(1):111-23. view on PubMed
Kim Y, Deshpande A, Dai Y, Kim JJ, Lindgren A, Conway A, Clark AT, Wong DT. Cyclin-dependent kinase 2-associating protein 1 commits murine embryonic stem cell differentiation through retinoblastoma protein regulation. J Biol Chem. 2009 Aug 28; 284(35):23405-14. view on PubMed
Park TS, Galic Z, Conway AE, Lindgren A, van Handel BJ, Magnusson M, Richter L, Teitell MA, Mikkola HK, Lowry WE, Plath K, Clark AT. Derivation of primordial germ cells from human embryonic and induced pluripotent stem cells is significantly improved by coculture with human fetal gonadal cells. Stem Cells. 2009 Apr; 27(4):783-95. view on PubMed
Karumbayaram S, Novitch BG, Patterson M, Umbach JA, Richter L, Lindgren A, Conway AE, Clark AT, Goldman SA, Plath K, Wiedau-Pazos M, Kornblum HI, Lowry WE. Directed differentiation of human-induced pluripotent stem cells generates active motor neurons. Stem Cells. 2009 Apr; 27(4):806-11. view on PubMed
Xie W, Song C, Young NL, Sperling AS, Xu F, Sridharan R, Conway AE, Garcia BA, Plath K, Clark AT, Grunstein M. Histone h3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells. Mol Cell. 2009 Feb 27; 33(4):417-27. view on PubMed
Conway AE, Lindgren A, Galic Z, Pyle AD, Wu H, Zack JA, Pelligrini M, Teitell MA, Clark AT. A self-renewal program controls the expansion of genetically unstable cancer stem cells in pluripotent stem cell-derived tumors. Stem Cells. 2009 Jan; 27(1):18-28. view on PubMed
Ambartsumyan G, Clark AT. Aneuploidy and early human embryo development. Hum Mol Genet. 2008 Apr 15; 17(R1):R10-5. view on PubMed
Wu H, Kim KJ, Mehta K, Paxia S, Sundstrom A, Anantharaman T, Kuraishy AI, Doan T, Ghosh J, Pyle AD, Clark A, Lowry W, Fan G, Baxter T, Mishra B, Sun Y, Teitell MA. Copy number variant analysis of human embryonic stem cells. Stem Cells. 2008 Jun; 26(6):1484-9. view on PubMed
Bostick M, Kim JK, Estève PO, Clark A, Pradhan S, Jacobsen SE. UHRF1 plays a role in maintaining DNA methylation in mammalian cells. Science. 2007 Sep 21; 317(5845):1760-4. view on PubMed
Clark AT. Establishment and differentiation of human embryonic stem cell derived germ cells. Soc Reprod Fertil Suppl. 2007; 63:77-86. view on PubMed
Clark AT. The stem cell identity of testicular cancer. Stem Cell Rev. 2007 Jan; 3(1):49-59. view on PubMed
Kee K, Gonsalves JM, Clark AT, Pera RA. Bone morphogenetic proteins induce germ cell differentiation from human embryonic stem cells. Stem Cells Dev. 2006 Dec; 15(6):831-7. view on PubMed
Fox MS, Clark AT, El Majdoubi M, Vigne JL, Urano J, Hostetler CE, Griswold MD, Weiner RI, Reijo Pera RA. Intermolecular interactions of homologs of germ plasm components in mammalian germ cells. Dev Biol. 2007 Jan 15; 301(2):417-31. view on PubMed
Clark AT, Reijo Pera RA. Modeling human germ cell development with embryonic stem cells. Regen Med. 2006 Jan; 1(1):85-93. view on PubMed
Ezeh UI, Turek PJ, Reijo RA, Clark AT. Human embryonic stem cell genes OCT4, NANOG, STELLAR, and GDF3 are expressed in both seminoma and breast carcinoma. Cancer. 2005 Nov 15; 104(10):2255-65. view on PubMed
Clark AT, Goldowitz D, Takahashi JS, Vitaterna MH, Siepka SM, Peters LL, Frankel WN, Carlson GA, Rossant J, Nadeau JH, Justice MJ. Implementing large-scale ENU mutagenesis screens in North America. Genetica. 2004 Sep; 122(1):51-64. view on PubMed
Clark AT, Bodnar MS, Fox M, Rodriquez RT, Abeyta MJ, Firpo MT, Pera RA. Spontaneous differentiation of germ cells from human embryonic stem cells in vitro. Hum Mol Genet. 2004 Apr 01; 13(7):727-39. view on PubMed
Abeyta MJ, Clark AT, Rodriguez RT, Bodnar MS, Pera RA, Firpo MT. Unique gene expression signatures of independently-derived human embryonic stem cell lines. Hum Mol Genet. 2004 Mar 15; 13(6):601-8. view on PubMed
Clark AT, Firozi K, Justice MJ. Mutations in a novel locus on mouse chromosome 11 resulting in male infertility associated with defects in microtubule assembly and sperm tail function. Biol Reprod. 2004 May; 70(5):1317-24. view on PubMed
Clark AT, Rodriguez RT, Bodnar MS, Abeyta MJ, Cedars MI, Turek PJ, Firpo MT, Reijo Pera RA. Human STELLAR, NANOG, and GDF3 genes are expressed in pluripotent cells and map to chromosome 12p13, a hotspot for teratocarcinoma. Stem Cells. 2004; 22(2):169-79. view on PubMed
Kile BT, Hentges KE, Clark AT, Nakamura H, Salinger AP, Liu B, Box N, Stockton DW, Johnson RL, Behringer RR, Bradley A, Justice MJ. Functional genetic analysis of mouse chromosome 11. Nature. 2003 Sep 04; 425(6953):81-6. view on PubMed
