Stem Cell Biology and Reprogramming Cells

Stem Cell Biology and Reprogramming Cells

Santos DP, Kiskinis E, Eggan K, Merkle FT. Comprehensive Protocols for CRISPR/Cas9-based Gene Editing in Human Pluripotent Stem Cells. Curr Protoc Stem Cell Biol. 2016 Aug 17;38:5B.6.1-5B.6.60. doi: 10.1002/cpsc.15. PubMed PMID: 27532820; PubMed Central PMCID: PMC4988528.

Paull D, Sevilla A, Zhou H, Hahn AK, Kim H, Napolitano C, Tsankov A, Shang L, Krumholz K, Jagadeesan P, Woodard CM, Sun B, Vilboux T, Zimmer M, Forero E, Moroziewicz DN, Martinez H, Malicdan MC, Weiss KA, Vensand LB, Dusenberry CR, Polus H, Sy KT, Kahler DJ, Gahl WA, Solomon SL, Chang S, Meissner A, Eggan K, Noggle SA. Automated, high-throughput derivation, characterization and differentiation of induced pluripotent stem cells. Nat Methods. 2015 Sep;12(9):885-92. doi: 10.1038/nmeth.3507. PubMed PMID: 26237226.

Schwarz-Romond T, Kiskinis E, Eggan K. Focus on induced pluripotency and cellular reprogramming. EMBO J. 2015 Jun 3;34(11):1435. doi: 10.15252/embj.201591615. PubMed PMID: 25916828; PubMed Central PMCID: PMC4474519.

Merkle FT, Neuhausser WM, Santos D, Valen E, Gagnon JA, Maas K, Sandoe J, Schier AF, Eggan K. Efficient CRISPR-Cas9-mediated generation of knockin human pluripotent stem cells lacking undesired mutations at the targeted locus. Cell Rep. 2015 May 12;11(6):875-83. doi: 10.1016/j.celrep.2015.04.007. PubMed PMID: 25937281.

Smith ZD, Chan MM, Humm KC, Karnik R, Mekhoubad S, Regev A, Eggan K, Meissner DNA methylation dynamics of the human preimplantation embryo. Nature. 2014 Jul 31;511(7511):611-5. doi: 10.1038/nature13581. PubMed PMID: 25079558; PubMed Central PMCID: PMC4178976.

Carter AC, Davis-Dusenbery BN, Koszka K, Ichida JK, Eggan K.Nanog-independent reprogramming to iPSCs with canonical factors. Stem CellReports. 2014 Jan 31;2(2):119-26. doi: 10.1016/j.stemcr.2013.12.010. PubMed PMID:24527385; PubMed Central PMCID: PMC3923195.

Eggan K. Picking the lock on pluripotency. N Engl J Med. 2013 Nov28;369(22):2150-1. doi: 10.1056/NEJMcibr1311880. PubMed PMID: 24283230.

Niakan KK, Eggan K. Analysis of human embryos from zygote to blastocystreveals distinct gene expression patterns relative to the mouse. Dev Biol. 2013Mar 1;375(1):54-64. doi: 10.1016/j.ydbio.2012.12.008. PubMed PMID: 23261930.

Tabansky I, Lenarcic A, Draft RW, Loulier K, Keskin DB, Rosains J,Rivera-Feliciano J, Lichtman JW, Livet J, Stern JN, Sanes JR, Eggan K.Developmental bias in cleavage-stage mouse blastomeres. Curr Biol. 2013 Jan7;23(1):21-31. doi: 10.1016/j.cub.2012.10.054. PubMed PMID: 23177476; PubMedCentral PMCID: PMC3543519.

Mekhoubad S, Bock C, de Boer AS, Kiskinis E, Meissner A, Eggan K. Erosion of dosage compensation impacts human iPSC disease modeling. Cell Stem Cell. 2012 May4;10(5):595-609. doi: 10.1016/j.stem.2012.02.014. PubMed PMID: 22560080; PubMedCentral PMCID: PMC3603710.

Egli D, Chen AE, Saphier G, Powers D, Alper M, Katz K, Berger B, Goland R,Leibel RL, Melton DA, Eggan K. Impracticality of egg donor recruitment in theabsence of compensation. Cell Stem Cell. 2011 Oct 4;9(4):293-4. doi:10.1016/j.stem.2011.08.002. PubMed PMID: 21982228.

Egli D, Chen AE, Saphier G, Ichida J, Fitzgerald C, Go KJ, Acevedo N, PatelJ, Baetscher M, Kearns WG, Goland R, Leibel RL, Melton DA, Eggan K. Reprogrammingwithin hours following nuclear transfer into mouse but not human zygotes. NatCommun. 2011 Oct 4;2:488. doi: 10.1038/ncomms1503. PubMed PMID: 21971503; PubMed Central PMCID: PMC3335196.

Boulting GL, Kiskinis E, Croft GF, Amoroso MW, Oakley DH, Wainger BJ,Williams DJ, Kahler DJ, Yamaki M, Davidow L, Rodolfa CT, Dimos JT, Mikkilineni S,MacDermott AB, Woolf CJ, Henderson CE, Wichterle H, Eggan K. A functionallycharacterized test set of human induced pluripotent stem cells. Nat Biotechnol.2011 Mar;29(3):279-86. doi: 10.1038/nbt.1783. PubMed PMID: 21293464; PubMedCentral PMCID: PMC3229307.

Bock C, Kiskinis E, Verstappen G, Gu H, Boulting G, Smith ZD, Ziller M, CroftGF, Amoroso MW, Oakley DH, Gnirke A, Eggan K, Meissner A. Reference Maps of humanES and iPS cell variation enable high-throughput characterization of pluripotent cell lines. Cell. 2011 Feb 4;144(3):439-52. doi: 10.1016/j.cell.2010.12.032.PubMed PMID: 21295703; PubMed Central PMCID: PMC3063454.

Ichida JK, Kiskinis E, Eggan K. Shushing down the epigenetic landscapetowards stem cell differentiation. Development. 2010 Aug 1;137(15):2455-60. doi: 10.1242/dev.049130. PubMed PMID: 20554719.

Egli D, Eggan K. Recipient cell nuclear factors are required forreprogramming by nuclear transfer. Development. 2010 Jun;137(12):1953-63. doi:10.1242/dev.046151. PubMed PMID: 20463036; PubMed Central PMCID: PMC2875839.

Niakan KK, Ji H, Maehr R, Vokes SA, Rodolfa KT, Sherwood RI, Yamaki M, Dimos JT, Chen AE, Melton DA, McMahon AP, Eggan K. Sox17 promotes differentiation inmouse embryonic stem cells by directly regulating extraembryonic gene expression and indirectly antagonizing self-renewal. Genes Dev. 2010 Feb 1;24(3):312-26.doi: 10.1101/gad.1833510. PubMed PMID: 20123909; PubMed Central PMCID:PMC2811832.

Ichida JK, Blanchard J, Lam K, Son EY, Chung JE, Egli D, Loh KM, Carter AC,Di Giorgio FP, Koszka K, Huangfu D, Akutsu H, Liu DR, Rubin LL, Eggan K. Asmall-molecule inhibitor of tgf-Beta signaling replaces sox2 in reprogramming by inducing nanog. Cell Stem Cell. 2009 Nov 6;5(5):491-503. doi:10.1016/j.stem.2009.09.012. PubMed PMID: 19818703; PubMed Central PMCID:PMC3335195.

Egli D, Sandler VM, Shinohara ML, Cantor H, Eggan K. Reprogramming afterchromosome transfer into mouse blastomeres. Curr Biol. 2009 Aug 25;19(16):1403-9.doi: 10.1016/j.cub.2009.06.065. PubMed PMID: 19682906; PubMed Central PMCID:PMC3335243.

Chen AE, Egli D, Niakan K, Deng J, Akutsu H, Yamaki M, Cowan C, Fitz-GeraldC, Zhang K, Melton DA, Eggan K. Optimal timing of inner cell mass isolationincreases the efficiency of human embryonic stem cell derivation and allowsgeneration of sibling cell lines. Cell Stem Cell. 2009 Feb 6;4(2):103-6. doi:10.1016/j.stem.2008.12.001. PubMed PMID: 19200798; PubMed Central PMCID:PMC3335201.

Egli D, Birkhoff G, Eggan K. Mediators of reprogramming: transcriptionfactors and transitions through mitosis. Nat Rev Mol Cell Biol. 2008Jul;9(7):505-16. doi: 10.1038/nrm2439. Review. PubMed PMID: 18568039.

Eggan K. Short-circuiting epiblast development. Cell Stem Cell. 2007 Aug16;1(2):131-2. doi: 10.1016/j.stem.2007.07.018. PubMed PMID: 18371343.

Egli D, Rosains J, Birkhoff G, Eggan K. Developmental reprogramming afterchromosome transfer into mitotic mouse zygotes. Nature. 2007 Jun7;447(7145):679-85. PubMed PMID: 17554301. Rodolfa KT, Eggan K. A transcriptional logic for nuclear reprogramming. Cell.2006 Aug 25;126(4):652-5. PubMed PMID: 16923385.

Eggan K, Jurga S, Gosden R, Min IM, Wagers AJ. Ovulated oocytes in adult micederive from non-circulating germ cells. Nature. 2006 Jun 29;441(7097):1109-14.PubMed PMID: 16799565. Cowan CA, Atienza J, Melton DA, Eggan K. Nuclear reprogramming of somaticcells after fusion with human embryonic stem cells. Science. 2005 Aug26;309(5739):1369-73. PubMed PMID: 16123299.

Eggan K, Baldwin K, Tackett M, Osborne J, Gogos J, Chess A, Axel R, Jaenisch R. Mice cloned from olfactory sensory neurons. Nature. 2004 Mar 4;428(6978):44-9.PubMed PMID: 14990966.

ALS, Stem Cells and Neural Biology of Disease.