A Molecular Roadmap of Reprogramming Somatic Cells into iPS Cells

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Items 101–200 of 861

1. Transient and Permanent Reconfiguration of Chromatin and Transcription Factor Occupancy Drive Reprogramming
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2. Phases of reprogramming
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3. An epigenomic roadmap to induced pluripotency reveals DNA methylation as a reprogramming modulator
   Lee, Dong-Sung, Shin, Jong-Yeon, Tonge, Peter D., Puri, Mira C., Lee, Seungbok, Park, Hansoo, Lee, Won-Chul, Hussein, Samer M. I., Bleazard, Thomas, Yun, Ji-Young et al. · 2014 · Nature Communications
4. In vivo partial reprogramming of myofibers promotes muscle regeneration by remodeling the stem cell niche
   Wang, Chao, Rabadan Ros, Ruben, Martinez-Redondo, Paloma, Ma, Zaijun, Shi, Lei, Xue, Yuan, Guillen-Guillen, Isabel, Huang, Ling, Hishida, Tomoaki, Liao, Hsin-Kai et al. · 2021 · Nature Communications
5. Cell competition during reprogramming gives rise to dominant clones
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6. Energy metabolism in the acquisition and maintenance of stemness
   Clifford D.L. Folmes, André Terzic · 2016 · Seminars in Cell and Developmental Biology
7. Re-patterning of H3K27me3, H3K4me3 and DNA methylation during fibroblast conversion into induced cardiomyocytes
   Ziqing Liu, Olivia M. Chen, Michael Zheng, Li Wang, Yang Zhou, Chaoying Yin, Jiandong Liu, Qian Li · 2016 · Stem Cell Research
8. Do all roads lead to Oct4? The emerging concepts of induced pluripotency
   Radzisheuskaya, Aliaksandra, Silva, José C.R. · 2014 · Trends in Cell Biology
9. Resolving Cell Fate Decisions During Somatic Cell Reprogramming by Single-Cell RNA-Seq
   Lin Guo, Lihui Lin, Xiaoshan Wang, Mingwei Gao, Shangtao Cao, Yuanbang Mai, Fang Wu, Junqi Kuang, He Liu, Jiaqi Yang et al. · 2018 · Molecular Cell
10. Spatiotemporal variation of mammalian protein complex stoichiometries
    Alessandro Ori‬‬, Murat Iskar, Katarzyna Buczak, Panagiotis L. Kastritis, Luca Parca, Amparo Andrés‐Pons, Stephan Singer, Peer Bork, Martin Beck · 2016 · Genome biology
11. A developmental framework for induced pluripotency
    Kazutoshi Takahashi, Shinya Yamanaka · 2015 · Development
12. Lineage conversion induced by pluripotency factors involves transient passage through an iPSC stage
    Ori Bar‐Nur, Cassandra Verheul, Andreia Gianotti Sommer, Justin Brumbaugh, Benjamin A. Schwarz, Inna Lipchina, Aaron J. Huebner, Gustavo Mostoslavsky, Konrad Hochedlinger · 2015 · Nature Biotechnology
13. The Importance of Ubiquitination and Deubiquitination in Cellular Reprogramming
    Bharathi Suresh, Junwon Lee, Kye-Seong Kim, Suresh Ramakrishna · 2016 · Stem Cells International
14. Small molecules for reprogramming and transdifferentiation
    Hua Qin, Andong Zhao, Xiaobing Fu · 2017 · Cellular and Molecular Life Sciences
15. Small molecules facilitate rapid and synchronous iPSC generation
    Ori Bar‐Nur, Justin Brumbaugh, Cassandra Verheul, Effie Apostolou, Iulian Pruteanu-Malinici, Ryan M. Walsh, Sridhar Ramaswamy, Konrad Hochedlinger · 2014 · Nature Methods
16. X Chromosome Reactivation Dynamics Reveal Stages of Reprogramming to Pluripotency
    Vincent Pasque, Jason H. Tchieu, Rahul Karnik, Molly Javier Uyeda, Anupama Dimashkie, Dana Case, Bernadett Papp, Giancarlo Bonora, Sanjeet G. Patel, Ritchie Ho et al. · 2014 · Cell
17. CCCTC-Binding Factor Translates Interleukin 2- and α-Ketoglutarate-Sensitive Metabolic Changes in T Cells into Context-Dependent Gene Programs
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18. The Intertwined Roles of Transcription and Repair Proteins
    Fong, Yick W., Cattoglio, Claudia, Tjian, Robert · 2013 · Molecular Cell
19. Metabolic switching and cell fate decisions: implications for pluripotency, reprogramming and development
    Timothy S. Cliff, Stephen Dalton · 2017 · Current Opinion in Genetics & Development
20. Early reprogramming regulators identified by prospective isolation and mass cytometry
    Ernesto Lujan, Eli R. Zunder, Yi Han Ng, Isabel Nadine Goronzy, Garry P. Nolan, Marius Wernig · 2015 · Nature
21. Gene Correction of Human Induced Pluripotent Stem Cells Repairs the Cellular Phenotype in Pulmonary Alveolar Proteinosis
    Nico Lachmann, Christine Happle, Mania Ackermann, Doreen Lüttge, Martin Wetzke, Sylvia Merkert, Miriam Hetzel, George Kensah, Monica Jara-Avaca, Adele Mucci et al. · 2013 · American Journal of Respiratory and Critical Care Medicine
22. Chromatin Accessibility Dynamics during Chemical Induction of Pluripotency
    Cao, Shangtao, Yu, Shengyong, Li, Dongwei, Ye, Jing, Yang, Xuejie, Li, Chen, Wang, Xiaoshan, Mai, Yuanbang, Qin, Yue, Wu, Jian et al. · 2018 · Cell Stem Cell
23. Loss of transcriptional control over endogenous retroelements during reprogramming to pluripotency
    Marc Friedli, Priscilla Turelli, Adamandia Kapopoulou, Benjamin Rauwel, Nathaly Castro-Díaz, Helen M. Rowe, Gabriela Ecco, Carmen Unzu, Evarist Planet, Angelo Lombardo et al. · 2014 · Genome Research
24. Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins
    Mahmoud‐Reza Rafiee, Charles Girardot, Gianluca Sigismondo, Jeroen Krijgsveld · 2016 · Molecular Cell
25. The THO Complex Regulates Pluripotency Gene mRNA Export and Controls Embryonic Stem Cell Self-Renewal and Somatic Cell Reprogramming
    Li Wang, Yi‐Liang Miao, Xiaofeng Zheng, Brad L. Lackford, Bingying Zhou, Leng Han, Chengguo Yao, James M. Ward, Adam Burkholder, Inna Lipchina et al. · 2013 · Cell stem cell
26. MicroRNAs and Cardiac Regeneration
    Conrad P. Hodgkinson, Martin H. Kang, Sophie Dal-Pra, Maria Mirotsou, Victor J. Dzau · 2015 · Circulation Research
27. RNA Helicase DDX5 Inhibits Reprogramming to Pluripotency by miRNA-Based Repression of RYBP and its PRC1-Dependent and -Independent Functions
    Huanhuan Li, Ping Lai, Jinping Jia, Yawei Song, Qing Xia, Kaimeng Huang, Na He, Wangfang Ping, Jiayu Chen, Zhongzhou Yang et al. · 2017 · Cell stem cell
28. Direct Cardiac Reprogramming
    Sho Haginiwa, Masaki Ieda · 2017 · Cardiac and vascular biology
29. Systematic Identification of Barriers to Human iPSC Generation
    Han Qin, Aaron A. Diaz, Laure Blouin, Robert Jan Lebbink, Weronika Patena, Priscilia Tanbun, Emily M LeProust, Michael T. McManus, Jun S. Song, Miguel Ramalho‐Santos · 2014 · Cell
30. Tex10 Coordinates Epigenetic Control of Super-Enhancer Activity in Pluripotency and Reprogramming
    Junjun Ding, Xin Huang, Ning‐Yi Shao, Hongwei Zhou, Dung‐Fang Lee, Francesco Faiola, Miguel Fidalgo, Diana Guallar, Arven Saunders, Pavel V. Shliaha et al. · 2015 · Cell stem cell
31. AID stabilizes stem-cell phenotype by removing epigenetic memory of pluripotency genes
    Ritu Kumar, Lauren J. DiMenna, Nadine Schrode, Ting-Chun Liu, Philipp Franck, Silvia Muñoz‐Descalzo, Anna‐Katerina Hadjantonakis, Ali A. Zarrin, Jayanta Chaudhuri, Olivier Elemento et al. · 2013 · Nature
32. Prediction of single-cell RNA expression profiles in live cells by Raman microscopy with Raman2RNA
    Kobayashi-Kirschvink, Koseki J., Comiter, Charles S., Gaddam, Shreya, Joren, Taylor, Grody, Emanuelle I., Ounadjela, Johain R., Zhang, Ke, Ge, Baoliang, Kang, Jeon Woong, Xavier, Ramnik J. et al. · 2024 · Nature Biotechnology
33. The role of pluripotency factors to drive stemness in gastrointestinal cancer
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34. Chemical reprogramming for cell fate manipulation: Methods, applications, and perspectives
    Wang, Jinlin, Sun, Shicheng, Deng, Hongkui · 2023 · Cell Stem Cell
35. Model of fibrolamellar hepatocellular carcinomas reveals striking enrichment in cancer stem cells
    Tsunekazu Oikawa, Eliane Wauthier, Timothy A. Dinh, Sara R. Selitsky, Andrea Reyna‐Neyra, Guido Carpino, Ronald Levine, Vincenzo Cardinale, David S. Klimstra, Eugenio Gaudio et al. · 2015 · Nature Communications
36. LincRNa-p21: function and mechanism in cancer
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37. Esrrb, an estrogen‐related receptor involved in early development, pluripotency, and reprogramming
    Nicola Festuccia, Nick D. L. Owens, Pablo Navarro · 2017 · FEBS Letters
38. iPSC-derived organ-on-a-chip models for personalized human genetics and pharmacogenomics studies
    Victoria E.J.M. Palasantzas, Isabel Tamargo-Rubio, Kieu T. T. Le, Jelle Slager, Cisca Wijmenga, Iris H. Jonkers, Vinod Kumar, Jingyuan Fu, Sebo Withoff · 2023 · Trends in Genetics
39. FACT Sets a Barrier for Cell Fate Reprogramming in Caenorhabditis elegans and Human Cells
    Ena Kolundžić, Andreas Ofenbauer, Selman Bulut, Bora Uyar, Gülkız Baytek, Anne Sommermeier, Stefanie Seelk, Mei He, Antje Hirsekorn, Dubravka Vučićević et al. · 2018 · Developmental Cell
40. Myc and SAGA rewire an alternative splicing network during early somatic cell reprogramming
    Calley L. Hirsch, Zeynep Coban‐Akdemir, Li Wang, Gowtham Jayakumaran, Daniel Trcka, Alexander Weiss, J. Javier Hernández, Qun Pan, Hong Ryul Han, Xueping Xu et al. · 2015 · Genes & Development
41. CD24 tracks divergent pluripotent states in mouse and human cells
    Nika Shakiba, Carl A. White, Yonatan Y. Lipsitz, Ayako Yachie‐Kinoshita, Peter D. Tonge, Samer M. I. Hussein, Mira C. Puri, Judith Elbaz, James Brendan Morrissey-Scoot, Mira Li et al. · 2015 · Nature Communications
42. Transcriptional Pause Release Is a Rate-Limiting Step for Somatic Cell Reprogramming
    Longqi Liu, Yan Xu, Minghui He, Meng Zhang, Fenggong Cui, Leina Lu, Mingze Yao, Weihua Tian, Christina Benda, Qiang Zhuang et al. · 2014 · Cell stem cell
43. Hierarchical Oct4 binding in concert with primed epigenetic rearrangements during Somatic Cell Reprogramming
    Chen, Jun, Chen, Xiaolong, Li, Min, Liu, Xiaoyu, Gao, Yawei, Kou, Xiaochen, Zhao, Yanhong, Zheng, Weisheng, Zhang, Xiaobai, Huo, Yi et al. · 2016 · Cell Reports
44. Diverse partial reprogramming strategies restore youthful gene expression and transiently suppress cell identity
    Roux, Antoine E., Zhang, Chunlian, Paw, Jonathan, Zavala-Solorio, José, Malahias, Evangelia, Vijay, Twaritha, Kolumam, Ganesh, Kenyon, Cynthia, Kimmel, Jacob C. · 2022 · Cell Systems
45. Müller Glia-Mediated Retinal Regeneration
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46. Materials control of the epigenetics underlying cell plasticity
    Stephanie R. Nemec, Kristopher Alan Kilian · 2020 · Nature Reviews Materials
47. Two miRNA Clusters Reveal Alternative Paths in Late-Stage Reprogramming
    Ronald J. Parchem, Julia Ye, Robert L. Judson, Marie F. La Russa, Raga Krishnakumar, Amy Blelloch, Michael C. Oldham, Robert H. Blelloch · 2014 · Cell stem cell
48. microRNA Control of Mouse and Human Pluripotent Stem Cell Behavior
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49. Hybrid Cellular Metabolism Coordinated by Zic3 and Esrrb Synergistically Enhances Induction of Naive Pluripotency
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50. NCoR/SMRT co-repressors cooperate with c-MYC to create an epigenetic barrier to somatic cell reprogramming
    Qiang Zhuang, Wenjuan Li, Christina Benda, Zhijian Huang, Tanveer Ahmed, Ping Liu, Xiangpeng Guo, David P. Ibañez, Zhiwei Luo, Meng Zhang et al. · 2018 · Nature Cell Biology
51. Anti-Aging Strategies Based on Cellular Reprogramming
    Alejandro Ocampo, Pradeep Reddy, Juan Carlos Izpisúa Belmonte · 2016 · Trends in Molecular Medicine
52. Cancer: pathological nuclear reprogramming?
    Colin R. Goding, Duanqing Pei, Xin Lü · 2014 · Nature reviews. Cancer
53. Functions of DEAD box RNA helicases DDX5 and DDX17 in chromatin organization and transcriptional regulation
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54. Reprogramming to Pluripotency Using Designer TALE Transcription Factors Targeting Enhancers
    Xuefei Gao, Jian Ping Yang, Jason C.H. Tsang, Jolene Ooi, Donghai Wu, Pentao Liu · 2013 · Stem Cell Reports
55. Alpha-ketoglutarate as a potent regulator for lifespan and healthspan: Evidences and perspectives
    Saghi Hakimi Naeini, Laleh Mavaddatiyan, Zahra Rashid Kalkhoran, Soroush Taherkhani, Mahmood Talkhabi · 2023 · Experimental Gerontology
56. In vivo reprogramming drives Kras-induced cancer development
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57. Nanog Is Dispensable for the Generation of Induced Pluripotent Stem Cells
    Benjamin A. Schwarz, Ori Bar‐Nur, José Silva, Konrad Hochedlinger · 2014 · Current Biology
58. Zero-dimensional, one-dimensional, two-dimensional and three-dimensional biomaterials for cell fate regulation
    Can Zhang, Bei Xie, Yujian Zou, Dan Zhu, Lei Lei, Dapeng Zhao, Hemin Nie · 2018 · Advanced Drug Delivery Reviews
59. Prospective Isolation of Poised iPSC Intermediates Reveals Principles of Cellular Reprogramming
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60. Stem cells in tissues, organoids, and cancers
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61. The use of small molecules in somatic-cell reprogramming
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62. Combinatorial Modulation of Signaling Pathways Reveals Cell-Type-Specific Requirements for Highly Efficient and Synchronous iPSC Reprogramming
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63. Retinal Cell Type DNA Methylation and Histone Modifications Predict Reprogramming Efficiency and Retinogenesis in 3D Organoid Cultures
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64. Mechanisms of the Metabolic Shift during Somatic Cell Reprogramming
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65. Cell signalling pathways underlying induced pluripotent stem cell reprogramming
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66. Induced pluripotent stem (iPS) cells: A new source for cell-based therapeutics?
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67. Mechanism of human somatic reprogramming to iPS cell
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68. Short-Term Mitochondrial Permeability Transition Pore Opening Modulates Histone Lysine Methylation at the Early Phase of Somatic Cell Reprogramming
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69. Transcriptomic and proteomic retinal pigment epithelium signatures of age-related macular degeneration
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70. CD44 Is a Negative Cell Surface Marker for Pluripotent Stem Cell Identification during Human Fibroblast Reprogramming
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71. RNAi Reveals Phase-Specific Global Regulators of Human Somatic Cell Reprogramming
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72. Dppa2/4 Facilitate Epigenetic Remodeling during Reprogramming to Pluripotency
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73. Enhanced Generation of Integration-free iPSCs from Human Adult Peripheral Blood Mononuclear Cells with an Optimal Combination of Episomal Vectors
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74. Cellular Reprogramming of Human Peripheral Blood Cells
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75. Deterministic Somatic Cell Reprogramming Involves Continuous Transcriptional Changes Governed by Myc and Epigenetic-Driven Modules
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76. Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming
    Cipriano, Andrea, Moqri, Mahdi, Maybury-Lewis, Sun Y., Rogers-Hammond, Ryan, de Jong, Tineke Anna, Parker, Alexander, Rasouli, Sajede, Schöler, Hans Robert, Sinclair, David A., Sebastiano, Vittorio · 2023 · Nature Aging
77. Autophagy and cell reprogramming
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78. Genome-wide Functional Analysis Reveals Factors Needed at the Transition Steps of Induced Reprogramming
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79. Concise Review: Dedifferentiation Meets Cancer Development: Proof of Concept for Epigenetic Cancer
    Yosuke Yamada, Hironori Haga, Yasuhiro Yamada · 2014 · Stem Cells Translational Medicine
80. Mechanistic elements and critical factors of cellular reprogramming revealed by stepwise global gene expression analyses
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81. Induction of Pluripotent Stem Cells from Mouse Embryonic Fibroblasts by Jdp2-Jhdm1b-Mkk6-Glis1-Nanog-Essrb-Sall4
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82. Neural Stem Cells Differentiated From iPS Cells Spontaneously Regain Pluripotency
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83. MicroRNA-based discovery of barriers to dedifferentiation of fibroblasts to pluripotent stem cells
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84. Stem Cells from Dental Pulp: What Epigenetics Can Do with Your Tooth
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85. Genetic modifiers of the BRD4-NUT dependency of NUT midline carcinoma uncovers a synergism between BETis and CDK4/6is
    Sida Liao, Ophélia Maertens, Karen M. Cichowski, Stephen Joseph Elledge · 2018 · Genes & Development
86. Epigenetic reprogramming of cell identity: lessons from development for regenerative medicine
    Amitava Basu, Vijay Kumar Tiwari · 2021 · Clinical Epigenetics
87. Srebp-1 Interacts with c-Myc to Enhance Somatic Cell Reprogramming
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88. SRSF3 promotes pluripotency through Nanog mRNA export and coordination of the pluripotency gene expression program
    Madara Ratnadiwakara, Stuart K. Archer, Craig Dent, Igor Ruiz de los Mozos, Traude Helene Beilharz, Anja S. Knaupp, Christian Maximilian Nefzger, Jose Maria Polo, Minna‐Liisa Änkö · 2018 · eLife
89. The Polycomb Protein Ezh2 Impacts on Induced Pluripotent Stem Cell Generation
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90. Small RNA changes en route to distinct cellular states of induced pluripotency
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91. TRIM28 Is an Epigenetic Barrier to Induced Pluripotent Stem Cell Reprogramming
    Denise C. Miles, Nienke A. de Vries, Santiago Gisler, Cor Lieftink, Waseem Akhtar, Ewa Gogola, Inka Pawlitzky, Danielle Hulsman, Ellen Tanger, Martijn A. J. Koppens et al. · 2016 · Stem Cells
92. Epigenetic state network approach for describing cell phenotypic transitions
    Ping Wang, Chaoming Song, Hang Zhang, Zhanghan Wu, Xiao‐Jun Tian, Jianhua Xing · 2014 · Interface Focus
93. X chromosome reactivation in reprogramming and in development
    Vincent Pasque, Kathrin Plath · 2015 · Current Opinion in Cell Biology
94. A Genome-wide RNAi Screen Identifies Opposing Functions of Snai1 and Snai2 on the Nanog Dependency in Reprogramming
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95. Netrin-1 regulates somatic cell reprogramming and pluripotency maintenance
    Duygu Ozmadenci, Olivier Féraud, Suzy Markossian, Elsa Kress, Benjamin Ducarouge, Benjamin Gibert, Jian Ge, Isabelle Durand, Nicolas Gadot, Michela Plateroti et al. · 2015 · Nature Communications
96. Cell Type of Origin Dictates the Route to Pluripotency
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97. Chromosome compartments on the inactive X guide TAD formation independently of transcription during X-reactivation
    Moritz Bauer, Enrique Vidal, Eduard Valera Zorita, Nil Üresin, Stefan F. Pinter, Guillaume J. P. Filion, Bernhard Payer · 2021 · Nature Communications
98. Polycomb group proteins and MYC: the cancer connection
    Leonidas Benetatos, George Vartholomatos, Eleftheria ChR. Hatzimichael · 2013 · Cellular and Molecular Life Sciences
99. Gender Differences in Global but Not Targeted Demethylation in iPSC Reprogramming
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100. Single-cell transcriptional profiling: a window into embryonic cell-type specification
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