Identification of key factors conquering developmental arrest of somatic cell cloned embryos by combining embryo biopsy and single-cell sequencing

[1]  Mohammad M. Karimi,et al.  An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations , 2015, Nature Communications.

[2]  Shogo Matoba,et al.  Embryonic Development following Somatic Cell Nuclear Transfer Impeded by Persisting Histone Methylation , 2014, Cell.

[3]  Aviv Regev,et al.  DNA methylation dynamics of the human preimplantation embryo , 2014, Nature.

[4]  N. Benvenisty,et al.  Human oocytes reprogram adult somatic nuclei of a type 1 diabetic to diploid pluripotent stem cells , 2014, Nature.

[5]  Dong Ryul Lee,et al.  Human somatic cell nuclear transfer using adult cells. , 2014, Cell stem cell.

[6]  Wei Li,et al.  Programming and Inheritance of Parental DNA Methylomes in Mammals , 2014, Cell.

[7]  Wei Li,et al.  MOABS: model based analysis of bisulfite sequencing data , 2014, Genome Biology.

[8]  F. Tang,et al.  Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing , 2013, Genome research.

[9]  P. Padilla-Longoria,et al.  Single-cell profiling of epigenetic modifiers identifies PRDM14 as an inducer of cell fate in the mammalian embryo. , 2013, Cell reports.

[10]  S. Horvath,et al.  Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing , 2013, Nature.

[11]  S. Mitalipov,et al.  Human Embryonic Stem Cells Derived by Somatic Cell Nuclear Transfer , 2013, Cell.

[12]  K. Miyamoto,et al.  Nuclear reprogramming of sperm and somatic nuclei in eggs and oocytes , 2013, Reproductive medicine and biology.

[13]  Peter W. Laird,et al.  Interplay between the Cancer Genome and Epigenome , 2013, Cell.

[14]  Kimiko Inoue,et al.  Recent advancements in cloning by somatic cell nuclear transfer , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.

[15]  Hiroshi Watanabe,et al.  The transcriptomic architecture of mouse Sertoli cell clone embryos reveals temporal–spatial-specific reprogramming , 2012, Reproduction.

[16]  L. Chamley,et al.  Transient JMJD2B-Mediated Reduction of H3K9me3 Levels Improves Reprogramming of Embryonic Stem Cells into Cloned Embryos , 2012, Molecular and Cellular Biology.

[17]  E. Memili,et al.  Reprogramming mammalian somatic cells. , 2012, Theriogenology.

[18]  David A. Orlando,et al.  Revisiting Global Gene Expression Analysis , 2012, Cell.

[19]  Wei Li,et al.  RSeQC: quality control of RNA-seq experiments , 2012, Bioinform..

[20]  Zachary D. Smith,et al.  Mouse ooplasm confers context-specific reprogramming capacity , 2012, Nature Genetics.

[21]  K. Abe,et al.  RNAi-mediated knockdown of Xist can rescue the impaired postimplantation development of cloned mouse embryos , 2011, Proceedings of the National Academy of Sciences.

[22]  Hui Yang,et al.  Defects in trophoblast cell lineage account for the impaired in vivo development of cloned embryos generated by somatic nuclear transfer. , 2011, Cell stem cell.

[23]  Y. Sotomaru,et al.  Identification of Inappropriately Reprogrammed Genes by Large-Scale Transcriptome Analysis of Individual Cloned Mouse Blastocysts , 2010, PloS one.

[24]  Catalin C. Barbacioru,et al.  Tracing the Derivation of Embryonic Stem Cells from the Inner Cell Mass by Single-Cell RNA-Seq Analysis , 2010, Cell stem cell.

[25]  Cole Trapnell,et al.  Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. , 2010, Nature biotechnology.

[26]  Catalin C. Barbacioru,et al.  RNA-Seq analysis to capture the transcriptome landscape of a single cell , 2010, Nature Protocols.

[27]  Mark D. Robinson,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[28]  Wei Li,et al.  BSMAP: whole genome bisulfite sequence MAPping program , 2009, BMC Bioinformatics.

[29]  Richard Durbin,et al.  Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .

[30]  Catalin C. Barbacioru,et al.  mRNA-Seq whole-transcriptome analysis of a single cell , 2009, Nature Methods.

[31]  Juan M. Vaquerizas,et al.  A census of human transcription factors: function, expression and evolution , 2009, Nature Reviews Genetics.

[32]  Lior Pachter,et al.  Sequence Analysis , 2020, Definitions.

[33]  Clifford A. Meyer,et al.  Model-based Analysis of ChIP-Seq (MACS) , 2008, Genome Biology.

[34]  J. Gurdon,et al.  Epigenetic memory of an active gene state depends on histone H3.3 incorporation into chromatin in the absence of transcription , 2008, Nature Cell Biology.

[35]  Brad T. Sherman,et al.  Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources , 2008, Nature Protocols.

[36]  Shaorong Gao,et al.  Dynamic Reprogramming of Histone Acetylation and Methylation in the First Cell Cycle of Cloned Mouse Embryos1 , 2007, Biology of reproduction.

[37]  Michael B. Stadler,et al.  Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome , 2007, Nature Genetics.

[38]  H. Lewin,et al.  Nuclear reprogramming of cloned embryos and its implications for therapeutic cloning , 2007, Nature Genetics.

[39]  Shaorong Gao,et al.  Somatic Cell-Like Features of Cloned Mouse Embryos Prepared with Cultured Myoblast Nuclei1 , 2003, Biology of Reproduction.

[40]  W Dean,et al.  Conservation of methylation reprogramming in mammalian development: Aberrant reprogramming in cloned embryos , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[41]  I. Wilmut,et al.  "Viable Offspring Derived from Fetal and Adult Mammalian Cells" (1997), by Ian Wilmut et al. , 2014 .