DNAMethylation Dynamics of Human Hematopoietic Stem Cell Differentiation

[1]  R. Tothill,et al.  Epigenetic profiling to classify cancer of unknown primary: a multicentre, retrospective analysis. , 2016, The Lancet. Oncology.

[2]  Yong Zhang,et al.  Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos , 2016, Nature.

[3]  Y. Zhang,et al.  Allelic reprogramming of the histone modification H3K4me3 in early mammalian development , 2016, Nature.

[4]  Bing Ren,et al.  Broad histone H3K4me3 domains in mouse oocytes modulate maternal-to-zygotic transition , 2016, Nature.

[5]  Nathan C. Sheffield,et al.  Multi-Omics of Single Cells: Strategies and Applications , 2016, Trends in biotechnology.

[6]  Howard Y. Chang,et al.  Lineage-specific and single cell chromatin accessibility charts human hematopoiesis and leukemia evolution , 2016, Nature Genetics.

[7]  Kimberly Walter,et al.  Quantitative comparison of DNA methylation assays for biomarker development and clinical applications , 2016, Nature Biotechnology.

[8]  Andrew D. Rouillard,et al.  Enrichr: a comprehensive gene set enrichment analysis web server 2016 update , 2016, Nucleic Acids Res..

[9]  C. Woolthuis,et al.  Hematopoietic stem/progenitor cell commitment to the megakaryocyte lineage. , 2016, Blood.

[10]  Cyrille F. Dunant,et al.  Distinct routes of lineage development reshape the human blood hierarchy across ontogeny , 2016, Science.

[11]  R. Flavell,et al.  Humanized hemato-lymphoid system mice , 2016, Haematologica.

[12]  I. Amit,et al.  Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors , 2015, Cell.

[13]  E. Laurenti,et al.  Molecular landscapes of human hematopoietic stem cells in health and leukemia , 2015, Annals of the New York Academy of Sciences.

[14]  Nathan C. Sheffield,et al.  LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor , 2015, Bioinform..

[15]  L. Steinmetz,et al.  Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors. , 2015, Cell stem cell.

[16]  Jeroen Krijgsveld,et al.  Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis , 2015 .

[17]  P. Flicek,et al.  The Ensembl Regulatory Build , 2015, Genome Biology.

[18]  Nathan C. Sheffield,et al.  Single-Cell DNA Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics , 2015, Cell reports.

[19]  Michael Q. Zhang,et al.  Integrative analysis of 111 reference human epigenomes , 2015, Nature.

[20]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[21]  Randy J. Read,et al.  Transcriptional diversity during lineage commitment of human blood progenitors , 2014, Science.

[22]  Thomas Lengauer,et al.  Comprehensive Analysis of DNA Methylation Data with RnBeads , 2014, Nature Methods.

[23]  J. Mar,et al.  The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences , 2014, Nature Communications.

[24]  I. Macaulay,et al.  Platelet-biased stem cells reside at the apex of the haematopoietic stem-cell hierarchy , 2013, Nature.

[25]  Matthew D. Schultz,et al.  Global Epigenomic Reconfiguration During Mammalian Brain Development , 2013, Science.

[26]  A. Gnirke,et al.  Charting a dynamic DNA methylation landscape of the human genome , 2013, Nature.

[27]  Aaron R Cooper,et al.  Long-term in vivo monitoring of mouse and human hematopoietic stem cell engraftment with a human positron emission tomography reporter gene , 2013, Proceedings of the National Academy of Sciences.

[28]  C. Bock.  Analysing and interpreting DNA methylation data , 2012, Nature Reviews Genetics.

[29]  Zachary D. Smith,et al.  DNA methylation dynamics during in vivo differentiation of blood and skin stem cells. , 2012, Molecular cell.

[30]  Peter A. Jones.  Functions of DNA methylation: islands, start sites, gene bodies and beyond , 2012, Nature Reviews Genetics.

[31]  Thomas Lengauer,et al.  BLUEPRINT to decode the epigenetic signature written in blood , 2012, Nature Biotechnology.

[32]  Zachary D. Smith,et al.  A unique regulatory phase of DNA methylation in the early mammalian embryo , 2012, Nature.

[33]  E. Laurenti,et al.  Hematopoiesis: a human perspective. , 2012, Cell stem cell.

[34]  Andrew P. Feinberg,et al.  Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells , 2011, Nature Biotechnology.

[35]  Christoph Bock,et al.  Global DNA Demethylation During Mouse Erythropoiesis in Vivo , 2011, Science.

[36]  S. Andrews,et al.  Dynamic CpG island methylation landscape in oocytes and preimplantation embryos , 2011, Nature Genetics.

[37]  Thomas Lengauer,et al.  A DNA methylation fingerprint of 1628 human samples. , 2011, Genome research.

[38]  Felix Krueger,et al.  Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications , 2011, Bioinform..

[39]  Michael J. Ziller,et al.  Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines , 2011, Cell.

[40]  N. Friedman,et al.  Densely Interconnected Transcriptional Circuits Control Cell States in Human Hematopoiesis , 2011, Cell.

[41]  P. Vyas,et al.  Coexistence of LMPP-like and GMP-like leukemia stem cells in acute myeloid leukemia. , 2011, Cancer cell.

[42]  Irving L. Weissman,et al.  A comprehensive methylome map of lineage commitment from hematopoietic progenitors , 2010, Nature.

[43]  K. Hochedlinger,et al.  Cell type of origin influences the molecular and functional properties of mouse induced pluripotent stem cells , 2010, Nature Biotechnology.

[44]  J. Dick,et al.  Revised map of the human progenitor hierarchy shows the origin of macrophages and dendritic cells in early lymphoid development , 2010, Nature Immunology.

[45]  Trevor Hastie,et al.  Regularization Paths for Generalized Linear Models via Coordinate Descent. , 2010, Journal of statistical software.

[46]  R. Jaenisch,et al.  DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction , 2009, Nature Genetics.

[47]  I. Weissman,et al.  In vivo evaluation of human hematopoiesis through xenotransplantation of purified hematopoietic stem cells from umbilical cord blood , 2008, Nature Protocols.

[48]  A. Bird,et al.  DNA methylation landscapes: provocative insights from epigenomics , 2008, Nature Reviews Genetics.

[49]  Lawrence Carin,et al.  Sparse multinomial logistic regression: fast algorithms and generalization bounds , 2005, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[50]  J. Till,et al.  Hemopoietic stem cell differentiation. , 1980, Biochimica et biophysica acta.

[51]  S. E. Taylor,et al.  Humanized mice as a model to study human hematopoietic stem cell transplantation. , 2014, Stem cells and development.

[52]  G. Crooks,et al.  Lymphoid priming in human bone marrow begins before expression of CD 10 with upregulation of L-selectin , 2012 .

[53]  P. Vyas,et al.  Mice lacking transcription factor NF-E2 provide in vivo validation of the proplatelet model of thrombocytopoiesis and show a platelet production defect that is intrinsic to megakaryocytes. , 1998, Blood.

[54]  G. Spangrude.  Hematopoietic stem-cell differentiation. , 1991, Current opinion in immunology.

[55]  Nicola K. Wilson,et al.  Edinburgh Research Explorer Genome-wide Analysis of Simultaneous GATA1/2, RUNX1, FLI1, and SCL Binding in Megakaryocytes Identifies Hematopoietic Regulators , 2022 .