Transcriptomic and epigenomic differences in human induced pluripotent stem cells generated from six reprogramming methods

Whole-genome mutational burden analysis of three pluripotency induction methods

(2016) Kunal Bhutani et al.   Nature Communications

Genetic Variability Overrides the Impact of Parental Cell Type and Determines iPSC Differentiation Potential

(2016) Aija Kyttälä et al.   Stem Cell Reports

miR-429 regulates the transition between Hypoxia-Inducible Factor (HIF)1A and HIF3A expression in human endothelial cells

(2016) Anna Janaszak-Jasiecka et al.   Scientific Reports

Hypoxia Inhibits Myogenic Differentiation through p53 Protein-dependent Induction of Bhlhe40 Protein

(2015) Chao Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs

(2015) Jiho Choi et al.   NATURE BIOTECHNOLOGY

Genetic Background Drives Transcriptional Variation in Human Induced Pluripotent Stem Cells

(2014) Foad Rouhani et al.   PLoS Genetics

Transcriptional and Epigenetic Dynamics during Specification of Human Embryonic Stem Cells

(2013) Casey A. Gifford et al.   CELL

The Role of SIRT6 Protein in Aging and Reprogramming of Human Induced Pluripotent Stem Cells

(2013) Amit Sharma et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Costimulation-adhesion blockade is superior to Cyclosporine A and prednisone immunosuppressive therapy for preventing rejection of differentiated human embryonic stem cells following transplantation

(2013) Bruno C. Huber et al.   STEM CELLS

Sodium Butyrate Promotes Generation of Human Induced Pluripotent Stem Cells Through Induction of the miR302/367 Cluster

(2013) Zhonghui Zhang et al.   STEM CELLS AND DEVELOPMENT

Epigenetic repression of cardiac progenitor gene expression by Ezh2 is required for postnatal cardiac homeostasis

(2012) Paul Delgado-Olguín et al.   NATURE GENETICS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Identification of a specific reprogramming-associated epigenetic signature in human induced pluripotent stem cells

(2012) S. Ruiz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines

(2011) Christoph Bock et al.   CELL

Highly Efficient miRNA-Mediated Reprogramming of Mouse and Human Somatic Cells to Pluripotency

(2011) Frederick Anokye-Danso et al.   Cell Stem Cell

MicroRNA Cluster 302–367 Enhances Somatic Cell Reprogramming by Accelerating a Mesenchymal-to-Epithelial Transition

(2011) Baojian Liao et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Lentiviral Vector Design and Imaging Approaches to Visualize the Early Stages of Cellular Reprogramming

(2011) Eva Warlich et al.   MOLECULAR THERAPY

Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

(2011) Kitai Kim et al.   NATURE BIOTECHNOLOGY

A more efficient method to generate integration-free human iPS cells

(2011) Keisuke Okita et al.   NATURE METHODS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Lab-Specific Gene Expression Signatures in Pluripotent Stem Cells

(2010) Aaron M. Newman et al.   Cell Stem Cell

Chromatin Structure and Gene Expression Programs of Human Embryonic and Induced Pluripotent Stem Cells

(2010) Matthew G. Guenther et al.   Cell Stem Cell

Highly Efficient Reprogramming to Pluripotency and Directed Differentiation of Human Cells with Synthetic Modified mRNA

(2010) Luigi Warren et al.   Cell Stem Cell

The regulatory role of c-MYC on HDAC2 and PcG expression in human multipotent stem cells

(2010) Dilli Ram Bhandari et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

Epigenetic memory in induced pluripotent stem cells

(2010) K. Kim et al.   NATURE

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Generation of adult human induced pluripotent stem cells using nonviral minicircle DNA vectors

(2010) Kazim H Narsinh et al.   Nature Protocols

AltAnalyze and DomainGraph: analyzing and visualizing exon expression data

(2010) Dorothea Emig et al.   NUCLEIC ACIDS RESEARCH

Transcriptional upregulation of histone deacetylase 2 promotes Myc-induced oncogenic effects

(2010) G M Marshall et al.   ONCOGENE

A Transcriptional Roadmap to the Induction of Pluripotency in Somatic Cells

(2010) Ying Wang et al.   Stem Cell Reviews and Reports

Induced Pluripotent Stem Cells and Embryonic Stem Cells Are Distinguished by Gene Expression Signatures

(2009) Mark H. Chin et al.   Cell Stem Cell

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization

(2009) J. Chen et al.   NUCLEIC ACIDS RESEARCH

Efficient induction of transgene-free human pluripotent stem cells using a vector based on Sendai virus, an RNA virus that does not integrate into the host genome

(2009) Noemi FUSAKI et al.   PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES

Induction of pluripotent stem cells by defined factors is greatly improved by small-molecule compounds

(2008) Danwei Huangfu et al.   NATURE BIOTECHNOLOGY