Genome-editing tools for stem cell biology

Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers

(2015) Isaac B Hilton et al.   NATURE BIOTECHNOLOGY

Lysine-specific modifications of p53: a matter of life and death?

(2015) Diana Marouco et al.   Oncotarget

KMTase Set7/9 is a critical regulator of E2F1 activity upon genotoxic stress

(2014) L Lezina et al.   CELL DEATH AND DIFFERENTIATION

Endogenous c-Myc is essential for p53-induced apoptosis in response to DNA damage in vivo

(2014) T J Phesse et al.   CELL DEATH AND DIFFERENTIATION

miR-92a family and their target genes in tumorigenesis and metastasis

(2014) Molin Li et al.   EXPERIMENTAL CELL RESEARCH

Inhibition of Notch signaling facilitates the differentiation of human-induced pluripotent stem cells into neural stem cells

(2014) Chun-Yuan Chen et al.   MOLECULAR AND CELLULAR BIOCHEMISTRY

Notch inhibition allows oncogene-independent generation of iPS cells

(2014) Justin K Ichida et al.   Nature Chemical Biology

Engineered zinc-finger transcription factors activate OCT4 (POU5F1), SOX2, KLF4, c-MYC (MYC) and miR302/367

(2014) Qingzhou Ji et al.   NUCLEIC ACIDS RESEARCH

Comparison of TALE designer transcription factors and the CRISPR/dCas9 in regulation of gene expression by targeting enhancers

(2014) Xuefei Gao et al.   NUCLEIC ACIDS RESEARCH

Direct activation of human and mouse Oct4 genes using engineered TALE and Cas9 transcription factors

(2014) Jiabiao Hu et al.   NUCLEIC ACIDS RESEARCH

Clinical significance of the stem cell gene Oct-4 in cervical cancer

(2014) Yanyan Yang et al.   TUMOR BIOLOGY

Small molecule compound induces chromatin de-condensation and facilitates induced pluripotent stem cell generation

(2014) Xiaoyuan Wei et al.   Journal of Molecular Cell Biology

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

(2013) Luke A. Gilbert et al.   CELL

Generation of gene-modified mice via Cas9/RNA-mediated gene targeting

(2013) Bin Shen et al.   CELL RESEARCH

Generation of RAG 1- and 2-deficient rabbits by embryo microinjection of TALENs

(2013) Jun Song et al.   CELL RESEARCH

Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system

(2013) Albert W Cheng et al.   CELL RESEARCH

Cas9 effector-mediated regulation of transcription and differentiation in human pluripotent stem cells

(2013) N. A. Kearns et al.   DEVELOPMENT

Breaking through an epigenetic wall

(2013) Karla Juárez-Moreno et al.   Epigenetics

Characterization and DNA-Binding Specificities of Ralstonia TAL-Like Effectors

(2013) Lixin Li et al.   Molecular Plant

Optical control of mammalian endogenous transcription and epigenetic states

(2013) Silvana Konermann et al.   NATURE

Locus-specific editing of histone modifications at endogenous enhancers

(2013) Eric M Mendenhall et al.   NATURE BIOTECHNOLOGY

Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease

(2013) Seung Woo Cho et al.   NATURE BIOTECHNOLOGY

Conditional targeted genome editing using somatically expressed TALENs in C. elegans

(2013) Ze Cheng et al.   NATURE BIOTECHNOLOGY

Efficient genome editing in zebrafish using a CRISPR-Cas system

(2013) Woong Y Hwang et al.   NATURE BIOTECHNOLOGY

Heritable gene targeting in the mouse and rat using a CRISPR-Cas system

(2013) Dali Li et al.   NATURE BIOTECHNOLOGY

An efficient strategy for TALEN-mediated genome engineering in Drosophila

(2013) Tomonori Katsuyama et al.   NUCLEIC ACIDS RESEARCH

High-efficiency and heritable gene targeting in mouse by transcription activator-like effector nucleases

(2013) Zhongwei Qiu et al.   NUCLEIC ACIDS RESEARCH

Demonstration of CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco, sorghum and rice

(2013) Wenzhi Jiang et al.   NUCLEIC ACIDS RESEARCH

PPISURV: a novel bioinformatics tool for uncovering the hidden role of specific genes in cancer survival outcome

(2013) A V Antonov et al.   ONCOGENE

Senescence and aging: the critical roles of p53

(2013) A Rufini et al.   ONCOGENE

Efficient genome engineering in human pluripotent stem cells using Cas9 from Neisseria meningitidis

(2013) Z. Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

crRNA and tracrRNA guide Cas9-mediated DNA interference inStreptococcus thermophilus

(2013) Tautvydas Karvelis et al.   RNA Biology

Highly Efficient Targeted Mutagenesis of Drosophila with the CRISPR/Cas9 System

(2013) Andrew R. Bassett et al.   Cell Reports

Targeted Mutagenesis of Arabidopsis thaliana Using Engineered TAL Effector Nucleases

(2013) Michelle Christian et al.   G3-Genes Genomes Genetics

Reprogramming to Pluripotency Using Designer TALE Transcription Factors Targeting Enhancers

(2013) Xuefei Gao et al.   Stem Cell Reports

Differential integrity of TALE nuclease genes following adenoviral and lentiviral vector gene transfer into human cells

(2012) Maarten Holkers et al.   NUCLEIC ACIDS RESEARCH

Targeted transcriptional activation of silent oct4 pluripotency gene by combining designer TALEs and inhibition of epigenetic modifiers

(2012) Sebastian Bultmann et al.   NUCLEIC ACIDS RESEARCH

Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs

(2012) Lindsay Cade et al.   NUCLEIC ACIDS RESEARCH

Targeted silencing of the oncogenic transcription factor SOX2 in breast cancer

(2012) Sabine Stolzenburg et al.   NUCLEIC ACIDS RESEARCH

Efficient targeted gene disruption in Xenopus embryos using engineered transcription activator-like effector nucleases (TALENs)

(2012) Y. Lei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Generation of Isogenic Pluripotent Stem Cells Differing Exclusively at Two Early Onset Parkinson Point Mutations

(2011) Frank Soldner et al.   CELL

Genomic instability in induced stem cells

(2011) C E Pasi et al.   CELL DEATH AND DIFFERENTIATION

KAP1 Protein: An Enigmatic Master Regulator of the Genome

(2011) Sushma Iyengar et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Functional Analysis of KAP1 Genomic Recruitment

(2011) S. Iyengar et al.   MOLECULAR AND CELLULAR BIOLOGY

Targeted gene correction of α1-antitrypsin deficiency in induced pluripotent stem cells

(2011) Kosuke Yusa et al.   NATURE

Somatic coding mutations in human induced pluripotent stem cells

(2011) Athurva Gore et al.   NATURE

Genetic engineering of human pluripotent cells using TALE nucleases

(2011) Dirk Hockemeyer et al.   NATURE BIOTECHNOLOGY

Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription

(2011) Feng Zhang et al.   NATURE BIOTECHNOLOGY

Knockout rats generated by embryo microinjection of TALENs

(2011) Laurent Tesson et al.   NATURE BIOTECHNOLOGY

Efficient generation of a biallelic knockout in pigs using zinc-finger nucleases

(2011) J. Hauschild et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential Recruitment of Methyl CpG-Binding Domain Factors and DNA Methyltransferases by the Orphan Receptor Germ Cell Nuclear Factor Initiates the Repression and Silencing of Oct4

(2011) Peili Gu et al.   STEM CELLS

Transcriptional activators and activation mechanisms

(2011) Jun Ma   Protein & Cell

An Expanded Oct4 Interaction Network: Implications for Stem Cell Biology, Development, and Disease

(2010) Mercedes Pardo et al.   Cell Stem Cell

Targeted Genome Modification in Mice Using Zinc-Finger Nucleases

(2010) I. D. Carbery et al.   GENETICS

Genome editing with engineered zinc finger nucleases

(2010) Fyodor D. Urnov et al.   NATURE REVIEWS GENETICS

Pluripotency factors Lin28 and Oct4 identify a sub-population of stem cell-like cells in ovarian cancer

(2010) S Peng et al.   ONCOGENE

Generation of Knockout Rats with X-Linked Severe Combined Immunodeficiency (X-SCID) Using Zinc-Finger Nucleases

(2010) Tomoji Mashimo et al.   PLoS One

Genomic Targets of the KRAB and SCAN Domain-containing Zinc Finger Protein 263

(2009) Seth Frietze et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A p53-mediated DNA damage response limits reprogramming to ensure iPS cell genomic integrity

(2009) Rosa M. Marión et al.   NATURE

A Simple Cipher Governs DNA Recognition by TAL Effectors

(2009) M. J. Moscou et al.   SCIENCE

Heritable targeted gene disruption in zebrafish using designed zinc-finger nucleases

(2008) Yannick Doyon et al.   NATURE BIOTECHNOLOGY

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

(2008) Danwei Huangfu et al.   NATURE BIOTECHNOLOGY

Photoexcited CRY2 Interacts with CIB1 to Regulate Transcription and Floral Initiation in Arabidopsis

(2008) H. Liu et al.   SCIENCE