Comparative RNA-seq Analysis in the Unsequenced Axolotl: The Oncogene Burst Highlights Early Gene Expression in the Blastema

Retrotransposon long interspersed nucleotide element-1 (LINE-1) is activated during salamander limb regeneration

(2012) Wei Zhu et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

Activation of germline-specific genes is required for limb regeneration in the Mexican axolotl

(2012) Wei Zhu et al.   DEVELOPMENTAL BIOLOGY

Two Origins of Blastemal Progenitors Define Blastemal Regeneration of Zebrafish Lower Jaw

(2012) Xuelong Wang et al.   PLoS One

Gene expression patterns specific to the regenerating limb of the Mexican axolotl

(2012) James R. Monaghan et al.   Biology Open

SALL4 is a robust stimulator for the expansion of hematopoietic stem cells

(2011) J. R. Aguila et al.   BLOOD

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Control of the Embryonic Stem Cell State

(2011) Richard A. Young   CELL

Identification of differentially expressed thyroid hormone responsive genes from the brain of the Mexican Axolotl (Ambystoma mexicanum)

(2011) P. Huggins et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY C-TOXICOLOGY & PHARMACOLOGY

Dedifferentiation and the role of sall4 in reprogramming and patterning during amphibian limb regeneration

(2011) Anton W. Neff et al.   DEVELOPMENTAL DYNAMICS

Gene expression profile of the regeneration epithelium during axolotl limb regeneration

(2011) Leah J. Campbell et al.   DEVELOPMENTAL DYNAMICS

Transcription Factor Zic2 Inhibits Wnt/β-Catenin Protein Signaling

(2011) Rasoul Pourebrahim et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Chemically defined conditions for human iPSC derivation and culture

(2011) Guokai Chen et al.   NATURE METHODS

Newt-omics: a comprehensive repository for omics data from the newt Notophthalmus viridescens

(2011) Marc Bruckskotten et al.   NUCLEIC ACIDS RESEARCH

The dual-specificity MAP kinase phosphatases: critical roles in development and cancer

(2010) O. Bermudez et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

Highly consistent, fully representative mRNA-Seq libraries from ten nanograms of total RNA

(2010) Srikumar Sengupta et al.   BIOTECHNIQUES

Regeneration and reprogramming compared

(2010) Bea Christen et al.   BMC BIOLOGY

Analysis of newly established EST databases reveals similarities between heart regeneration in newt and fish

(2010) Thilo Borchardt et al.   BMC GENOMICS

Transient Inactivation of Rb and ARF Yields Regenerative Cells from Postmitotic Mammalian Muscle

(2010) Kostandin V. Pajcini et al.   Cell Stem Cell

Sall1-dependent signals affect Wnt signaling and ureter tip fate to initiate kidney development

(2010) S. M. Kiefer et al.   DEVELOPMENT

Limb blastema cell: A stem cell for morphological regeneration

(2010) Koji Tamura et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

The Hippo-YAP pathway in organ size control and tumorigenesis: an updated version

(2010) B. Zhao et al.   GENES & DEVELOPMENT

Sall1 Regulates Embryonic Stem Cell Differentiation in Association with Nanog

(2010) Efthimia Karantzali et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Essential Role of Nuclear Factor of Activated T Cells (NFAT)-mediated Wnt Signaling in Osteoblast Differentiation Induced by Strontium Ranelate

(2010) Olivia Fromigué et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Jarid2 is a PRC2 component in embryonic stem cells required for multi-lineage differentiation and recruitment of PRC1 and RNA Polymerase II to developmental regulators

(2010) David Landeira et al.   NATURE CELL BIOLOGY

A Novel SALL4/OCT4 Transcriptional Feedback Network for Pluripotency of Embryonic Stem Cells

(2010) Jianchang Yang et al.   PLoS One

RNA-Seq gene expression estimation with read mapping uncertainty

(2009) Bo Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Microarray and cDNA sequence analysis of transcription during nerve-dependent limb regeneration

(2009) James R Monaghan et al.   BMC BIOLOGY

Proteomic analysis of blastema formation in regenerating axolotl limbs

(2009) Nandini Rao et al.   BMC BIOLOGY

Genic regions of a large salamander genome contain long introns and novel genes

(2009) Jeramiah J Smith et al.   BMC GENOMICS

HMGB2 stabilizes p53 by interfering with E6/E6AP-mediated p53 degradation in human papillomavirus-positive HeLa cells

(2009) Daekyun Lee et al.   CANCER LETTERS

Chromobox Protein Homologue 7 Protein, with Decreased Expression in Human Carcinomas, Positively Regulates E-Cadherin Expression by Interacting with the Histone Deacetylase 2 Protein

(2009) A. Federico et al.   CANCER RESEARCH

Sall genes regulate region-specific morphogenesis in the mouse limb by modulating Hox activities

(2009) Y. Kawakami et al.   DEVELOPMENT

Expression of stem cell pluripotency factors during regeneration in newts

(2009) Nobuyasu Maki et al.   DEVELOPMENTAL DYNAMICS

SetDB1 contributes to repression of genes encoding developmental regulators and maintenance of ES cell state

(2009) S. Bilodeau et al.   GENES & DEVELOPMENT

Runx1 is required for the endothelial to haematopoietic cell transition but not thereafter

(2009) Michael J. Chen et al.   NATURE

Cells keep a memory of their tissue origin during axolotl limb regeneration

(2009) Martin Kragl et al.   NATURE

Direct reprogramming of human neural stem cells by OCT4

(2009) Jeong Beom Kim et al.   NATURE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Human Induced Pluripotent Stem Cells Free of Vector and Transgene Sequences

(2009) J. Yu et al.   SCIENCE

Regeneration: The origin of cancer or a possible cure?

(2009) Néstor J. Oviedo et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

A Targeted Constitutive Mutation in the Apc Tumor Suppressor Gene Underlies Mammary But Not Intestinal Tumorigenesis

(2009) Claudia Gaspar et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Identification of genes associated with regenerative success of Xenopus laevis hindlimbs

(2008) Esther J Pearl et al.   BMC DEVELOPMENTAL BIOLOGY

Hmga2 Promotes Neural Stem Cell Self-Renewal in Young but Not Old Mice by Reducing p16Ink4a and p19Arf Expression

(2008) Jinsuke Nishino et al.   CELL

Polycomb complexes and epigenetic states

(2008) Yuri B Schwartz et al.   CURRENT OPINION IN CELL BIOLOGY

Stretching the limits: Stem cells in regeneration science

(2008) David L. Stocum et al.   DEVELOPMENTAL DYNAMICS

Zic2 is expressed in pluripotent cells in the blastocyst and adult brain expression overlaps with makers of neurogenesis

(2008) Lucia Brown et al.   GENE EXPRESSION PATTERNS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

NCBI Reference Sequences: current status, policy and new initiatives

(2008) K. D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Hedgehog signaling promotes the degradation of tumor suppressor Sufu through the ubiquitin–proteasome pathway

(2008) S Yue et al.   ONCOGENE