Developmental transcriptome analysis of human erythropoiesis

Lineage and species-specific long noncoding RNAs during erythro-megakaryocytic development

(2014) V. R. Paralkar et al.   BLOOD

A dynamic alternative splicing program regulates gene expression during terminal erythropoiesis

(2014) Harold Pimentel et al.   NUCLEIC ACIDS RESEARCH

Global discovery of erythroid long noncoding RNAs reveals novel regulators of red cell maturation

(2013) J. R. Alvarez-Dominguez et al.   BLOOD

Long Noncoding RNAs: Cellular Address Codes in Development and Disease

(2013) Pedro J. Batista et al.   CELL

Lysine-specific demethylase 1 is a therapeutic target for fetal hemoglobin induction

(2013) Lihong Shi et al.   NATURE MEDICINE

A comprehensive analysis of GATA-1-regulated miRNAs reveals miR-23a to be a positive modulator of erythropoiesis

(2013) Yong Zhu et al.   NUCLEIC ACIDS RESEARCH

Expressed Pseudogenes in the Transcriptional Landscape of Human Cancers

(2012) Shanker Kalyana-Sundaram et al.   CELL

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Decapping of Long Noncoding RNAs Regulates Inducible Genes

(2012) Sarah Geisler et al.   MOLECULAR CELL

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

(2012) Cole Trapnell et al.   Nature Protocols

Nuclear RNA Sequencing of the Mouse Erythroid Cell Transcriptome

(2012) Jennifer A. Mitchell et al.   PLoS One

Global gene expression analysis of human erythroid progenitors

(2011) A. T. Merryweather-Clarke et al.   BLOOD

Gene induction and repression during terminal erythropoiesis are mediated by distinct epigenetic changes

(2011) P. Wong et al.   BLOOD

Regulation of erythroid differentiation by miR-376a and its targets

(2011) Fang Wang et al.   CELL RESEARCH

Long noncoding RNA-mediated anti-apoptotic activity in murine erythroid terminal differentiation

(2011) W. Hu et al.   GENES & DEVELOPMENT

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

Augmented Annotation of the Schizosaccharomyces pombe Genome Reveals Additional Genes Required for Growth and Viability

(2011) D. A. Bitton et al.   GENETICS

Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development

(2011) Sharmistha Pal et al.   GENOME RESEARCH

Genome-wide Analyses of Transcription Factor GATA3-Mediated Gene Regulation in Distinct T Cell Types

(2011) Gang Wei et al.   IMMUNITY

lincRNAs act in the circuitry controlling pluripotency and differentiation

(2011) Mitchell Guttman et al.   NATURE

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

A Parsimonious Model for Gene Regulation by miRNAs

(2011) S. Djuranovic et al.   SCIENCE

Thousands of Novel Transcripts Identified in Mouse Cerebrum, Testis, and ES Cells Based on ribo-minus RNA Sequencing

(2011) Wanfei Liu et al.   Frontiers in Genetics

Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays

(2010) Ashish Agarwal et al.   BMC GENOMICS

Long Noncoding RNAs with Enhancer-like Function in Human Cells

(2010) Ulf Andersson Ørom et al.   CELL

Connections between Alternative Transcription and Alternative Splicing in Mammals

(2010) Svetlana A. Shabalina et al.   Genome Biology and Evolution

MyoD Directly Up-regulates Premyogenic Mesoderm Factors during Induction of Skeletal Myogenesis in Stem Cells

(2010) Peter J. Gianakopoulos et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The miR-144/451 locus is required for erythroid homeostasis

(2010) Kasper D. Rasmussen et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis

(2010) Rajnish A. Gupta et al.   NATURE

Dynamic transcriptomes during neural differentiation of human embryonic stem cells revealed by short, long, and paired-end sequencing

(2010) J. Q. Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Intergenic and Repeat Transcription in Human, Chimpanzee and Macaque Brains Measured by RNA-Seq

(2010) Augix Guohua Xu et al.   PLoS Computational Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

ConceptGen: a gene set enrichment and gene set relation mapping tool

(2009) Maureen A. Sartor et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Alternative pre-mRNA splicing switches modulate gene expression in late erythropoiesis

(2009) M. L. Yamamoto et al.   BLOOD

Cytokine-mediated increases in fetal hemoglobin are associated with globin gene histone modification and transcription factor reprogramming

(2009) O. Sripichai et al.   BLOOD

Identification of gene networks associated with erythroid differentiation

(2009) Shoshana Peller et al.   BLOOD CELLS MOLECULES AND DISEASES

The function of non-coding RNAs in genomic imprinting

(2009) M. V. Koerner et al.   DEVELOPMENT

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Gene expression in primate liver during viral hemorrhagic fever

(2009) Mahmoud Djavani et al.   Virology Journal

Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness

(2009) Ana C Marques et al.   GENOME BIOLOGY

Mutations in EKLF/KLF1 form the molecular basis of the rare blood group In(Lu) phenotype

(2008) B. K. Singleton et al.   BLOOD

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

MicroRNAs and noncoding RNAs in hematological malignancies: molecular, clinical and therapeutic implications

(2008) M Fabbri et al.   LEUKEMIA

Power sequencing

(2008) Brenton R. Graveley   NATURE

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Superconducting quantum bits

(2008) John Clarke et al.   NATURE

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

(2008) Qun Pan et al.   NATURE GENETICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

A GATA-1-regulated microRNA locus essential for erythropoiesis

(2008) L. C. Dore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome

(2008) M. Sultan et al.   SCIENCE