Variation in transcriptome size: are we getting the message?

Identification of reference genes for qRT-PCR in human lung squamous-cell carcinoma by RNA-Seq

(2014) Cheng Zhan et al.   ACTA BIOCHIMICA ET BIOPHYSICA SINICA

Cell Growth and Size Homeostasis in Silico

(2014) Yucheng Hu et al.   BIOPHYSICAL JOURNAL

Facts and artifacts in studies of gene expression in aneuploids and sex chromosomes

(2014) James A. Birchler   CHROMOSOMA

Identification of Transcriptional and Metabolic Programs Related to Mammalian Cell Size

(2014) Teemu P. Miettinen et al.   CURRENT BIOLOGY

Cell Growth: When Less Means More

(2014) Jill Wright et al.   CURRENT BIOLOGY

Nucleosome loss leads to global transcriptional up-regulation and genomic instability during yeast aging

(2014) Z. Hu et al.   GENES & DEVELOPMENT

Selective transcriptional regulation by Myc in cellular growth control and lymphomagenesis

(2014) Arianna Sabò et al.   NATURE

Activation and repression by oncogenic MYC shape tumour-specific gene expression profiles

(2014) Susanne Walz et al.   NATURE

Transcriptional profiling of cells sorted by RNA abundance

(2014) Sandy Klemm et al.   NATURE METHODS

Extensive Translational Regulation of Gene Expression in an Allopolyploid (Glycine dolichocarpa)

(2014) J. E. Coate et al.   PLANT CELL

Normalization of RNA-Sequencing Data from Samples with Varying mRNA Levels

(2014) Håvard Aanes et al.   PLoS One

The Regulation of Cell Size

(2013) Alison C. Lloyd   CELL

Global Transcriptional and Translational Repression in Human-Embryonic-Stem-Cell-Derived Rett Syndrome Neurons

(2013) Yun Li et al.   Cell Stem Cell

Lessons from Natural and Artificial Polyploids in Higher Plants

(2013) M. Hegarty et al.   CYTOGENETIC AND GENOME RESEARCH

Genetic and Epigenetic Aspects of Polyploid Evolution in Plants

(2013) A. Madlung et al.   CYTOGENETIC AND GENOME RESEARCH

Corrections for mRNA extraction and sample normalization errors find increased mRNA levels may compensate for cancer haplo-insufficiency

(2013) David A. Weaver et al.   GENES CHROMOSOMES & CANCER

Lysosome-mediated processing of chromatin in senescence

(2013) Andre Ivanov et al.   JOURNAL OF CELL BIOLOGY

A criticism of the value of midparent in polyploidization

(2013) A. Gianinetti   JOURNAL OF EXPERIMENTAL BOTANY

Cell geometric constraints induce modular gene-expression patterns via redistribution of HDAC3 regulated by actomyosin contractility

(2013) N. Jain et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

mRNA enrichment protocols determine the quantification characteristics of external RNA spike-in controls in RNA-Seq studies

(2013) Tao Qing et al.   Science China-Life Sciences

Endoreplication

(2013) N. Zielke et al.   Cold Spring Harbor Perspectives in Biology

A comparative transcriptomic study of an allotetraploid and its diploid progenitors illustrates the unique advantages and challenges of RNA-seq in plant species

(2012) Daniel C. Ilut et al.   AMERICAN JOURNAL OF BOTANY

What determines cell size?

(2012) Wallace F Marshall et al.   BMC BIOLOGY

Revisiting Global Gene Expression Analysis

(2012) Jakob Lovén et al.   CELL

c-Myc Is a Universal Amplifier of Expressed Genes in Lymphocytes and Embryonic Stem Cells

(2012) Zuqin Nie et al.   CELL

Transcriptional Amplification in Tumor Cells with Elevated c-Myc

(2012) Charles Y. Lin et al.   CELL

Quantitative Analysis of Fission Yeast Transcriptomes and Proteomes in Proliferating and Quiescent Cells

(2012) Samuel Marguerat et al.   CELL

Cell Size Control in Yeast

(2012) Jonathan J. Turner et al.   CURRENT BIOLOGY

Ancient whole genome duplications, novelty and diversification: the WGD Radiation Lag-Time Model

(2012) M Eric Schranz et al.   CURRENT OPINION IN PLANT BIOLOGY

Fractionation mutagenesis and similar consequences of mechanisms removing dispensable or less-expressed DNA in plants

(2012) Michael Freeling et al.   CURRENT OPINION IN PLANT BIOLOGY

Endoreplication and polyploidy: insights into development and disease

(2012) D. T. Fox et al.   DEVELOPMENT

Gene balance hypothesis: Connecting issues of dosage sensitivity across biological disciplines

(2012) J. A. Birchler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coordinating genome expression with cell size

(2012) Samuel Marguerat et al.   TRENDS IN GENETICS

Escape from Preferential Retention Following Repeated Whole Genome Duplications in Plants

(2012) James C. Schnable et al.   Frontiers in Plant Science

Anatomical, biochemical, and photosynthetic responses to recent allopolyploidy in Glycine dolichocarpa (Fabaceae)

(2011) Jeremy E. Coate et al.   AMERICAN JOURNAL OF BOTANY

Selection for Higher Gene Copy Number after Different Types of Plant Gene Duplications

(2011) Corey M. Hudson et al.   Genome Biology and Evolution

Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq

(2011) S. Islam et al.   GENOME RESEARCH

Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition

(2011) Håvard Aanes et al.   GENOME RESEARCH

Pathways Change in Expression During Replicative Aging in Saccharomyces cerevisiae

(2011) G. Yiu et al.   JOURNALS OF GERONTOLOGY SERIES A-BIOLOGICAL SCIENCES AND MEDICAL SCIENCES

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Determinants and dynamics of genome accessibility

(2011) Oliver Bell et al.   NATURE REVIEWS GENETICS

Two-Phase Resolution of Polyploidy in theArabidopsisMetabolic Network Gives Rise to Relative and Absolute Dosage Constraints

(2011) Michaël Bekaert et al.   PLANT CELL

Comparative Evolution of Photosynthetic Genes in Response to Polyploid and Nonpolyploid Duplication

(2011) J. E. Coate et al.   PLANT PHYSIOLOGY

Identification of Reference Genes across Physiological States for qRT-PCR through Microarray Meta-Analysis

(2011) Wei-Chung Cheng et al.   PLoS One

Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss

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

Physical limits of cells and proteomes

(2011) K. A. Dill et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomewide characterization of non-polyadenylated RNAs

(2011) Li Yang et al.   GENOME BIOLOGY

A Coordinated Global Control over Cellular Transcription

(2010) Jacob Zhurinsky et al.   CURRENT BIOLOGY

Gene Regulation: Global Transcription Rates Scale with Size

(2010) Huzefa Dungrawala et al.   CURRENT BIOLOGY

Relationships among RNA : DNA ratio, growth and elemental stoichiometry in mangrove trees

(2010) Ruth Reef et al.   FUNCTIONAL ECOLOGY

Quantifying Whole Transcriptome Size, a Prerequisite for Understanding Transcriptome Evolution Across Species: An Example from a Plant Allopolyploid

(2010) Jeremy E. Coate et al.   Genome Biology and Evolution

Elevated Histone Expression Promotes Life Span Extension

(2010) Jason Feser et al.   MOLECULAR CELL

A general lack of compensation for gene dosage in yeast

(2010) Michael Springer et al.   Molecular Systems Biology

Reduced histone biosynthesis and chromatin changes arising from a damage signal at telomeres

(2010) Roderick J O'Sullivan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana

(2010) M. A. Beilstein et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Control of Transcription by Cell Size

(2010) Chia-Yung Wu et al.   PLOS BIOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Single molecule detection in nanofluidic digital array enables accurate measurement of DNA copy number

(2009) Somanath Bhat et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Bias in Plant Gene Content Following Different Sorts of Duplication: Tandem, Whole-Genome, Segmental, or by Transposition

(2009) Michael Freeling   Annual Review of Plant Biology

Endoreplication: polyploidy with purpose

(2009) H. O. Lee et al.   GENES & DEVELOPMENT

The gene balance hypothesis: implications for gene regulation, quantitative traits and evolution

(2009) James A. Birchler et al.   NEW PHYTOLOGIST

Nonadditive Expression of Homoeologous Genes Is Established Upon Polyploidization in Hexaploid Wheat

(2008) M. Pumphrey et al.   GENETICS

RNA:DNA Ratio and Other Nucleic Acid Derived Indices in Marine Ecology

(2008) Maria Chícharo et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Imaging individual mRNA molecules using multiple singly labeled probes

(2008) Arjun Raj et al.   NATURE METHODS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Turning a hobby into a job: How duplicated genes find new functions

(2008) Gavin C. Conant et al.   NATURE REVIEWS GENETICS

Genome size is a strong predictor of cell size and stomatal density in angiosperms

(2008) Jeremy M. Beaulieu et al.   NEW PHYTOLOGIST

Studying copy number variations using a nanofluidic platform

(2008) Jian Qin et al.   NUCLEIC ACIDS RESEARCH

Changes to gene expression associated with hybrid speciation in plants: further insights from transcriptomic studies in Senecio

(2008) M. J Hegarty et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Role for Gene Duplication and Natural Variation of Gene Expression in the Evolution of Metabolism

(2008) Daniel J. Kliebenstein   PLoS One

Mecp2-Null Mice Provide New Neuronal Targets for Rett Syndrome

(2008) Rocio G. Urdinguio et al.   PLoS One

Identification of Four Soybean Reference Genes for Gene Expression Normalization

(2008) M. Libault et al.   Plant Genome