Genome-wide Transcription Factor Gene Prediction and their Expressional Tissue-Specificities in MaizeF

Next-generation sequencing technologies for gene expression profiling in plants

(2011) M. Jain   Briefings in Functional Genomics

RNA-Seq Analysis of a Soybean Near-Isogenic Line Carrying Bacterial Leaf Pustule-Resistant and -Susceptible Alleles

(2011) K. H. Kim et al.   DNA RESEARCH

Digital gene expression for non-model organisms

(2011) L. Z. Hong et al.   GENOME RESEARCH

Functions and Application of the AP2/ERF Transcription Factor Family in Crop ImprovementF

(2011) Zhao-Shi Xu et al.   Journal of Integrative Plant Biology

Genome-wide atlas of transcription during maize development

(2011) Rajandeep S. Sekhon et al.   PLANT JOURNAL

Duplicate Maize Wrinkled1 Transcription Factors Activate Target Genes Involved in Seed Oil Biosynthesis

(2011) B. Pouvreau et al.   PLANT PHYSIOLOGY

Overexpression of transcription factor ZmPTF1 improves low phosphate tolerance of maize by regulating carbon metabolism and root growth

(2011) Zhaoxia Li et al.   PLANTA

grassy tillers1 promotes apical dominance in maize and responds to shade signals in the grasses

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

Extensive, clustered parental imprinting of protein-coding and noncoding RNAs in developing maize endosperm

(2011) M. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Utility of RNA Sequencing for Analysis of Maize Reproductive Transcriptomes

(2011) Rebecca M. Davidson et al.   Plant Genome

Tissue Culture-Induced Novel Epialleles of a Myb Transcription Factor Encoded by pericarp color1 in Maize

(2010) Y. Rhee et al.   GENETICS

Genome-Wide Analysis of WOX Gene Family in Rice, Sorghum, Maize, Arabidopsis and Poplar

(2010) Xin Zhang et al.   Journal of Integrative Plant Biology

SQUAMOSA Promoter-Binding Protein-Like Transcription Factors: Star Players for Plant Growth and Development

(2010) Xiaobo Chen et al.   Journal of Integrative Plant Biology

The developmental dynamics of the maize leaf transcriptome

(2010) Pinghua Li et al.   NATURE GENETICS

PlantTFDB 2.0: update and improvement of the comprehensive plant transcription factor database

(2010) He Zhang et al.   NUCLEIC ACIDS RESEARCH

Digital Gene Expression Signatures for Maize Development

(2010) A. L. Eveland et al.   PLANT PHYSIOLOGY

The developmental expression dynamics of Drosophila melanogaster transcription factors

(2010) Boris Adryan et al.   GENOME BIOLOGY

DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

(2009) Likun Wang et al.   BIOINFORMATICS

Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses

(2009) M. J. Fullwood et al.   GENOME RESEARCH

Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIA

(2009) Y. Fu et al.   GENOME RESEARCH

Genome-wide mapping of alternative splicing in Arabidopsis thaliana

(2009) S. A. Filichkin et al.   GENOME RESEARCH

PlnTFDB: updated content and new features of the plant transcription factor database

(2009) Paulino Pérez-Rodríguez et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide and Organ-Specific Landscapes of Epigenetic Modifications and Their Relationships to mRNA and Small RNA Transcriptomes in Maize

(2009) X. Wang et al.   PLANT CELL

bearded-ear Encodes a MADS Box Transcription Factor Critical for Maize Floral Development

(2009) B. E. Thompson et al.   PLANT CELL

The HD-ZIP IV transcription factor OCL4 is necessary for trichome patterning and anther development in maize

(2009) Vanessa Vernoud et al.   PLANT JOURNAL

Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs

(2009) Carol Soderlund et al.   PLoS Genetics

Loss of RNA–Dependent RNA Polymerase 2 (RDR2) Function Causes Widespread and Unexpected Changes in the Expression of Transposons, Genes, and 24-nt Small RNAs

(2009) Yi Jia et al.   PLoS Genetics

Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis

(2008) Ryan Lister et al.   CELL

The magic of the hypoxia-signaling cascade

(2008) E. Benizri et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

New insights into the mechanism of heat shock response activation

(2008) I. Shamovsky et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

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

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

Isolation and Characterization of a C-repeat Binding Transcription Factor from Maize

(2008) Lei Wang et al.   Journal of Integrative Plant Biology

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

(2008) Brian T. Wilhelm 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

The milkweed pod1 Gene Encodes a KANADI Protein That Is Required for Abaxial/Adaxial Patterning in Maize Leaves

(2008) H. Candela et al.   PLANT CELL

The maize Dof protein PBF activates transcription of γ-zein during maize seed development

(2008) Pau Marzábal et al.   PLANT MOLECULAR BIOLOGY

Structures and evolutionary origins of plant-specific transcription factor DNA-binding domains

(2008) Kazuhiko Yamasaki et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

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

(2008) M. Sultan et al.   SCIENCE