Analysis of weighted co-regulatory networks in maize provides insights into new genes and regulatory mechanisms related to inositol phosphate metabolism

Inositol pyrophosphates regulate RNA polymerase I-mediated rRNA transcription inSaccharomyces cerevisiae

(2015) Swarna Gowri Thota et al.   BIOCHEMICAL JOURNAL

The mitochondrial-encoded subunits of respiratory complex I (NADH:ubiquinone oxidoreductase): identifying residues important in mechanism and disease

(2015) Hannah R. Bridges et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

cytoHubba: identifying hub objects and sub-networks from complex interactome

(2014) Chia-Hao Chin et al.   BMC Systems Biology

Generalised power graph compression reveals dominant relationship patterns in complex networks

(2014) Sebastian E. Ahnert   Scientific Reports

Construction and validation of a gene co-expression network in grapevine (Vitis vinifera. L.)

(2014) Ying-Hai Liang et al.   Horticulture Research

Low Phytic Acid 1 Mutation in Maize Modifies Density, Starch Properties, Cations, and Fiber Contents in the Seed

(2013) Michela Landoni et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

myo-Inositol and D-Ribose Ligand Discrimination in an ABC Periplasmic Binding Protein

(2013) J. Herrou et al.   JOURNAL OF BACTERIOLOGY

Power graph compression reveals dominant relationships in genetic transcription networks

(2013) Sebastian E. Ahnert   Molecular BioSystems

Count-based differential expression analysis of RNA sequencing data using R and Bioconductor

(2013) Simon Anders et al.   Nature Protocols

Alternative splicing: a pivotal step between eukaryotic transcription and translation

(2013) Alberto R. Kornblihtt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Study of Low Phytic Acid1-7 (lpa1-7), a New ZmMRP4 Mutation in Maize

(2012) Francesco Cerino Badone et al.   JOURNAL OF HEREDITY

Tissue-Specific Alternative Splicing Remodels Protein-Protein Interaction Networks

(2012) Jonathan D. Ellis et al.   MOLECULAR CELL

A travel guide to Cytoscape plugins

(2012) Rintaro Saito et al.   NATURE METHODS

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

(2012) Cole Trapnell et al.   Nature Protocols

Structural and Functional Analysis of VQ Motif-Containing Proteins in Arabidopsis as Interacting Proteins of WRKY Transcription Factors

(2012) Y. Cheng et al.   PLANT PHYSIOLOGY

Phospholipase C-η1 is activated by intracellular Ca2+ mobilization and enhances GPCRs/PLC/Ca2+ signaling

(2011) Jung Kuk Kim et al.   CELLULAR SIGNALLING

Transcriptomic analysis of autistic brain reveals convergent molecular pathology

(2011) Irina Voineagu et al.   NATURE

A defective ABC transporter of the MRP family, responsible for the bean lpa1 mutation, affects the regulation of the phytic acid pathway, reduces seed myo-inositol and alters ABA sensitivity

(2011) Dario Panzeri et al.   NEW PHYTOLOGIST

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

(2011) Marc R. Friedländer et al.   NUCLEIC ACIDS RESEARCH

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Jasmonate perception by inositol-phosphate-potentiated COI1–JAZ co-receptor

(2010) Laura B. Sheard et al.   NATURE

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

The Arabidopsis thaliana Myo-Inositol 1-Phosphate Synthase1 Gene Is Required for Myo-inositol Synthesis and Suppression of Cell Death

(2010) J. L. Donahue et al.   PLANT CELL

Genetic analysis of two OsLpa1-like genes in Arabidopsis reveals that only one is required for wild-type seed phytic acid levels

(2010) Sang-Ic Kim et al.   PLANTA

Genetic analysis and characterization of a new maize association mapping panel for quantitative trait loci dissection

(2010) Xiaohong Yang et al.   THEORETICAL AND APPLIED GENETICS

WRKY transcription factors

(2010) Paul J. Rushton et al.   TRENDS IN PLANT SCIENCE

Dietary roles of phytate and phytase in human nutrition: A review

(2009) Vikas Kumar et al.   FOOD CHEMISTRY

Phytic acid prevents oxidative stress in seeds: evidence from a maize (Zea mays L.) low phytic acid mutant

(2009) E. Doria et al.   JOURNAL OF EXPERIMENTAL BOTANY

Inositol 1,4,5-triphosphate receptors and NAD(P)H mediate Ca2+ signaling required for hypoxic preconditioning of hippocampal neurons

(2009) P.E. Bickler et al.   NEUROSCIENCE

Osmotic stress-induced phosphoinositide and inositol phosphate signalling in plants

(2009) TEUN MUNNIK et al.   PLANT CELL AND ENVIRONMENT

Gene and Metabolite Regulatory Network Analysis of Early Developing Fruit Tissues Highlights New Candidate Genes for the Control of Tomato Fruit Composition and Development

(2009) F. Mounet et al.   PLANT PHYSIOLOGY

Approaches and challenges to engineering seed phytate and total phosphorus

(2009) Victor Raboy   PLANT SCIENCE

The Low Phytic Acid Phenotype in Soybean Line CX1834 Is Due to Mutations in Two Homologs of the Maize Low Phytic Acid Gene

(2009) Jason D. Gillman et al.   Plant Genome

Analysis of the platypus genome suggests a transposon origin for mammalian imprinting

(2009) Andrew J Pask et al.   GENOME BIOLOGY

Integrating and annotating the interactome using the MiMI plugin for cytoscape

(2008) Jing Gao et al.   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

A paramutation phenomenon is involved in the genetics of maize low phytic acid1-241 (lpa1-241) trait

(2008) R Pilu et al.   HEREDITY

Small-molecule agonists and antagonists of F-box protein-substrate interactions in auxin perception and signaling

(2008) K.-i. Hayashi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The rice OsLpa1 gene encodes a novel protein involved in phytic acid metabolism

(2008) S. I. Kim et al.   THEORETICAL AND APPLIED GENETICS

Unraveling Protein Networks with Power Graph Analysis

(2008) Loïc Royer et al.   PLoS Computational Biology

Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes

(2007) Pawel Michalak   GENOMICS

IP7 guards the CDK gate

(2007) John D York et al.   Nature Chemical Biology