A gene expression map of Arabidopsis thaliana development

By M. Schmid, T. Davison, Stefan R. Henz, Utz J. Pape, Monika Demar, Martin Vingron, Bernhard Schölkopf, Detlef Weigel, J. Lohmann. Nature Genetics, 2005

2,605 citations recorded by the source corpus.

Subfields: Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/cedcfa486a22985ef7f72c15b5a943fe91dec0d5

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Citations in the corpus

Abscisic Acid Synthesis and Response (2013, background): “PYL5 (At5g05440) is the most highly expressed receptor at this stage (Schmid et al. 2005; Winter et al., 2007), suggesting that it may play a major role in ABA response during seed maturation.”
The miRNA156/157 recognition element in the 3' UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlings. (2007, background): “Evidence suggests that different SPL genes are transcriptionallyactiveduringthecourseofdevelopmentandgenerate high transcript levels in inflorescences and flowers (Schmid et al., 2005; Zimmermann et al., 2004).”
Genetic containment of forest plantations (2007, background): “…responses to floral induction stimuli, and spatial patterns in flowers of Arabidopsis mutants, have revealed tissue-predominant expression patterns and components of gene networks controlling floral initiation and floral organ development (Schmid et al. 2003, 2005; Wellmer et al. 2004).”
Acyl-Lipid Metabolism (2013, background): “The use of DNA microarrays has provided detailed expression patterns for genes involved in plant metabolic processes like fatty acid biosynthesis (Schmid et al., 2005).”
Metabolomics for functional genomics, systems biology, and biotechnology. (2010, methodology): “The AtGenExpress hormone- and chemical-treatment data set: Experimental design, data evaluation, model data analysis, and data access.”
An Extensive Survey of CK2 α and β Subunits in Arabidopsis: Multiple Isoforms Exhibit Differential Subcellular Localization (2006, methodology): “A total of 75 independent experiments were included in our analysis; all of them are experiments performed by the same group (Schmid et al. 2005) (Fig.”
Whole-Genome Analysis of Histone H3 Lysine 27 Trimethylation in Arabidopsis (2007, methodology): “Expression levels were obtained by averaging appropriate developmental stages from a recently published dataset [35] (see Materials and Methods).”
Epigenetic reprogramming and small RNA silencing of transposable elements in pollen (2009, positive): “, 2005) has revealed that relatively few genes are expressed, the lowest number of any tissue examined (Becker and Feijo, 2007; Schmid et al., 2005), and that many of the genes involved in siRNA biogenesis and silencing are either not expressed in pollen or expressed at low levels (Pina et al.”
Seed Priming: New Comprehensive Approaches for an Old Empirical Technique (2016, background): “Nevertheless, both microarray [121] and macroarray experi‐ ments [115] with the complete set of genes encoding major intrinsic proteins revealed that out of 13 PIPs encoded by the Arabidopsis genome, transcripts for only three isoforms (PIP1;2, PIP1;4, and PIP1;5) were detectable in seeds.”
The NAC Transcription Factors NST1 and NST2 of Arabidopsis Regulate Secondary Wall Thickenings and Are Required for Anther Dehiscencew⃞ (2005, background): “According to the available results of expression profiling with microarrays (Schmid et al., 2005), expression of one NAC transcription factor in subgroup IIb, which we refer to as NST3, is strongly enhanced in stems but not in stamens.”
SND1, a NAC Domain Transcription Factor, Is a Key Regulator of Secondary Wall Synthesis in Fibers of Arabidopsis[W] (2006, methodology): “The expression data of Arabidopsis thaliana NAC genes in different organs are derived from the AtGenExpress project (Schmid et al., 2005; http://www.weigelworld.org/resources/microarray/AtGenExpress/).”
Control of Jasmonate Biosynthesis and Senescence by miR319 Targets (2008, methodology): “(A) Averaged RNA expression levels of genes affected in different genotypes across a developmental microarray dataset [53].”
Comprehending crystalline β-carotene accumulation by comparing engineered cell models and the natural carotenoid-rich system of citrus (2011, positive): “To begin to better understand the role of the ZIP family of transporters in plants, the expression of 10 of the 11 plant ZIP genes studied here was compiled from a global gene expression map for Arabidopsis development (Schmid et al., 2005), and is summarized in Table 1 for 7-, 15-, and 21-day-old p”
Integrative epigenomic mapping defines four main chromatin states in Arabidopsis (2011, methodology): “Shannon entropy for each set of marked genes was calculated as described (Zhang et al, 2006) using publicly available developmental expression series (Schmid et al, 2005), after filtering genes that showed no expression in any conditions.”
Araport11: a complete reannotation of the Arabidopsis thaliana reference genome (2016, methodology): “We will refer to these sample sources as tissues hereafter following a previous convention (Schmid et al. 2005).”