Zhang Tao lab

Bioinformatics, Epigenetics and Genomics.

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Chorus2 oligo datasets

Chorus2 oligo datasets

Oligo datasets which host oligo sequences for Oligo-FISH. Details Introduction The oligo datasets currently host oligo sequences of nine species, including Arabidopsis, rice, maize, potato, barley, soybean, human, mouse and...

PlantDHS

PlantDHS

PlantDHS: a database for DNase I hypersensitive sites (DHSs) in plants.


Lab meeting

Report: Integrated global analysis reveals a vitamin E- vitamin K1 sub-network, downstream of COLD1, underlying rice chilling tolerance divergence

Report: Integrated global analysis reveals a vitamin E- vitamin K1 sub-network, downstream of COLD1, underlying rice chilling tolerance divergence

Abstract: Rice, a staple food with tropical/subtropical origination, is susceptible to cold stress, one of the major con- straints on its yield and distribution. Asian cultivated rice consists of two...

Zhang Xin
Report: The Taxus genome provides insights into paclitaxel biosynthesis

Report: The Taxus genome provides insights into paclitaxel biosynthesis

Abstract: The ancient gymnosperm genus Taxus is the exclusive source of the anticancer drug paclitaxel, yet no reference genome sequences are available for comprehensively elucidating the paclitaxel biosynthesis pathway. We...

Liu Shuo
Report: In vivo nuclear RNA structurome reveals RNA-structure regulation of mRNA processing in plants

Report: In vivo nuclear RNA structurome reveals RNA-structure regulation of mRNA processing in plants

Abstract: Background: mRNA processing is critical for gene expression. A challenge in regulating mRNA processing is how to recognize the actual mRNA processing sites, such as splice and polyadenylation sites,...

Wu Wenwen
Report: Determinants of genome-wide distribution and evolution of uORFs in eukaryotes

Report: Determinants of genome-wide distribution and evolution of uORFs in eukaryotes

Abstract: Upstream open reading frames (uORFs) play widespread regulatory functions in modulating mRNA translation in eukaryotes, but the principles underlying the genomic distribution and evolution of uORFs remain poorly understood....

Ding Yu
Report: Chromatin Landscape Underpinning Human Dendritic Cell Heterogeneity

Report: Chromatin Landscape Underpinning Human Dendritic Cell Heterogeneity

Abstract: Human dendritic cells (DCs) comprise subsets with distinct phenotypic and functional characteristics, but the transcriptional programs that dictate their identity remain elusive. Here, we analyze global chromatin acces- sibility...

Bao Yu
Report: Natural variations of SLG1 confer high-temperature tolerance in indica rice

Report: Natural variations of SLG1 confer high-temperature tolerance in indica rice

Abstract: With global warming and climate change, breeding crop plants tolerant to high-temperature stress is of immense significance. tRNA 2-thiolation is a highly conserved form of tRNA modification among living...

Xin Xiaoyue
Report: Single-nucleotide-level mapping of DNA regulatory elements that control fetal hemoglobin expression

Report: Single-nucleotide-level mapping of DNA regulatory elements that control fetal hemoglobin expression

Abstract: Pinpointing functional noncoding DNA sequences and defining their contributions to health-related traits is a major challenge for modern genetics. We developed a high-throughput framework to map noncoding DNA functions...

Liu Guanqing
Report: Chromothripsis as an on-target consequence of CRISPR–Cas9 genome editing

Report: Chromothripsis as an on-target consequence of CRISPR–Cas9 genome editing

Abstract: Genome editing has therapeutic potential for treating genetic diseases and cancer. However, the currently most practicable approaches rely on the generation of DNA double-strand breaks (DSBs), which can give...

Wu Yuechao
Report: Integrative inference of transcriptional networks in Arabidopsis yields novel ROS signalling regulators

Report: Integrative inference of transcriptional networks in Arabidopsis yields novel ROS signalling regulators

Abstract: Gene regulation is a dynamic process in which transcription factors (TFs) play an important role in controlling spatiotemporal gene expression. To enhance our global understanding of regulatory interactions in...

Han Yangshuo
Report: A high-quality genome assembly highlights rye genomic characteristics and agronomically important genes

Report: A high-quality genome assembly highlights rye genomic characteristics and agronomically important genes

Abstract: Rye is a valuable food and forage crop, an important genetic resource for wheat and triticale improvement and an indispensable material for efficient comparative genomic studies in grasses. Here,...

Liu Shuo
Report: Unidirectional movement of small RNAs from shoots to roots in interspecific heterograf

Report: Unidirectional movement of small RNAs from shoots to roots in interspecific heterograf

Abstract: Long-distance RNA movement is important for plant growth and environmental responses; however, the extent to which RNAs move between distant tissues, their relative magnitude and functional importance remain to...

Wu Wenwen
Report: G-protein βγ subunits determine grain size through interaction with MADS-domain transcription factors in rice

Report: G-protein βγ subunits determine grain size through interaction with MADS-domain transcription factors in rice

Abstract: The simultaneous improvement of grain quality and yield of cereal crops is a major challenge for modern agriculture. Here we show that a rice grain yield quantitative trait locus...

Ding Yu
Report: Molecular Networks of Seed Size Control in Plants

Report: Molecular Networks of Seed Size Control in Plants

Abstract: The size of seeds affects not only evolutionary fitness but also grain yield of crops. Understanding the mechanisms controlling seed size has become an important research field in plant...

Bao Yu
Report: Identification of Plant Enhancers and Their Constituent Elements by STARR-seq in Tobacco Leaves

Report: Identification of Plant Enhancers and Their Constituent Elements by STARR-seq in Tobacco Leaves

Abstract: Genetic engineering of cis-regulatory elements in crop plants is a promising strategy to ensure food security. However, such engineering is currently hindered by our limited knowledge of plant cis-regulatory...

Xin Xiaoyue
Report: Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis

Report: Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis

Abstract: Alternation between morphologically distinct haploid and diploid life forms is a defining feature of most plant and algal life cycles, yet the underlying molecular mechanisms that govern these transitions...

Liu Guanqing
Report: Chromatin Accessibility Dynamics and a Hierarchical Transcriptional Regulatory Network Structure for Plant Somatic Embryogenesis

Report: Chromatin Accessibility Dynamics and a Hierarchical Transcriptional Regulatory Network Structure for Plant Somatic Embryogenesis

Abstract: Plant somatic embryogenesis refers to a phenomenon where embryos develop from somatic cells in the absence of fertilization. Previous studies have revealed that the phytohormone auxin plays a crucial...

Wu Yuechao
Report: The relationship between genome structure and function

Report: The relationship between genome structure and function

Abstract: Precise patterns of gene expression in metazoans are controlled by three classes of regulatory elements: promoters, enhancers and boundary elements. During differentiation and development, these elements form specific interactions...

Han Yangshuo