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: Analysis of gene network bifurcation during optic cup morphogenesis in zebrafish

Report: Analysis of gene network bifurcation during optic cup morphogenesis in zebrafish

Abstract: Sight depends on the tight cooperation between photoreceptors and pigmented cells, which derive from common progenitors through the bifurcation of a single gene regulatory network into the neural retina...

Bao Yu
Report: RGN1 controls grain number and shapes panicle architecture in rice

Report: RGN1 controls grain number and shapes panicle architecture in rice

Abstract: Yield in rice is determined mainly by panicle architecture. Using map-based cloning we identified an R2R3 MYB transcription factor REGULATOR OF GRAIN NUMBER1 (RGN1) affecting grain number and panicle...

Xin Xiaoyue
Report: Conserved noncoding sequences provide insights into regulatory sequence and loss of gene expression in maize

Report: Conserved noncoding sequences provide insights into regulatory sequence and loss of gene expression in maize

Abstract: Thousands of species will be sequenced in the next few years; however, understanding how their genomes work, without an unlimited budget, requires both molecular and novel evolutionary approaches. We...

Pan Kairui
Report: PAM-less plant genome editing using a CRISPR–SpRY toolbox

Report: PAM-less plant genome editing using a CRISPR–SpRY toolbox

Abstract: The rapid development of the CRISPR–Cas9, –Cas12a and – Cas12b genome editing systems has greatly fuelled basic and translational plant research1–6. DNA targeting by these Cas nucleases is restricted...

Wu Yuechao
Report: The key role of terminators on the expression and post- transcriptional gene silencing of transgenes

Report: The key role of terminators on the expression and post- transcriptional gene silencing of transgenes

Abstract: Transgenes have become essential to modern biology, being an important tool in functional genomic studies and also in the development of biotechnological products. One of the major challenges in...

Pan Kairui
Report: KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis

Report: KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis

Abstract: Gene set enrichment (GSE) analysis plays an essen- tial role in extracting biological insight from genome- scale experiments. ORA (overrepresentation analy- sis), FCS (functional class scoring), and PT (path-...

Han Yangshuo
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