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

Role of lncRNAs in cis- and trans-regulatory responses to salt in Populus trichocarpa

Role of lncRNAs in cis- and trans-regulatory responses to salt in Populus trichocarpa

Abstract: Long non-coding RNAs (lncRNAs) are emerging as versatile regulators in diverse biological processes. How- ever, little is known about their cis- and trans-regulatory contributions in gene expression under salt...

Wu Wenwen
ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation

ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation

Abstract: Regulatory elements control gene expression through transcription initiation (promoters) and by enhancing transcription at distant regions (enhancers). Accurate identification of reg- ulatory elements is fundamental for annotating genomes and...

Ding Yu
Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation

Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation

Abstract: High-altitude adaptation of Tibetans represents a remarkable case of natural selection during recent human evolution. Previous genome-wide scans found many non-coding variants under selection, suggesting a pressing need to...

Bao Yu
DNA methylation-free Arabidopsis reveals crucial roles of DNA methylation in regulating gene expression and development

DNA methylation-free Arabidopsis reveals crucial roles of DNA methylation in regulating gene expression and development

Abstract: A contribution of DNA methylation to defense against invading nucleic acids and maintenance of genome integrity is uncontested; however, our understanding of the extent of involvement of this epigenetic...

Xin Xiaoyue
ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation

ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation

Abstract: Regulatory elements control gene expression through transcription initiation (promoters) and by enhancing transcription at distant regions (enhancers). Accurate identification of regulatory elements is fundamental for annotating genomes and understanding...

Liu Guanqing
A comprehensive catalog of predicted functional upstream open reading frames in humans

A comprehensive catalog of predicted functional upstream open reading frames in humans

Abstract: Upstream open reading frames (uORFs) latent in mRNA transcripts are thought to modify translation of coding sequences by altering ribosome activity. Not all uORFs are thought to be active...

Wu Yuechao
ALK, the Key Gene for Gelatinization Temperature, is a Modifier Gene for Gel Consistency in Rice

ALK, the Key Gene for Gelatinization Temperature, is a Modifier Gene for Gel Consistency in Rice

Abstract: Gelatinization temperature (GT) is an important parameter in evaluating the cooking and eating quality of rice. Indeed, the phenotype, biochemistry and inheritance of GT have been widely studied in...

Tan Yan
Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

Abstract: Background: Chromatin provides a tunable platform for gene expression control. Besides the well-studied core nucleosome, H1 linker histones are abundant chromatin components with intrinsic potential to influence chromatin function....

Pan Kairui
The two clock proteins CCA1 and LHY activate VIN3 transcription during vernalization through the vernalization-responsive cis-element

The two clock proteins CCA1 and LHY activate VIN3 transcription during vernalization through the vernalization-responsive cis-element

Abstract: Vernalization, a long-term cold-mediated acquisition of flowering competence, is critically regulated by VERNALIZATION INSENSITIVE 3 (VIN3), a gene induced by vernalization in Arabidopsis. Although the function of VIN3 has...

Zhang Xin
A quantitative genomics map of rice provides genetic insights and guides breeding

A quantitative genomics map of rice provides genetic insights and guides breeding

Abstract: Extensive allelic variation in agronomically important genes serves as the basis of rice breeding. Here, we present a comprehen- sive map of rice quantitative trait nucleotides (QTNs) and inferred...

Han Yangshuo