13 Result(s)
within
Qiangfeng Cliff Zhang
Science, Humanities and Social Sciences, multidisciplinary
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Article
Open AccessPervasive downstream RNA hairpins dynamically dictate start-codon selection
Translational reprogramming allows organisms to adapt to changing conditions. Upstream start codons (uAUGs), which are prevalently present in mRNAs, have crucial roles in regulating translation by providing al...
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Article
Open AccessOnline single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
Computational tools for integrative analyses of diverse single-cell experiments are facing formidable new challenges including dramatic increases in data scale, sample heterogeneity, and the need to informativ...
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Open AccessSingle-cell transcriptome and translatome dual-omics reveals potential mechanisms of human oocyte maturation
The combined use of transcriptome and translatome as indicators of gene expression profiles is usually more accurate than the use of transcriptomes alone, especially in cell types governed by translational reg...
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Article
Open AccessDifferential analysis of RNA structure probing experiments at nucleotide resolution: uncovering regulatory functions of RNA structure
RNAs perform their function by forming specific structures, which can change across cellular conditions. Structure probing experiments combined with next generation sequencing technology have enabled transcrip...
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Article
Open AccessRNA structure probing reveals the structural basis of Dicer binding and cleavage
It is known that an RNA’s structure determines its biological function, yet current RNA structure probing methods only capture partial structure information. The ability to measure intact (i.e., full length) R...
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Article
U1 snRNP regulates chromatin retention of noncoding RNAs
Long noncoding RNAs (lncRNAs) and promoter- or enhancer-associated unstable transcripts locate preferentially to chromatin, where some regulate chromatin structure, transcription and RNA processing1–13. Although ...
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Article
Open AccessSCALE method for single-cell ATAC-seq analysis via latent feature extraction
Single-cell ATAC-seq (scATAC-seq) profiles the chromatin accessibility landscape at single cell level, thus revealing cell-to-cell variability in gene regulation. However, the high dimensionality and sparsity ...
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Article
A transfer-RNA-derived small RNA regulates ribosome biogenesis
Transfer-RNA-derived small RNAs (tsRNAs; also called tRNA-derived fragments) are an abundant class of small non-coding RNAs whose biological roles are not well understood. Here we show that inhibition of a spe...
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Erratum: Structural imprints in vivo decode RNA regulatory mechanisms
Nature 519, 486–490 (2015); doi: 10.1038/nature14263 In Fig. 2a of this Letter, an error in the placement of the labels on the pie chart was introduced during the production process. The correct numbers were r...
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Structural imprints in vivo decode RNA regulatory mechanisms
The single-stranded nature of RNAs synthesized in the cell gives them great scope to form different structures, but current methods to measure RNA structure in vivo are limited; now, a new methodology allows rese...
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Article
Landscape and variation of RNA secondary structure across the human transcriptome
An RNA secondary structure (RSS) map of coding and noncoding RNA from a human family (two parents and their child) is produced; this reveals that approximately 15% of all transcribed single nucleotide variants...
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Article
Correction: Corrigendum: Structure-based prediction of protein–protein interactions on a genome-wide scale
Nature 490, 556–560 (2012); doi:10.1038/nature11503 In this Letter, one of the points shown in Fig. 2 and Supplementary Figs 8, 9 and Supplementary Table 4 reflects the presence of interactions that had been e...
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Structure-based prediction of protein–protein interactions on a genome-wide scale
Protein–protein interactions, essential for understanding how a cell functions, are predicted using a new method that combines protein structure with other computationally and experimentally derived clues.
