2,873 Result(s)
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Open AccessSystematic evaluation with practical guidelines for single-cell and spatially resolved transcriptomics data simulation under multiple scenarios
Single-cell RNA sequencing (scRNA-seq) and spatially resolved transcriptomics (SRT) have led to groundbreaking advancements in life sciences. To develop bioinformatics tools for scRNA-seq and SRT data and perf...
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Seedling root system adaptation to water availability during maize domestication and global expansion
The maize root system has been reshaped by indirect selection during global adaptation to new agricultural environments. In this study, we characterized the root systems of more than 9,000 global maize accessi...
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Cross-ancestry genome-wide association studies of brain imaging phenotypes
Genome-wide association studies of brain imaging phenotypes are mainly performed in European populations, but other populations are severely under-represented. Here, we conducted Chinese-alone and cross-ancest...
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Reply to: Phylogenomic and comparative genomic analyses support a single evolutionary origin of flatfish asymmetry
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Overexpression of TRIM44 mediates the NF-κB pathway to promote the progression of ovarian cancer
Ovarian cancer (OC) is the second most commonly seen cancer in the US, and patients with OC are commonly diagnosed in the advanced stage. Research into the molecular mechanisms and potential therapeutic target...
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Open AccessGenomic analyses reveal the stepwise domestication and genetic mechanism of curd biogenesis in cauliflower
Cauliflower (Brassica oleracea L. var. botrytis) is a distinctive vegetable that supplies a nutrient-rich edible inflorescence meristem for the human diet. However, the genomic bases of its selective breeding hav...
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The Complete Mitochondrial Genome of the Mashen Pig (Sus scrofa)
Mashen pig (Sus scrofa) is one of the famous local breeds in China. In this study, we sequenced and reported the complete mitochondrial genome of the Mashen pig. The complete mitogenome sequence is 16 649 bp in l...
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Helicobacter pylori infection induces gastric cancer cell malignancy by targeting HOXA-AS2/miR-509-3p/MMD2 axis
Helicobacter pylori (Hp) infection is considered to be the strongest risk factor for gastric cancer (GC). Long non-coding RNA HOXA cluster antisense RNA 2 (HOXA-AS2) has been indicated to be significantly related...
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Pyroptosis is involved in the immune microenvironment regulation of unexplained recurrent miscarriage
Unexplained recurrent miscarriage (URM) is a common pregnancy complication with few effective therapies. Moreover, little is known regarding the role of pyroptosis in the regulation of the URM immune microenvi...
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Variation in TaSPL6-D confers salinity tolerance in bread wheat by activating TaHKT1;5-D while preserving yield-related traits
Na+ exclusion from above-ground tissues via the Na+-selective transporter HKT1;5 is a major salt-tolerance mechanism in crops. Using the expression genome-wide association study and yeast-one-hybrid screening, we...
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Open AccessCDC167 exhibits potential as a biomarker for airway inflammation in asthma
Current asthma treatments have been discovered to decrease the risk of disease progression. Herein, we aimed to characterize novel potential therapeutic targets for asthma. Differentially expressed genes (DEGs...
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Open AccessCorrection to: Diallel analysis of common bean (Phaseolus vulgaris L.) genotypes for seed dietary fibre, carbohydrate, calcium and phosphorus contents
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Open AccessscCDC: a computational method for gene-specific contamination detection and correction in single-cell and single-nucleus RNA-seq data
In droplet-based single-cell and single-nucleus RNA-seq assays, systematic contamination of ambient RNA molecules biases the quantification of gene expression levels. Existing methods correct the contamination...
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Open AccessIn vivo rescue of genetic dilated cardiomyopathy by systemic delivery of nexilin
Dilated cardiomyopathy (DCM) is one of the most common causes of heart failure. Multiple identified mutations in nexilin (NEXN) have been suggested to be linked with severe DCM. However, the exact association ...
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Open AccessConditional knockdown of OsMLH1 to improve plant prime editing systems without disturbing fertility in rice
High-efficiency prime editing (PE) is desirable for precise genome manipulation. The activity of mammalian PE systems can be largely improved by inhibiting DNA mismatch repair by coexpressing a dominant-negati...
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SoxB family genes delay regeneration and cause abnormal movement in Dugesia japonica
SoxB subfamily is an important branch of Sox family and plays a key role in animal physiological process, but little is known about their function in planarian regeneration. This study aims to evaluate the functi...
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GAGE-seq concurrently profiles multiscale 3D genome organization and gene expression in single cells
The organization of mammalian genomes features a complex, multiscale three-dimensional (3D) architecture, whose functional significance remains elusive because of limited single-cell technologies that can conc...
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EMP1 correlated with cancer progression and immune characteristics in pan-cancer and ovarian cancer
This study examines the prognostic role and immunological relevance of EMP1 (epithelial membrane protein-1) in a pan-cancer analysis, with a focus on ovarian cancer. Utilizing data from TCGA, CCLE, and GTEx da...
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Open AccessSCIPAC: quantitative estimation of cell-phenotype associations
Numerous algorithms have been proposed to identify cell types in single-cell RNA sequencing data, yet a fundamental problem remains: determining associations between cells and phenotypes such as cancer. We dev...
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Open AccessSingle-cell 3D genome structure reveals distinct human pluripotent states
Pluripotent states of embryonic stem cells (ESCs) with distinct transcriptional profiles affect ESC differentiative capacity and therapeutic potential. Although single-cell RNA sequencing has revealed addition...
