A high-resolution genotype-phenotype map identifies the TaSPL17 controlling grain number and size in wheat [0.03%]
高分辨率的基因型-表型图谱鉴定了控制小麦穗粒数和粒重的TaSPL17基因
Yangyang Liu,Jun Chen,Changbin Yin et al.
Yangyang Liu et al.
Background: Large-scale genotype-phenotype association studies of crop germplasm are important for identifying alleles associated with favorable traits. The limited number of single-nucleotide polymorphisms (SNPs) in most...
Cross-species oncogenomics offers insight into human muscle-invasive bladder cancer [0.03%]
跨物种肿瘤基因组学为人类肌层浸润性膀胱癌提供见解
Kim Wong,Federico Abascal,Latasha Ludwig et al.
Kim Wong et al.
Background: In humans, muscle-invasive bladder cancer (MIBC) is highly aggressive and associated with a poor prognosis. With a high mutation load and large number of altered genes, strategies to delineate key driver event...
SCA: recovering single-cell heterogeneity through information-based dimensionality reduction [0.03%]
基于信息的降维单细胞异质性恢复技术(SCA)
Benjamin DeMeo,Bonnie Berger
Benjamin DeMeo
Dimensionality reduction summarizes the complex transcriptomic landscape of single-cell datasets for downstream analyses. Current approaches favor large cellular populations defined by many genes, at the expense of smaller and more subtly d...
Single-cell resolution analysis reveals the preparation for reprogramming the fate of stem cell niche in cotton lateral meristem [0.03%]
单细胞分辨率分析揭示了棉花侧分生组织干细胞龛命运重塑的前期准备
Xiangqian Zhu,Zhongping Xu,Guanying Wang et al.
Xiangqian Zhu et al.
Background: Somatic embryogenesis is a major process for plant regeneration. However, cell communication and the gene regulatory network responsible for cell reprogramming during somatic embryogenesis are still largely un...
Comprehensive analyses of partially methylated domains and differentially methylated regions in esophageal cancer reveal both cell-type- and cancer-specific epigenetic regulation [0.03%]
对食管癌部分甲基化域和差异甲基化区域的综合分析揭示了细胞类型特异性和癌症特异性的表观遗传调控
Yueyuan Zheng,Benjamin Ziman,Allen S Ho et al.
Yueyuan Zheng et al.
Background: As one of the most common malignancies, esophageal cancer has two subtypes, squamous cell carcinoma and adenocarcinoma, arising from distinct cells-of-origin. Distinguishing cell-type-specific molecular featur...
Partial gene suppression improves identification of cancer vulnerabilities when CRISPR-Cas9 knockout is pan-lethal [0.03%]
部分基因抑制可改善CRISPR-Cas9完全丧失功能导致的癌症脆弱性识别问题
J Michael Krill-Burger,Joshua M Dempster,Ashir A Borah et al.
J Michael Krill-Burger et al.
Background: Hundreds of functional genomic screens have been performed across a diverse set of cancer contexts, as part of efforts such as the Cancer Dependency Map, to identify gene dependencies-genes whose loss of funct...
GTM-decon: guided-topic modeling of single-cell transcriptomes enables sub-cell-type and disease-subtype deconvolution of bulk transcriptomes [0.03%]
基于主题模型的单细胞转录组分析实现批量测序数据中亚类及疾病亚型解析
Lakshmipuram Seshadri Swapna,Michael Huang,Yue Li
Lakshmipuram Seshadri Swapna
Cell-type composition is an important indicator of health. We present Guided Topic Model for deconvolution (GTM-decon) to automatically infer cell-type-specific gene topic distributions from single-cell RNA-seq data for deconvolving bulk tr...
Predicting the impact of sequence motifs on gene regulation using single-cell data [0.03%]
利用单细胞数据预测序列基序对基因调控的影响
Jacob Hepkema,Nicholas Keone Lee,Benjamin J Stewart et al.
Jacob Hepkema et al.
The binding of transcription factors at proximal promoters and distal enhancers is central to gene regulation. Identifying regulatory motifs and quantifying their impact on expression remains challenging. Using a convolutional neural networ...
Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture [0.03%]
十万狗联盟的两千犬科动物基因组测序计划推动犬科动物种群遗传学、基因组功能及结构研究
Jennifer R S Meadows,Jeffrey M Kidd,Guo-Dong Wang et al.
Jennifer R S Meadows et al.
Background: The international Dog10K project aims to sequence and analyze several thousand canine genomes. Incorporating 20 × data from 1987 individuals, including 1611 dogs (321 breeds), 309 village dogs, 63 wolves, and...
BamQuery: a proteogenomic tool to explore the immunopeptidome and prioritize actionable tumor antigens [0.03%]
BamQuery：一种用于探索免疫肽组并优先处理可操作肿瘤抗原的蛋白质基因组工具
Maria Virginia Ruiz Cuevas,Marie-Pierre Hardy,Jean-David Larouche et al.
Maria Virginia Ruiz Cuevas et al.
MHC-I-associated peptides deriving from non-coding genomic regions and mutations can generate tumor-specific antigens, including neoantigens. Quantifying tumor-specific antigens' RNA expression in malignant and benign tissues is critical fo...