Multi-omics analysis dissects the genetic architecture of seed coat content in Brassica napus [0.03%]
多组学分析解剖了油菜种子表皮含量的遗传结构
Yuting Zhang,Hui Zhang,Hu Zhao et al.
Yuting Zhang et al.
Background: Brassica napus is an important vegetable oil source worldwide. Seed coat content is a complex quantitative trait that negatively correlates with the seed oil content in B. napus. ...
Statistical and machine learning methods for spatially resolved transcriptomics data analysis [0.03%]
空间分辩转录组学数据分析的统计与机器学习方法
Zexian Zeng,Yawei Li,Yiming Li et al.
Zexian Zeng et al.
The recent advancement in spatial transcriptomics technology has enabled multiplexed profiling of cellular transcriptomes and spatial locations. As the capacity and efficiency of the experimental technologies continue to improve, there is a...
Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data [0.03%]
利用Hi-C数据对Nanopore和HiFi组装中相位准确性的基准测试的二倍子单倍型物理分离
Hongyu Duan,Ashley W Jones,Tim Hewitt et al.
Hongyu Duan et al.
Background: Most animals and plants have more than one set of chromosomes and package these haplotypes into a single nucleus within each cell. In contrast, many fungal species carry multiple haploid nuclei per cell. Rust ...
scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data [0.03%]
scINSIGHT：用于解释生物异质性数据的单细胞基因表达的解读工具
Kun Qian,Shiwei Fu,Hongwei Li et al.
Kun Qian et al.
The increasing number of scRNA-seq data emphasizes the need for integrative analysis to interpret similarities and differences between single-cell samples. Although different batch effect removal methods have been developed, none are suitab...
CUT&Tag2for1: a modified method for simultaneous profiling of the accessible and silenced regulome in single cells [0.03%]
单细胞染色质可及性和沉默转录组的同时谱分析的改进方法Cut&Tag2for1
Derek H Janssens,Dominik J Otto,Michael P Meers et al.
Derek H Janssens et al.
Cleavage Under Targets and Tagmentation (CUT&Tag) is an antibody-directed transposase tethering strategy for in situ chromatin profiling in small samples and single cells. We describe a modified CUT&Tag protocol using a mixture of an antibo...
Target-oriented prioritization: targeted selection strategy by integrating organismal and molecular traits through predictive analytics in breeding [0.03%]
以育种目标为导向的优先选择策略：通过预测分析整合生物体和分子性状的目标选择方法
Wenyu Yang,Tingting Guo,Jingyun Luo et al.
Wenyu Yang et al.
Genomic prediction in crop breeding is hindered by modeling on limited phenotypic traits. We propose an integrative multi-trait breeding strategy via machine learning algorithm, target-oriented prioritization (TOP). Using a large hybrid mai...
Exaggerated false positives by popular differential expression methods when analyzing human population samples [0.03%]
流行差异表达方法分析人类群体样本时虚阳性过高的问题
Yumei Li,Xinzhou Ge,Fanglue Peng et al.
Yumei Li et al.
When identifying differentially expressed genes between two conditions using human population RNA-seq samples, we found a phenomenon by permutation analysis: two popular bioinformatics methods, DESeq2 and edgeR, have unexpectedly high false...
Heterotypic transcriptional condensates formed by prion-like paralogous proteins canalize flowering transition in tomato [0.03%]
类朊病毒同源蛋白通过异质转录凝聚体调控番茄开花转换
Xiaozhen Huang,Nan Xiao,Yupan Zou et al.
Xiaozhen Huang et al.
Background: Paralogs that arise from gene duplications during genome evolution enable genetic redundancy and phenotypic robustness. Variation in the coding or regulatory sequence of paralogous transcriptional regulators d...
DNA demethylation affects imprinted gene expression in maize endosperm [0.03%]
DNA去甲基化影响玉米胚乳中印记基因的表达
Qiang Xu,Leiming Wu,Zhixiang Luo et al.
Qiang Xu et al.
Background: DNA demethylation occurs in many species and is involved in diverse biological processes. However, the occurrence and role of DNA demethylation in maize remain unknown. ...
Author Correction: Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline [0.03%]
作者更正：为创建简化的全面流水线对转座元件注释方法进行基准测试
Shujun Ou,Weijia Su,Yi Liao et al.
Shujun Ou et al.
Published Erratum
Genome biology. 2022 Mar 8;23(1):76. DOI:10.1186/s13059-022-02645-7 2022