GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation [0.03%]
GET_PANGENES：从植物基因组比对中调用基因组以确认存在性-缺失变异
Bruno Contreras-Moreira,Shradha Saraf,Guy Naamati et al.
Bruno Contreras-Moreira et al.
Crop pangenomes made from individual cultivar assemblies promise easy access to conserved genes, but genome content variability and inconsistent identifiers hamper their exploration. To address this, we define pangenes, which summarize a sp...
CEGA: a method for inferring natural selection by comparative population genomic analysis across species [0.03%]
CEGA：通过比较种群基因组分析来推断自然选择的方法
Shilei Zhao,Lianjiang Chi,Hua Chen
Shilei Zhao
We developed maximum likelihood method for detecting positive selection or balancing selection using multilocus or genomic polymorphism and divergence data from two species. The method is especially useful for investigating natural selectio...
Hiram Clawson,Brian T Lee,Brian J Raney et al.
Hiram Clawson et al.
Interactive graphical genome browsers are essential tools in genomics, but they do not contain all the recent genome assemblies. We create Genome Archive (GenArk) collection of UCSC Genome Browsers from NCBI assemblies. Built on our establi...
MBE: model-based enrichment estimation and prediction for differential sequencing data [0.03%]
基于模型的差分测序数据的富集估计和预测算法研究(MBE)
Akosua Busia,Jennifer Listgarten
Akosua Busia
Characterizing differences in sequences between two conditions, such as with and without drug exposure, using high-throughput sequencing data is a prevalent problem involving quantifying changes in sequence abundances, and predicting such d...
Dominance is common in mammals and is associated with trans-acting gene expression and alternative splicing [0.03%]
优势支配在哺乳动物中普遍存在，并与反式作用的基因表达和选择性拼接相关
Leilei Cui,Bin Yang,Shijun Xiao et al.
Leilei Cui et al.
Background: Dominance and other non-additive genetic effects arise from the interaction between alleles, and historically these phenomena play a major role in quantitative genetics. However, most genome-wide association s...
A loss-of-function mutation in human Oxidation Resistance 1 disrupts the spatial-temporal regulation of histone arginine methylation in neurodevelopment [0.03%]
人类Oxidation Resistance 1功能丧失突变破坏神经发育组蛋白精氨酸甲基化的时空调节
Xiaolin Lin,Wei Wang,Mingyi Yang et al.
Xiaolin Lin et al.
Background: Oxidation Resistance 1 (OXR1) gene is a highly conserved gene of the TLDc domain-containing family. OXR1 is involved in fundamental biological and cellular processes, including DNA damage response, antioxidant...
Pauline Trinh,David S Clausen,Amy D Willis
Pauline Trinh
Recovering metagenome-assembled genomes (MAGs) from shotgun sequencing data is an increasingly common task in microbiome studies, as MAGs provide deeper insight into the functional potential of both culturable and non-culturable microorgani...
Ruslan Deviatiiarov,Hiroki Nagai,Galym Ismagulov et al.
Ruslan Deviatiiarov et al.
In birds, sex is genetically determined; however, the molecular mechanism is not well-understood. The avian Z sex chromosome (chrZ) lacks whole chromosome inactivation, in contrast to the mammalian chrX. To investigate chrZ dosage compensat...
DISCERN: deep single-cell expression reconstruction for improved cell clustering and cell subtype and state detection [0.03%]
DISCERN：改进细胞聚类及细胞亚型和状态检测的深度单细胞转录组表达重构技术
Fabian Hausmann,Can Ergen,Robin Khatri et al.
Fabian Hausmann et al.
Background: Single-cell sequencing provides detailed insights into biological processes including cell differentiation and identity. While providing deep cell-specific information, the method suffers from technical constr...
Author Correction: Single-cell resolution analysis reveals the preparation for reprogramming the fate of stem cell niche in cotton lateral meristem [0.03%]
作者更正：单细胞分辨率分析揭示了棉花侧分生组织干细胞巢重塑的命运准备
Xiangqian Zhu,Zhongping Xu,Guanying Wang et al.
Xiangqian Zhu et al.
Published Erratum
Genome biology. 2023 Sep 18;24(1):210. DOI:10.1186/s13059-023-03051-3 2023