9. Jin S, Zhang L, Nie Q: scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profiles.Genome Biol2020, 21:25. 10. Gong B, Zhou Y, Purdom E: Cobolt: ...
然后把每个基因组单独比对回图基因组,可以判断图基因组中节点是否被覆盖,如果所有基因组都覆盖这个节点,这个节点就是核心基因组的一部分,否则就是可变基因组 这里需要理解一下gfa格式的文件 论文提供了分析流程用到的代码,我们用拟南芥的数据试试,拟南芥的论文 Chromosome-level assemblies of multiple Arabidopsis genome...
The 3D structure and expression changes of multiple myeloma-related genes.aGene pathway enrichment analysis for the switched on/off genes. Switched on genes are defined when their genomic compartment changed from B to A in both MM cell lines (compared with GM12878). Switched off genes are defin...
Tettelin H, Masignani V, Cieslewicz MJ, Donati C, Medini D, Ward NL, Angiuoli SV, Crabtree J, Jones AL, Durkin AS, et al: Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome". Proc Natl Acad Sci USA. 2005, 102: 13950...
of BIAs inT. cordifolia, two genes, Tyrosine decarboxylase (TYDC) and Canadine synthase (CAS), showed multiple signatures of adaptive evolution. Additionally, tyrosine aminotransferase (TAT) showed unique amino acid substitutions inT. cordifolia. The analysis of orthologous genes found seven genes (4...
近日,美国弗雷德里克国家癌症研究实验室、洛马琳达大学基因组学研究中心等机构的研究人员合作在Genome Biology上发表了题为“Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies”的研究文章。研究团队通过多种NGS平台系统地研究了参考癌症细胞系中的体细胞SV,并将其与...
Unified sequence-based association tests allowing for multiple functional annotations and meta-analysis of noncoding variation in Metabochip data. Am. J. Hum. Genet. 101, 340–352 (2017). Article CAS PubMed PubMed Central Google Scholar Ma, Y. & Wei, P. FunSPU: a versatile and adaptive...
Comparative analysis was conducted using the genomes of multiple members of all four L. pneumophila subspecies. Whereas each subspecies forms a distinct phylogenetic clade within the L. pneumophila species, they share more average nucleotide identity with each other than with other Legionella species. ...
Analysis of the RNA-seq data RNA-seq数据的实际分析因其应用场景的不同而存在着各种不同的方法。在本节中,我们介绍了典型RNA-seq实验的所有主要分析步骤,包括质量控制、有/无参考基因组的读序比对、基因和转录本表达度测量指标的获取以及差异基因表达的检测方法。我们还讨论了RNA-seq在可变剪接、融合转录本和小...
3. Jeffrey T. Leek and John D. Storey. Capturing heterogeneity in gene expression studies by surrogate variable analysis.PLoS Genetics, 3(9):e161, 2007. 4. Jefferey T. Leek and John D. Storey. A general framework for...