Improvement of the common bean means possessing in-depth knowledge of its genetic diversity, the genome and gene functions, to enable the analysis of pathways and networks in response to fluctuating environmental conditions. An important long-term challenge is the discovery of the gene(s) that ...
This systematic review and its conceptual framework will no doubt be of great help to genomics researchers who want to navigate the difficult literature at the intersection of deep learning and genomics. As a deep learning researcher originally trained in biology, I benefited from exposure to several...
This Perspective discusses the methodologies, application and evaluation of interpretable machine learning (IML) approaches in computational biology, with particular focus on common pitfalls when using IML and how to avoid them. Valerie Chen , Muyu Yang & Jian Ma Article 31 July 2024 | Open Acce...
In this Tools of the Trade article, Yan Hu explains the development and application of PRINT and seq2PRINT, computational tools that together use single-cell ATAC-seq data to predict protein binding dynamics at detailed cellular resolution. ...
Zhang J, Wu K, Zeng S, Teixeira da Silva JA, Zhao X, Tian C-E, Xia H, Duan J (2013) Transcriptome analysis of Cymbidium sinense and its application to the identification of genes associated with floral development. BMC Genomics 14:279 Article PubMed PubMed Central CAS Google Scholar ...
Peanut is the major oil crop in the world.Peanut genomics research is very challenging due to its inherent problem of genetic features.Peanut breeding has been inhibited by low available genetic diversity of peanut materials,caused by multiple factors such as self-pollination and hybrid incompatibility...
BMC Genomicsis part of theBMCseries which publishes subject-specific journals focused on the needs of individual research communities acrossall scientific and clinical disciplines.We do not make editorial decisions on the basis of the interest of a study or its likely impact. Studies must be scienti...
To extend the application of our framework, we developed a user-friendly program: Genomics and Epigenetic Guided Safe Harbor mapper (GEG-SH mapper, https://github.com/dewshr/GEG-SH). To use the program, a user first provides a list of genomic variants with genomic coordinates and optional ...
The development and application of next-generation sequencing (NGS) technology and high-density SNP chips, as well as advanced statistical methods and bio-informatics tools have substantially improved the ability to detect genomic selected regions in livestock and poultry breeds. Selective signal detection...
DETECT—a density estimation tool for enzyme classification and its application to Plasmodium falciparum. Bioinformatics 26, 1690–1698 (2010). Article CAS PubMed Google Scholar Claudel-Renard, C., Chevalet, C., Faraut, T. & Kahn, D. Enzyme-specific profiles for genome annotation: PRIAM. ...