Machine learning approach to gene essentiality prediction: a review
O Aromolaran, D Aromolaran, I Isewon… - Briefings in …, 2021 - academic.oup.com
Essential genes are critical for the growth and survival of any organism. The machine
learning approach complements the experimental methods to minimize the resources …
learning approach complements the experimental methods to minimize the resources …
Recent advances in non-model bacterial chassis construction
The development of bacterial chassis to increase productivity and reduce industrial costs in
value-added biochemical production has gained significant attention. Current efforts have …
value-added biochemical production has gained significant attention. Current efforts have …
Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica
Genome-wide functional genetic screens have been successful in discovering genotype-
phenotype relationships and in engineering new phenotypes. While broadly applied in …
phenotype relationships and in engineering new phenotypes. While broadly applied in …
A computational framework based on ensemble deep neural networks for essential genes identification
Essential genes contain key information of genomes that could be the key to a
comprehensive understanding of life and evolution. Because of their importance, studies of …
comprehensive understanding of life and evolution. Because of their importance, studies of …
[HTML][HTML] Genome engineering on size reduction and complexity simplification: a review
XR Chen, YZ Cui, BZ Li, YJ Yuan - Journal of Advanced Research, 2024 - Elsevier
Background Genome simplification is an important topic in the field of life sciences that has
attracted attention from its conception to the present day. It can help uncover the essential …
attracted attention from its conception to the present day. It can help uncover the essential …
Bacterial genome reductions: Tools, applications, and challenges
N LeBlanc, TC Charles - Frontiers in Genome Editing, 2022 - frontiersin.org
Bacterial cells are widely used to produce value-added products due to their versatility, ease
of manipulation, and the abundance of genome engineering tools. However, the efficiency of …
of manipulation, and the abundance of genome engineering tools. However, the efficiency of …
DeepCellEss: cell line-specific essential protein prediction with attention-based interpretable deep learning
Motivation Protein essentiality is usually accepted to be a conditional trait and strongly
affected by cellular environments. However, existing computational methods often do not …
affected by cellular environments. However, existing computational methods often do not …
DeepHE: Accurately predicting human essential genes based on deep learning
Accurately predicting essential genes using computational methods can greatly reduce the
effort in finding them via wet experiments at both time and resource scales, and further …
effort in finding them via wet experiments at both time and resource scales, and further …
Reduction-to-synthesis: the dominant approach to genome-scale synthetic biology
Advances in systems and synthetic biology have propelled the construction of reduced
bacterial genomes. Genome reduction was initially focused on exploring properties of …
bacterial genomes. Genome reduction was initially focused on exploring properties of …
An unsupervised deep learning framework for predicting human essential genes from population and functional genomic data
TM LaPolice, YF Huang - BMC bioinformatics, 2023 - Springer
Background The ability to accurately predict essential genes intolerant to loss-of-function
(LOF) mutations can dramatically improve the identification of disease-associated genes …
(LOF) mutations can dramatically improve the identification of disease-associated genes …