Innovations in improving lipid production: Algal chemical genetics

N Wase, P Black, C DiRusso - Progress in lipid research, 2018 - Elsevier
Perturbation of a biological system with small molecules to achieve a desired phenotype or
activity is commonly referred as chemical genetics. In pharmaceutical discovery, this …

Large-scale modeling of sparse protein kinase activity data

S Luukkonen, E Meijer, GA Tricarico… - Journal of Chemical …, 2023 - ACS Publications
Protein kinases are a protein family that plays an important role in several complex diseases
such as cancer and cardiovascular and immunological diseases. Protein kinases have …

Effect of missing data on multitask prediction methods

A de la Vega de León, B Chen, VJ Gillet - Journal of cheminformatics, 2018 - Springer
There has been a growing interest in multitask prediction in chemoinformatics, helped by the
increasing use of deep neural networks in this field. This technique is applied to multitarget …

signatureSearch: environment for gene expression signature searching and functional interpretation

Y Duan, DS Evans, RA Miller, NJ Schork… - Nucleic acids …, 2020 - academic.oup.com
Abstract signatureSearch is an R/Bioconductor package that integrates a suite of existing
and novel algorithms into an analysis environment for gene expression signature (GES) …

Big data in computational toxicology: challenges and opportunities

L Zhao, H Zhu - Computational Toxicology: Risk Assessment …, 2018 - Wiley Online Library
This chapter describes the volume and velocity of the data‐driven research for toxicology
have been well recognized by multiple screening and data‐sharing projects. It describes the …

High-throughput small molecule screening reveals Nrf2-dependent and-independent pathways of cellular stress resistance

DB Lombard, WJ Kohler, AH Guo, C Gendron… - Science …, 2020 - science.org
Aging is the dominant risk factor for most chronic diseases. Development of antiaging
interventions offers the promise of preventing many such illnesses simultaneously. Cellular …

BioMedR: an R/CRAN package for integrated data analysis pipeline in biomedical study

J Dong, MF Zhu, YH Yun, AP Lu, TJ Hou… - Briefings in …, 2021 - academic.oup.com
Background With the increasing development of biotechnology and information technology,
publicly available data in chemistry and biology are undergoing explosive growth. Such …

Knockdown of the ribosomal protein eL38 in HEK293 cells changes the translational efficiency of specific genes

AV Gopanenko, AV Kolobova, AE Tupikin… - International journal of …, 2021 - mdpi.com
The protein eL38 is one of the smallest proteins of the mammalian ribosome, which is a
component of its large (60S) subunit. The haploinsufficiency of eL38 in mice leads to the Tail …

CSgator: an integrated web platform for compound set analysis

S Park, Y Kwon, H Jung, S Jang, H Lee… - Journal of Cheminformatics, 2019 - Springer
Drug discovery typically involves investigation of a set of compounds (eg drug screening
hits) in terms of target, disease, and bioactivity. CSgator is a comprehensive analytic tool for …

Large-scale bioactivity analysis of the small-molecule assayed proteome

TWH Backman, DS Evans, T Girke - Plos one, 2017 - journals.plos.org
This study presents an analysis of the small molecule bioactivity profiles across large
quantities of diverse protein families represented in PubChem BioAssay. We compared the …