MVP predicts the pathogenicity of missense variants by deep learning

H Qi, H Zhang, Y Zhao, C Chen, JJ Long… - Nature …, 2021 - nature.com
Accurate pathogenicity prediction of missense variants is critically important in genetic
studies and clinical diagnosis. Previously published prediction methods have facilitated the …

Deep-Kcr: accurate detection of lysine crotonylation sites using deep learning method

H Lv, FY Dao, ZX Guan, H Yang, YW Li… - Briefings in …, 2021 - academic.oup.com
As a newly discovered protein posttranslational modification, histone lysine crotonylation
(Kcr) involved in cellular regulation and human diseases. Various proteomics technologies …

Using proteomic and transcriptomic data to assess activation of intracellular molecular pathways

A Buzdin, V Tkachev, M Zolotovskaia, A Garazha… - Advances in protein …, 2021 - Elsevier
Abstract Analysis of molecular pathway activation is the recent instrument that helps to
quantize activities of various intracellular signaling, structural, DNA synthesis and repair …

An update on MRMAssayDB: a comprehensive resource for targeted proteomics assays in the community

P Bhowmick, S Roome, CH Borchers… - Journal of Proteome …, 2021 - ACS Publications
Precise multiplexed quantification of proteins in biological samples can be achieved by
targeted proteomics using multiple or parallel reaction monitoring (MRM/PRM). Combined …

[HTML][HTML] Type IV collagen variants in CKD: performance of computational predictions for identifying pathogenic variants

C Shulman, E Liang, M Kamura, K Udwan, T Yao… - Kidney Medicine, 2021 - Elsevier
Rationale & Objective Pathogenic variants in type IV collagen have been reported to
account for a significant proportion of chronic kidney disease. Accordingly, genetic testing is …

Contribution of structural accessibility to the cooperative relationship of TF-lncRNA in myopia

H Wang, J Li, S Wang, X Lu, G Zhang… - Briefings in …, 2021 - academic.oup.com
Transcriptional regulation is associated with complicated mechanisms including multiple
molecular interactions and collaborative drive. Long noncoding RNAs (lncRNAs) have …

Data types and resources

SK Ashenden, S Deswal, KC Bulusu, A Bartosik… - The Era of Artificial …, 2021 - Elsevier
Recent innovation in the field of machine learning has been enabled by the confluence of
three advances: rapid expansion of affordable computing power in the form of cloud …

[PDF][PDF] iEC7871 quercus suber model: the first multi-tissue diel cycle genome-scale metabolic model of a woody tree

E Cunha, M Silva, I Chaves, H Demirci, D Lagoa… - bioRxiv, 2021 - scholar.archive.org
In the last decade, genome-scale metabolic models have been increasingly used to study
plant metabolic behaviour at the tissue and multi-tissue level in different environmental …

Homology modeling of CYP6Z3 protein of Anopheles mosquito

M Adebiyi, O Olugbara - Advances in Science, Technology and …, 2021 - eprints.lmu.edu.ng
The Anopheles gambiae's CYP6Z3 protein belongs to the Cytochrome P450 family and
functions in oxidation-reduction processes, many studies including our previous work on …

Genetic variant effect prediction by supervised nonnegative matrix tri-factorization

AA Arani, M Sehhati, MA Tabatabaiefar - Molecular Omics, 2021 - pubs.rsc.org
Discriminating between deleterious and neutral mutations among numerous non-
synonymous single nucleotide variants (nsSNVs) that may be observed through whole …