Review on COVID‐19 diagnosis models based on machine learning and deep learning approaches

ZAA Alyasseri, MA Al‐Betar, IA Doush… - Expert …, 2022 - Wiley Online Library
COVID‐19 is the disease evoked by a new breed of coronavirus called the severe acute
respiratory syndrome coronavirus 2 (SARS‐CoV‐2). Recently, COVID‐19 has become a …

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

M Wang, JJ Carver, VV Phelan, LM Sanchez… - Nature …, 2016 - nature.com
The potential of the diverse chemistries present in natural products (NP) for biotechnology
and medicine remains untapped because NP databases are not searchable with raw data …

Large language models generate functional protein sequences across diverse families

A Madani, B Krause, ER Greene, S Subramanian… - Nature …, 2023 - nature.com
Deep-learning language models have shown promise in various biotechnological
applications, including protein design and engineering. Here we describe ProGen, a …

CAMPR4: a database of natural and synthetic antimicrobial peptides

U Gawde, S Chakraborty, FH Waghu… - Nucleic Acids …, 2023 - academic.oup.com
There has been an exponential increase in the design of synthetic antimicrobial peptides
(AMPs) for its use as novel antibiotics. Synthetic AMPs are substantially enriched in residues …

High-throughput total RNA sequencing in single cells using VASA-seq

F Salmen, J De Jonghe, TS Kaminski, A Alemany… - Nature …, 2022 - nature.com
Most methods for single-cell transcriptome sequencing amplify the termini of polyadenylated
transcripts, capturing only a small fraction of the total cellular transcriptome. This precludes …

[HTML][HTML] Soluble ACE2-mediated cell entry of SARS-CoV-2 via interaction with proteins related to the renin-angiotensin system

ML Yeung, JLL Teng, L Jia, C Zhang, C Huang, JP Cai… - Cell, 2021 - cell.com
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) can cause acute
respiratory disease and multiorgan failure. Finding human host factors that are essential for …

A genome-wide transcriptomic analysis of protein-coding genes in human blood cells

M Uhlen, MJ Karlsson, W Zhong, A Tebani, C Pou… - Science, 2019 - science.org
INTRODUCTION Blood is the predominant source for molecular analyses in humans, both in
clinical and research settings, and is the target for many therapeutic strategies, emphasizing …

Progen: Language modeling for protein generation

A Madani, B McCann, N Naik, NS Keskar… - arxiv preprint arxiv …, 2020 - arxiv.org
Generative modeling for protein engineering is key to solving fundamental problems in
synthetic biology, medicine, and material science. We pose protein engineering as an …

Clustering huge protein sequence sets in linear time

M Steinegger, J Söding - Nature communications, 2018 - nature.com
Metagenomic datasets contain billions of protein sequences that could greatly enhance
large-scale functional annotation and structure prediction. Utilizing this enormous resource …

The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins

AD Rouillard, GW Gundersen, NF Fernandez… - Database, 2016 - academic.oup.com
Genomics, epigenomics, transcriptomics, proteomics and metabolomics efforts rapidly
generate a plethora of data on the activity and levels of biomolecules within mammalian …