A brief history of protein sorting prediction

H Nielsen, KD Tsirigos, S Brunak, G von Heijne - The protein journal, 2019 - Springer
Ever since the signal hypothesis was proposed in 1971, the exact nature of signal peptides
has been a focus point of research. The prediction of signal peptides and protein subcellular …

DeepTMHMM predicts alpha and beta transmembrane proteins using deep neural networks

J Hallgren, KD Tsirigos, MD Pedersen… - BioRxiv, 2022 - biorxiv.org
Transmembrane proteins span the lipid bilayer and are divided into two major structural
classes, namely alpha helical and beta barrels. We introduce DeepTMHMM, a deep …

Should I stay or should I go? Trafficking of plant extra-nuclear transcription factors

S Marathe, E Grotewold, MS Otegui - The Plant Cell, 2024 - academic.oup.com
At the heart of all biological processes lies the control of nuclear gene expression, which is
primarily achieved through the action of transcription factors (TFs) that generally contain a …

[HTML][HTML] Characterization of size-tuneable aescin-lipid nanoparticles as platform for stabilization of membrane proteins

F Escobedo, M Gospalswamy, P Hägerbäumer… - Colloids and Surfaces B …, 2024 - Elsevier
Disc-like lipid nanoparticles stabilized by saponin biosurfactants display fascinating
properties, including their temperature-driven re-organization. β-Aescin, a saponin from …

[HTML][HTML] Intestinal OCTN2-and MCT1-targeted drug delivery to improve oral bioavailability

G Wang, L Zhao, Y Sun, D Zhao, M Sun, Z He… - Asian journal of …, 2020 - Elsevier
Various drug transporters are widely expressed throughout the intestine and play important
roles in absorbing nutrients and drugs, thus providing high quality targets for the design of …

[HTML][HTML] Machine learning in computational modelling of membrane protein sequences and structures: From methodologies to applications

J Sun, A Kulandaisamy, J Liu, K Hu… - Computational and …, 2023 - Elsevier
Membrane proteins mediate a wide spectrum of biological processes, such as signal
transduction and cell communication. Due to the arduous and costly nature inherent to the …

Transmembrane proteins—Different anchoring systems

I Roterman, K Stapor… - … : Structure, Function, and …, 2024 - Wiley Online Library
Transmembrane proteins are active in amphipathic environments. To stabilize the protein in
such surrounding the exposure of hydrophobic residues on the protein surface is required …

A novel bioinformatics pipeline for the identification of immune inhibitory receptors as potential therapeutic targets

A Singh, AM Bedate, HJ Von Richthofen, SV Vijver… - Elife, 2024 - elifesciences.org
Despite major successes with inhibitory receptor blockade in cancer, the identification of
novel inhibitory receptors as putative drug targets is needed due to lack of durable …

Integrative approach for detecting membrane proteins

M Alballa, G Butler - BMC bioinformatics, 2020 - Springer
Background Membrane proteins are key gates that control various vital cellular functions.
Membrane proteins are often detected using transmembrane topology prediction tools …

Membrane models for molecular simulations of peripheral membrane proteins

M Moqadam, T Tubiana, EE Moutoussamy… - … in Physics: X, 2021 - Taylor & Francis
Peripheral membrane proteins (PMPs) bind temporarily to the surface of biological
membranes. They also exist in a soluble form and their tertiary structure is often known. Yet …