Proteomics beyond trypsin

L Tsiatsiani, AJR Heck - The FEBS journal, 2015 - Wiley Online Library
Peptide‐centered shotgun analysis of proteins has been the core technology in mass
spectrometry based proteomics and has enabled numerous biological discoveries, such as …

Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification

O Schwengers, L Jelonek… - Microbial …, 2021 - microbiologyresearch.org
Command-line annotation software tools have continuously gained popularity compared to
centralized online services due to the worldwide increase of sequenced bacterial genomes …

[HTML][HTML] Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma

KA Lee, AM Thomas, LA Bolte, JR Björk… - Nature medicine, 2022 - nature.com
The composition of the gut microbiome has been associated with clinical responses to
immune checkpoint inhibitor (ICI) treatment, but there is limited consensus on the specific …

On the mechanism of tissue-specific mRNA delivery by selective organ targeting nanoparticles

SA Dilliard, Q Cheng… - Proceedings of the …, 2021 - National Acad Sciences
Lipid nanoparticles (LNPs) are a clinically mature technology for the delivery of genetic
medicines but have limited therapeutic applications due to liver accumulation. Recently, our …

Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users

S Duvaud, C Gabella, F Lisacek… - Nucleic Acids …, 2021 - academic.oup.com
Abstract The SIB Swiss Institute of Bioinformatics (https://www. sib. swiss) creates, maintains
and disseminates a portfolio of reliable and state-of-the-art bioinformatics services and …

The PSIPRED protein analysis workbench: 20 years on

DWA Buchan, DT Jones - Nucleic acids research, 2019 - academic.oup.com
The PSIPRED Workbench is a web server offering a range of predictive methods to the
bioscience community for 20 years. Here, we present the work we have completed to update …

[HTML][HTML] The cellosaurus, a cell-line knowledge resource

A Bairoch - Journal of biomolecular techniques: JBT, 2018 - ncbi.nlm.nih.gov
The Cellosaurus is a knowledge resource on cell lines. It aims to describe all cell lines used
in biomedical research. Its scope encompasses both vertebrates and invertebrates …

[PDF][PDF] Sequence determinants of intracellular phase separation by complex coacervation of a disordered protein

CW Pak, M Kosno, AS Holehouse, SB Padrick, A Mittal… - Molecular cell, 2016 - cell.com
Liquid-liquid phase separation, driven by collective interactions among multivalent and
intrinsically disordered proteins, is thought to mediate the formation of membrane-less …

Matrix stiffness drives epithelial–mesenchymal transition and tumour metastasis through a TWIST1–G3BP2 mechanotransduction pathway

SC Wei, L Fattet, JH Tsai, Y Guo, VH Pai… - Nature cell …, 2015 - nature.com
Matrix stiffness potently regulates cellular behaviour in various biological contexts. In breast
tumours, the presence of dense clusters of collagen fibrils indicates increased matrix …

[HTML][HTML] Unblending of transcriptional condensates in human repeat expansion disease

S Basu, SD Mackowiak, H Niskanen, D Knezevic… - Cell, 2020 - Elsevier
Expansions of amino acid repeats occur in> 20 inherited human disorders, and many occur
in intrinsically disordered regions (IDRs) of transcription factors (TFs). Such diseases are …