Multiomics and spatial mapping characterizes human CD8+ T cell states in cancer

S Naulaerts, A Datsi, DM Borras… - Science Translational …, 2023 - science.org
Clinically relevant immunological biomarkers that discriminate between diverse
hypofunctional states of tumor-associated CD8+ T cells remain disputed. Using multiomics …

Single cell dynamics of tumor specificity vs bystander activity in CD8+ T cells define the diverse immune landscapes in colorectal cancer

DM Borràs, S Verbandt, M Ausserhofer, G Sturm, J Lim… - Cell Discovery, 2023 - nature.com
CD8+ T cell activation via immune checkpoint blockade (ICB) is successful in microsatellite
instable (MSI) colorectal cancer (CRC) patients. By comparison, the success of …

[HTML][HTML] Immunotoxic, genotoxic, and endocrine disrupting impacts of polyamide microplastic particles and chemicals

A Alijagic, O Kotlyar, M Larsson, S Salihovic… - Environment …, 2024 - Elsevier
Due to their exceptional properties and cost effectiveness, polyamides or nylons have
emerged as widely used materials, revolutionizing diverse industries, including industrial 3D …

[HTML][HTML] Perspectives for better batch effect correction in mass-spectrometry-based proteomics

SX Phua, KP Lim, WWB Goh - Computational and Structural Biotechnology …, 2022 - Elsevier
Mass-spectrometry-based proteomics presents some unique challenges for batch effect
correction. Batch effects are technical sources of variation, can confound analysis and …

Predicting patient response with models trained on cell lines and patient-derived xenografts by nonlinear transfer learning

SMC Mourragui, M Loog, DJ Vis… - Proceedings of the …, 2021 - National Acad Sciences
Preclinical models have been the workhorse of cancer research, producing massive
amounts of drug response data. Unfortunately, translating response biomarkers derived from …

Leveraging protein language models for accurate multiple sequence alignments

CD McWhite, I Armour-Garb, M Singh - Genome Research, 2023 - genome.cshlp.org
Multiple sequence alignment (MSA) is a critical step in the study of protein sequence and
function. Typically, MSA algorithms progressively align pairs of sequences and combine …

A novel nanosafety approach using cell painting, metabolomics, and lipidomics captures the cellular and molecular phenotypes induced by the unintentionally formed …

A Alijagic, N Scherbak, O Kotlyar, P Karlsson, X Wang… - Cells, 2023 - mdpi.com
Additive manufacturing (AM) or industrial 3D printing uses cutting-edge technologies and
materials to produce a variety of complex products. However, the effects of the …

Hemin-induced death models hemorrhagic stroke and is a variant of classical neuronal ferroptosis

M Zille, JA Oses-Prieto, SR Savage… - Journal of …, 2022 - Soc Neuroscience
Ferroptosis is a caspase-independent, iron-dependent form of regulated necrosis extant in
traumatic brain injury, Huntington disease, and hemorrhagic stroke. It can be activated by …

A village in a dish model system for population-scale hiPSC studies

DR Neavin, AM Steinmann, N Farbehi, HS Chiu… - Nature …, 2023 - nature.com
The mechanisms by which DNA alleles contribute to disease risk, drug response, and other
human phenotypes are highly context-specific, varying across cell types and different …

Serotonin-2 Receptor Agonists Produce Anti-inflammatory Effects through Functionally Selective Mechanisms That Involve the Suppression of Disease-Induced …

TW Flanagan, TP Foster, TE Galbato… - ACS Pharmacology & …, 2024 - ACS Publications
Functional selectivity in the context of serotonin 2A (5-HT2A) receptor agonists is often
described as differences psychedelic compounds have in the activation of Gq vs β-arrestin …