Rapid protein stability prediction using deep learning representations

LM Blaabjerg, MM Kassem, LL Good, N Jonsson… - Elife, 2023 - elifesciences.org
Predicting the thermodynamic stability of proteins is a common and widely used step in
protein engineering, and when elucidating the molecular mechanisms behind evolution and …

Splice modulators target PMS1 to reduce somatic expansion of the Huntington's disease-associated CAG repeat

ZL McLean, D Gao, K Correia, JCL Roy… - Nature …, 2024 - nature.com
Huntington's disease (HD) is a dominant neurological disorder caused by an expanded HTT
exon 1 CAG repeat that lengthens huntingtin's polyglutamine tract. Lowering mutant …

The intersection of homologous recombination (HR) and mismatch repair (MMR) pathways in DNA repair-defective tumors

L Incorvaia, TD Bazan Russo, V Gristina… - NPJ Precision …, 2024 - nature.com
Homologous recombination (HR) and mismatch repair (MMR) defects are driver mutational
imprints and actionable biomarkers in DNA repair-defective tumors. Although usually …

Deep mutational scanning reveals a correlation between degradation and toxicity of thousands of aspartoacylase variants

M Grønbæk-Thygesen, V Voutsinos… - Nature …, 2024 - nature.com
Unstable proteins are prone to form non-native interactions with other proteins and thereby
may become toxic. To mitigate this, destabilized proteins are targeted by the protein quality …

[PDF][PDF] Microsatellite instability and mismatch repair protein deficiency: equal predictive markers?

ML Nádorvári, G Lotz, J Kulka, A Kiss… - Pathology and Oncology …, 2024 - por-journal.com
MMR deficiency (dMMR), and the resultant microsatellite instability (MSI), is one of the most
frequent genetic alterations of the DNA repair systems of cancer. It is most prevalent in the …

Expert-guided protein language models enable accurate and blazingly fast fitness prediction

C Marquet, J Schlensok, M Abakarova, B Rost… - …, 2024 - academic.oup.com
Motivation Exhaustive experimental annotation of the effect of all known protein variants
remains daunting and expensive, stressing the need for scalable effect predictions. We …

Alignment-based protein mutational landscape prediction: doing more with less

M Abakarova, C Marquet, M Rera… - Genome Biology and …, 2023 - academic.oup.com
The wealth of genomic data has boosted the development of computational methods
predicting the phenotypic outcomes of missense variants. The most accurate ones exploit …

[HTML][HTML] Hereditary colorectal Cancer syndromes and inflammatory bowel diseases: risk management and surveillance strategies

L Brandaleone, A Dal Buono, R Gabbiadini… - Cancers, 2024 - mdpi.com
Simple Summary Hereditary colorectal cancer syndromes (HCCS) and inflammatory bowel
disease (IBD) carry a high risk of develo** colorectal cancer (CRC). The co-occurrence of …

Insights from the protein interaction Universe of the multifunctional “Goldilocks” kinase DYRK1A

V Ananthapadmanabhan, KH Shows… - Frontiers in Cell and …, 2023 - frontiersin.org
Human Dual specificity tyrosine (Y)-Regulated Kinase 1A (DYRK1A) is encoded by a
dosage-dependent gene located in the Down syndrome critical region of human …

Comparison of standard mismatch repair deficiency and microsatellite instability tests in a large cancer series

ML Nádorvári, I Kenessey, A Kiss, T Barbai… - Journal of Translational …, 2024 - Springer
Background The tumor-agnostic indication of immune checkpoint inhibitors to treat cancers
with mismatch repair deficiency (dMMR)/microsatellite instability (MSI) increased the …