mRNAs, proteins and the emerging principles of gene expression control
Gene expression involves transcription, translation and the turnover of mRNAs and proteins.
The degree to which protein abundances scale with mRNA levels and the implications in …
The degree to which protein abundances scale with mRNA levels and the implications in …
Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial
Many research questions in fields such as personalized medicine, drug screens or systems
biology depend on obtaining consistent and quantitatively accurate proteomics data from …
biology depend on obtaining consistent and quantitatively accurate proteomics data from …
[HTML][HTML] Pan-cancer proteomic map of 949 human cell lines
The proteome provides unique insights into disease biology beyond the genome and
transcriptome. A lack of large proteomic datasets has restricted the identification of new …
transcriptome. A lack of large proteomic datasets has restricted the identification of new …
[HTML][HTML] Quantitative proteomics of the cancer cell line encyclopedia
Proteins are essential agents of biological processes. To date, large-scale profiling of cell
line collections including the Cancer Cell Line Encyclopedia (CCLE) has focused primarily …
line collections including the Cancer Cell Line Encyclopedia (CCLE) has focused primarily …
Proteogenomics of non-smoking lung cancer in East Asia delineates molecular signatures of pathogenesis and progression
Summary Lung cancer in East Asia is characterized by a high percentage of never-smokers,
early onset and predominant EGFR mutations. To illuminate the molecular phenotype of this …
early onset and predominant EGFR mutations. To illuminate the molecular phenotype of this …
Drug ranking using machine learning systematically predicts the efficacy of anti-cancer drugs
H Gerdes, P Casado, A Dokal, M Hijazi… - Nature …, 2021 - nature.com
Artificial intelligence and machine learning (ML) promise to transform cancer therapies by
accurately predicting the most appropriate therapies to treat individual patients. Here, we …
accurately predicting the most appropriate therapies to treat individual patients. Here, we …
PBRM1 deficiency confers synthetic lethality to DNA repair inhibitors in cancer
RM Chabanon, D Morel, T Eychenne, L Colmet-Daage… - Cancer research, 2021 - AACR
Abstract Inactivation of Polybromo 1 (PBRM1), a specific subunit of the PBAF chromatin
remodeling complex, occurs frequently in cancer, including 40% of clear cell renal cell …
remodeling complex, occurs frequently in cancer, including 40% of clear cell renal cell …
A computational framework for the inference of protein complex remodeling from whole-proteome measurements
Protein complexes are responsible for the enactment of most cellular functions. For the
protein complex to form and function, its subunits often need to be present at defined …
protein complex to form and function, its subunits often need to be present at defined …
Werner helicase is a synthetic-lethal vulnerability in mismatch repair–deficient colorectal cancer refractory to targeted therapies, chemotherapy, and immunotherapy
Targeted therapies, chemotherapy, and immunotherapy are used to treat patients with
mismatch repair–deficient (dMMR)/microsatellite instability-high (MSI-H) colorectal cancer …
mismatch repair–deficient (dMMR)/microsatellite instability-high (MSI-H) colorectal cancer …
Predicting tumor cell line response to drug pairs with deep learning
Abstract Background The National Cancer Institute drug pair screening effort against 60 well-
characterized human tumor cell lines (NCI-60) presents an unprecedented resource for …
characterized human tumor cell lines (NCI-60) presents an unprecedented resource for …