AIMC Topic: Proteome

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GLIO-Select: Machine Learning-Based Feature Selection and Weighting of Tissue and Serum Proteomic and Metabolomic Data Uncovers Sex Differences in Glioblastoma.

International journal of molecular sciences
Glioblastoma (GBM) is a fatal brain cancer known for its rapid and aggressive growth, with some studies indicating that females may have better survival outcomes compared to males. While sex differences in GBM have been observed, the underlying biolo...

Deep Visual Proteomics maps proteotoxicity in a genetic liver disease.

Nature
Protein misfolding diseases, including α1-antitrypsin deficiency (AATD), pose substantial health challenges, with their cellular progression still poorly understood. We use spatial proteomics by mass spectrometry and machine learning to map AATD in h...

Deep learning tools predict variants in disordered regions with lower sensitivity.

BMC genomics
BACKGROUND: The recent AI breakthrough of AlphaFold2 has revolutionized 3D protein structural modeling, proving crucial for protein design and variant effects prediction. However, intrinsically disordered regions-known for their lack of well-defined ...

Deciphering the dark cancer phosphoproteome using machine-learned co-regulation of phosphosites.

Nature communications
Mass spectrometry-based phosphoproteomics offers a comprehensive view of protein phosphorylation, yet our limited knowledge about the regulation and function of most phosphosites hampers the extraction of meaningful biological insights. To address th...

Proteomics and Machine Learning-Based Approach to Decipher Subcellular Proteome of Mouse Heart.

Molecular & cellular proteomics : MCP
Protein compartmentalization to distinctive subcellular niches is critical for cardiac function and homeostasis. Here, we employed a rapid and robust workflow based on differential centrifugal-based fractionation with mass spectrometry-based proteomi...

Proteome Profiling of Serum Reveals Pathological Mechanisms and Biomarker Candidates for Cerebral Small Vessel Disease.

Translational stroke research
Cerebral small vessel disease (CSVD) is a global brain disorder that is characterized by a series of clinical, neuroimaging, and neuropathological manifestations. However, the molecular pathophysiological mechanisms of CSVD have not been thoroughly i...

SHASI-ML: a machine learning-based approach for immunogenicity prediction in vaccine development.

Frontiers in cellular and infection microbiology
INTRODUCTION: Accurate prediction of immunogenic proteins is crucial for vaccine development and understanding host-pathogen interactions in bacterial diseases, particularly for Salmonella infections which remain a significant global health challenge...

Deep Learning Enhances Precision of Citrullination Identification in Human and Plant Tissue Proteomes.

Molecular & cellular proteomics : MCP
Citrullination is a critical yet understudied post-translational modification (PTM) implicated in various biological processes. Exploring its role in health and disease requires a comprehensive understanding of the prevalence of this PTM at a proteom...

An AI-assisted morphoproteomic approach is a supportive tool in esophagitis-related precision medicine.

EMBO molecular medicine
Esophagitis is a frequent, but at the molecular level poorly characterized condition with diverse underlying etiologies and treatments. Correct diagnosis can be challenging due to partially overlapping histological features. By proteomic profiling of...