Diagnostics and correction of batch effects in large‐scale proteomic studies: a tutorial
Advancements in mass spectrometry‐based proteomics have enabled experiments
encompassing hundreds of samples. While these large sample sets deliver much‐needed …
encompassing hundreds of samples. While these large sample sets deliver much‐needed …
Comprehensive overview of bottom-up proteomics using mass spectrometry
Proteomics is the large scale study of protein structure and function from biological systems
through protein identification and quantification.“Shotgun proteomics” or “bottom-up …
through protein identification and quantification.“Shotgun proteomics” or “bottom-up …
Deep proteomics network and machine learning analysis of human cerebrospinal fluid in Japanese encephalitis virus infection
T Bharucha, B Gangadharan, A Kumar… - Journal of Proteome …, 2023 - ACS Publications
Japanese encephalitis virus is a leading cause of neurological infection in the Asia-Pacific
region with no means of detection in more remote areas. We aimed to test the hypothesis of …
region with no means of detection in more remote areas. We aimed to test the hypothesis of …
Accounting for multiple imputation-induced variability for differential analysis in mass spectrometry-based label-free quantitative proteomics
Imputing missing values is common practice in label-free quantitative proteomics. Imputation
aims at replacing a missing value with a user-defined one. However, the imputation itself …
aims at replacing a missing value with a user-defined one. However, the imputation itself …
FedRBE--a decentralized privacy-preserving federated batch effect correction tool for omics data based on limma
Batch effects in omics data obscure true biological signals and constitute a major challenge
for privacy-preserving analyses of distributed patient data. Existing batch effect correction …
for privacy-preserving analyses of distributed patient data. Existing batch effect correction …
Privacy-Preserving Multi-Center Differential Protein Abundance Analysis with FedProt
Quantitative mass spectrometry has revolutionized proteomics by enabling simultaneous
quantification of thousands of proteins. Pooling patient-derived data from multiple institutions …
quantification of thousands of proteins. Pooling patient-derived data from multiple institutions …
Protein promise? Application of mass spectrometry-based proteomics techniques to identify cerebrospinal fluid biomarkers for diagnosing suspected central nervous …
TM Bharucha - 2022 - ora.ox.ac.uk
Neurological infections account for considerable death and disability worldwide. Even in the
best-resourced settings, existing diagnostic tests are inadequate and adversely affect patient …
best-resourced settings, existing diagnostic tests are inadequate and adversely affect patient …