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MetabolomicsMethionine Intervention Induces PD-L1 Expression to Enhance the Immune Checkpoint Therapy Response in MTAP-deleted Osteosarcoma
Osteosarcoma (OS), a malignant bone tumor with limited treatment options, exhibits low sensitivity to immune checkpoint therapy (ICT). Through genomics and transcriptomics analyses, we have identified a subgroup of OS with methylthioadenosine phosphorylase (MTAP) deletion, which contributes to ICT r...
2026-06-09 | MTBLS11985 | MetaboLights
ProteomicsIntegrating Protein Language Models and Automatic Biofoundry for Enhanced Protein Evolution
Traditional protein engineering methods, such as directed evolution, while effective, are often slow and labor-intensive. Advances in machine learning and automated biofoundry present new opportunities for optimizing these processes. This study devises a protein language model-enabled automatic evol...
ORGANISM(S): Escherichia coli 
2024-12-25 | PXD058768 | Pride
Protein language models Protein engineering Directed evolution Automatic biofoundry 
ProteomicsMachine learning-guided evolution of pyrrolysyl-tRNA synthetase for improved incorporation efficiency of diverse noncanonical amino acids
The pyrrolysyl-tRNA synthetase (PylRS) is widely used to incorporate noncanonical amino acids (ncAAs) into proteins. However, most of ncAA-containing protein yields remain low due to the limited activity of PylRS variants. Here, we apply machine learning (ML) to engineer the tRNA-binding domain of P...
ORGANISM(S): Escherichia coli 
2025-07-25 | PXD065336 | Pride
Lc-ms Sfgfp Noncanonical amino acids 
MetabolomicsGut microbiota production of trimethyl-5-aminovaleric acid reduces fatty acid oxidation and accelerates cardiac hypertrophy
Numerous studies found intestinal microbiota alterations which are thought to affect the development of various diseases through the production of gut-derived metabolites. However, the specific metabolites and their pathophysiological contribution to cardiac hypertrophy or heart failure progression ...
2021-12-08 | MTBLS3174 | MetaboLights
Proteomicsthe proteomic profiles of single-sex infected female worms and bisexual infected mature female worms of Schistosoma japonicum at 18, 21, 23 and 25 days post infection
Revealing the reproductive mechanism of schistosomes will help to control this disease. In this study, the proteomic profiles of single-sex infected female (SF) worms and bisexual infected mature female (MF) worms of Schistosoma japonicum at 18, 21, 23 and 25 days post infection (dpi) were identifie...
ORGANISM(S): Schistosoma japonicum (Blood fluke) 
2024-01-26 | PXD030834 | Pride
Lc-ms/ms Itraq Bisexual infected mature female Schistosoma japonicum Single-sex infected female 
MetabolomicsAdaptation of gut microbiome and host metabolic systems to lignocellulosic degradation in bamboo rats

Bamboo rats (Rhizomys pruinosus) are among the few mammals that lives on a bamboo-based diet which is mainly composed of lignocellulose. However, the mechanisms of adaptation of their gut microbiome and metabolic systems in the degradation of lignocellulose are largely unknown. Here, we ...

2022-04-22 | MTBLS4161 | MetaboLights
ProteomicsQuantitative Pattern of hPTMs by Mass Spectrometry-based Proteomics with Implications for Triple-Negative Breast Cancer
Triple-negative breast cancer (TNBC) is characterized by its aggressive behavior, with trend to early relapse and metastasis as well as poor survival. Limited therapies and lack of effective therapeutic targets are one of the main challenges in clinical management of TNBC. Histone post-translationa...
ORGANISM(S): Homo Sapiens 
2024-02-01 | PXD049101 |
ProteomicsGut microbiota production of N,N,N-trimethyl-5-aminovaleric acid reduces fatty acid oxidation and accelerates cardiac hypertrophy in diet-induced obesity
Numerous studies found intestinal microbiota alterations which are thought to affect the development of various diseases through the production of gut-derived metabolites. However, the specific metabolites and their pathophysiological contribution to cardiac hypertrophy or heart failure progression ...
ORGANISM(S): Mus Musculus 
2021-09-08 | PXD028230 |
ProteomicsEnhanced sensitivity and scalability with a Chip-Tip workflow enables deep single-cell proteomics
We present a high-sensitivity SCP workflow named Chip-Tip, identifying >5000 proteins in individual HeLa cells
ORGANISM(S): Homo Sapiens 
PXD054944 |
UnknownRobust estimation of bacterial cell count from optical density.
Not available
S-EPMC7499192 | biostudies-literature
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