Dataset Information

Enhanced Proteomic Coverage in Tissue Microenvironment by Immune Cell Subtype Library-assisted DIA-MS

ABSTRACT: The objective of the protject is to develop an immune cell-enrich library-assisted DIA method that enables the comprehensive identification and quantification of immunological proteins from micro-scale samples with high sensitivity. In the project, six immune cell subtype-specific libraries including CD8+ and CD4+ T cell, B cell, NK cell, DC and MP were established, and the six subtype libraries can be consolidated into a larger library termed the immune cell-enriched library. By integrating either a single cell-type specific library or multiple libraries into the conventional library-based DIA search, the method enhances the identification coverage of the immune landscape for micro-scale colonic polyps in CRC mice. Application of the method on the MLNs of the CRC mice offers an enlarged TME landscape that reveals proteomic changes in the MLN from different tumor growth of progrssion.

ORGANISM(S): Mus Musculus (mouse)

SUBMITTER: Yu-Ju Chen

PROVIDER: PXD048670 | JPOST Repository | Sat Jan 18 00:00:00 GMT 2025

REPOSITORIES: jPOST

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			Action	DRS
	20220811_MLN_CD8_DDA_Proteome_SDC_DDMtube_Fraction_50k_F1_1.raw	Raw
	20220811_MLN_CD8_DDA_Proteome_SDC_DDMtube_Fraction_50k_F1_2.raw	Raw
	20220811_MLN_CD8_DDA_Proteome_SDC_DDMtube_Fraction_50k_F2_1.raw	Raw
	20220811_MLN_CD8_DDA_Proteome_SDC_DDMtube_Fraction_50k_F2_2.raw	Raw
	20220811_MLN_CD8_DDA_Proteome_SDC_DDMtube_Fraction_50k_F3_1.raw	Raw

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Publications

Enhanced Proteomic Coverage in Tissue Microenvironment by Immune Cell Subtype Library-Assisted DIA-MS.

Yang Jhih-Ci JC Hsu Tzi-Hui TH Chen Ciao-Syuan CS Yu Jou-Hui JH Lin Kuo-I KI Chen Yu-Ju YJ

Molecular & cellular proteomics : MCP 20240527 7

Immune cells that infiltrate the tumor microenvironment (TME) play crucial roles in shaping cancer development and influencing clinical outcomes and therapeutic responses. However, obtaining a comprehensive proteomic snapshot of tumor-infiltrating immunity in clinical specimens is often hindered by small sample amounts and a low proportion of immune infiltrating cells in the TME. To enable in-depth and highly sensitive profiling of microscale tissues, we established an immune cell-enriched libra ...[more]

PMID: 38810695

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