Proteomics

Dataset Information

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Human lung cancer data independent acquisition validation tissue cohort

ABSTRACT: In this project, two NSCLC cohorts were analyzed by Data Independent Acquisition (DIA-MS). A cohort of early stage NSCLC samples (141) as well as an additional cohort of late stage NSCLC samples (84) with the aim to demonstrate utility of MS for subtyping and treatment prediction in a clinical setting. Further, six identified NSCLC proteome subtypes were investigated in relation to cancer driver pathways and immune phenotypes based on the generated MS-data.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Lung

DISEASE(S): Non-small Cell Lung Carcinoma

SUBMITTER: Georgios Mermelekas  

LAB HEAD: Janne Lehtio

PROVIDER: PXD020548 | Pride | 2021-09-13

REPOSITORIES: Pride

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MPN-YBLO_LC_20190920_DIA_3hr_P1_A01.raw Raw
MPN-YBLO_LC_20190920_DIA_3hr_P1_A02.raw Raw
MPN-YBLO_LC_20190920_DIA_3hr_P1_A03.raw Raw
MPN-YBLO_LC_20190920_DIA_3hr_P1_A04.raw Raw
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Publications

Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms.

Lehtiö Janne J   Arslan Taner T   Siavelis Ioannis I   Pan Yanbo Y   Socciarelli Fabio F   Berkovska Olena O   Umer Husen M HM   Mermelekas Georgios G   Pirmoradian Mohammad M   Jönsson Mats M   Brunnström Hans H   Brustugun Odd Terje OT   Purohit Krishna Pinganksha KP   Cunningham Richard R   Foroughi Asl Hassan H   Isaksson Sofi S   Arbajian Elsa E   Aine Mattias M   Karlsson Anna A   Kotevska Marija M   Gram Hansen Carsten C   Drageset Haakensen Vilde V   Helland Åslaug Å   Tamborero David D   Johansson Henrik J HJ   Branca Rui M RM   Planck Maria M   Staaf Johan J   Orre Lukas M LM  

Nature cancer 20211122 11

Despite major advancements in lung cancer treatment, long-term survival is still rare, and a deeper understanding of molecular phenotypes would allow the identification of specific cancer dependencies and immune evasion mechanisms. Here we performed in-depth mass spectrometry (MS)-based proteogenomic analysis of 141 tumors representing all major histologies of non-small cell lung cancer (NSCLC). We identified six distinct proteome subtypes with striking differences in immune cell composition and  ...[more]

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