PXD006607

PXD006607 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis of human Medulloblastoma reveals distinct activated pathways between subgroups
Description	Deregulations in fundamental signaling pathways are key events in pathogenesis of cancer. One intriguing illustration that still holds blind spots is the pediatric brain tumor arising from the developing cerebellum: medulloblastoma (MB). Extensive high-throughput sequencing led to the characterization of four MB subgroups (WNT, SHH, Group 3 and Group 4) delineated with distinct molecular signatures and clinical outcomes. However, up-to-date these analyses have not attained the global comprehension of their dynamic network complexity. Wishing to uncover a comprehensive view of all MB subgroups we employed a proteomic analysis to integrate accurate protein expression and activity that should ultimately give rise to a realistic picture of how MB cancer cells are regulated. In this study we present the first analysis regrouping methylation status, whole-transcriptome sequencing and quantitative proteomics (proteome and phosphoproteome) using a super SILAC / spiked in strategy across 38 flash frozen primary human MBs (5 WNT, 10 SHH, 10 Group 3 and 13 Group 4). First, our data pinpointed that proteomic analysis could reveal MB subgroup identity. Second, analysis of proteome and phosphoproteome highlighted disregulated signaling pathways that have not been predicted by transcriptomic analysis. Altogether, combined multi-scale analyses of MB have allowed us to identify unrevealed pathways involved in human MB genesis and progression.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:09:37.518.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Guillaume Arras
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2017-05-26 06:37:13	ID requested
1	2018-09-10 10:34:06	announced
2	2018-09-18 07:25:38	announced	Updated publication reference for PubMed record(s): 30205043.
⏵ 3	2024-10-22 05:09:38	announced	2024-10-22: Updated project metadata.

Forget A, Martignetti L, Puget S, Calzone L, Brabetz S, Picard D, Montagud A, Liva S, Sta A, Dingli F, Arras G, Rivera J, Loew D, Besnard A, Lacombe J, Pag, è, s M, Varlet P, Dufour C, Yu H, Mercier AL, Indersie E, Chivet A, Leboucher S, Sieber L, Beccaria K, Gombert M, Meyer FD, Qin N, Bartl J, Chavez L, Okonechnikov K, Sharma T, Thatikonda V, Bourdeaut F, Pouponnot C, Ramaswamy V, Korshunov A, Borkhardt A, Reifenberger G, Poullet P, Taylor MD, Kool M, Pfister SM, Kawauchi D, Barillot E, Remke M, Ayrault O, Aberrant ERBB4-SRC Signaling as a Hallmark of Group 4 Medulloblastoma Revealed by Integrative Phosphoproteomic Profiling. Cancer Cell, 34(3):379-395.e7(2018) [pubmed]

10.1016/j.ccell.2018.08.002;

curator keyword: Biomedical

submitter keyword: Multiomics, Whole genome sequencing, RNAseq,Medulloblastoma, Proteomic, Phosphoproteomic, Methylome

Damarys Loew
contact affiliation	Mass Spectrometry and Proteomics facility (LSMP) Institut Curie PSL Research University FRANCE
contact email	damarys.loew@curie.fr
lab head
Guillaume Arras
contact affiliation	Institut Curie
contact email	guillaume.arras@curie.fr
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD006607
     1. Label: PRIDE project
     2. Name: Proteomic analysis of human Medulloblastoma reveals distinct activated pathways between subgroups