Melanoma proteomics suggests functional differences related to mutational status.

Melanoma proteomics suggests functional differences related to mutational status.

Publication date: May 10, 2019

Melanoma is the most lethal cutaneous cancer. New drugs have recently appeared; however, not all patients obtain a benefit of these new drugs. For this reason, it is still necessary to characterize melanoma at molecular level. The aim of this study was to explore the molecular differences between melanoma tumor subtypes, based on BRAF and NRAS mutational status. Fourteen formalin-fixed, paraffin-embedded melanoma samples were analyzed using a high-throughput proteomics approach, combined with probabilistic graphical models and Flux Balance Analysis, to characterize these differences. Proteomics analyses showed differences in expression of proteins related with fatty acid metabolism, melanogenesis and extracellular space between BRAF mutated and BRAF non-mutated melanoma tumors. Additionally, probabilistic graphical models showed differences between melanoma subgroups at biological processes such as melanogenesis or metabolism. On the other hand, Flux Balance Analysis predicts a higher tumor growth rate in BRAF mutated melanoma samples. In conclusion, differential biological processes between melanomas showing a specific mutational status can be detected using combined proteomics and computational approaches.

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Concepts Keywords
BRAF Proteomics
Cancer Chloroarenes
Differential BRAF
Extracellular Space RTT
Fatty Acid Metabolism Clinical medicine
Formalin Cancer
Melanogenesis Medicine
Melanoma Melanoma
Melanomas Lethal cutaneous cancer
Metabolism Differences melanoma
Paraffin Paraffin embedded melanoma
Probabilistic Graphical Models Higher tumor
Proteomics
Sci
Throughput
Tumor

Semantics

Type Source Name
pathway BSID Reproduction
gene UNIPROT PI15
pathway BSID Tuberculosis
disease DOID tuberculosis
disease MESH tuberculosis
gene UNIPROT BRD2
disease MESH community
gene UNIPROT PROC
gene UNIPROT TCF3
gene UNIPROT APPL1
gene UNIPROT MITF
gene UNIPROT ADAM23
pathway BSID Angiogenesis
gene UNIPROT LRP8
gene UNIPROT LRP1
gene UNIPROT C1D
gene UNIPROT APOE
disease MESH multi
pathway BSID Colorectal cancer
disease DOID colorectal cancer
disease MESH colorectal cancer
disease DOID Renal Cancer
disease MESH Renal Cancer
gene UNIPROT CTNND1
gene UNIPROT CSE1L
gene UNIPROT BCAR1
gene UNIPROT S100A13
disease MESH metastases
disease MESH hyperpigmentation
gene UNIPROT BECN1
gene UNIPROT OCM
gene UNIPROT OCM2
gene UNIPROT DUOXA1
gene UNIPROT OXCT2
drug DRUGBANK Bismuth subgallate
gene UNIPROT ERAL1
gene UNIPROT ESR1
disease DOID Cutaneous melanoma
gene UNIPROT INTU
gene UNIPROT PRDM6
pathway BSID Metabolic pathways
gene UNIPROT RNMT
gene UNIPROT MET
gene UNIPROT SLTM
gene UNIPROT CD36
gene UNIPROT FAT1
drug DRUGBANK Palmitic Acid
gene UNIPROT REST
drug DRUGBANK Esomeprazole
drug DRUGBANK Trypsin
pathway BSID Acetylation
drug DRUGBANK Methionine
drug DRUGBANK L-Cysteine
gene UNIPROT SLC6A7
disease MESH dissociation
drug DRUGBANK Formic Acid
gene UNIPROT BBS9
disease MESH diagnosis
pathway BSID Lipoprotein metabolism
gene UNIPROT SSRP1
disease DOID bladder carcinoma
gene UNIPROT OCA2
gene UNIPROT B3GALNT1
drug DRUGBANK Proline
disease MESH **p
gene UNIPROT C11orf54
gene UNIPROT HIST1H1D
gene UNIPROT VAMP2
gene UNIPROT HCLS1
gene UNIPROT LYN
disease MESH renal
gene UNIPROT ITGB2
pathway BSID Membrane Trafficking
gene UNIPROT SNX2
gene UNIPROT GNAI2
gene UNIPROT STAT1
gene UNIPROT ANXA6
gene UNIPROT F13A1
drug DRUGBANK Succinic acid
gene UNIPROT SLC9A3R1
disease DOID uveal melanoma
disease MESH uveal melanoma
gene UNIPROT KCTD12
drug DRUGBANK Potassium cation
gene UNIPROT MAGEE1
gene UNIPROT SAMHD1
drug DRUGBANK Histidine
drug DRUGBANK L-Glutamine
pathway BSID Fatty acids
gene UNIPROT ACADVL
disease MESH ACADVL
gene UNIPROT ACAA2
gene UNIPROT ACADM
drug DRUGBANK Coenzyme A
disease MESH nevi
disease MESH melanocytic nevus
gene UNIPROT FBXO3
gene UNIPROT DYRK3
gene UNIPROT IK
pathway BSID Keratinization
gene UNIPROT PSMB6
gene UNIPROT YY1
gene UNIPROT DLL1
gene UNIPROT DEPP1
gene UNIPROT GOPC
gene UNIPROT TNF
disease MESH dif
drug DRUGBANK Ademetionine
gene UNIPROT TNFSF13
gene UNIPROT ANP32B
drug DRUGBANK Ethionamide
gene UNIPROT LAT2
gene UNIPROT FBN1
pathway BSID Immune System
gene UNIPROT MENT
drug DRUGBANK Trestolone
gene UNIPROT DAZ1
drug DRUGBANK Coenzyme M
disease MESH growth
pathway BSID Metabolism
pathway BSID Melanogenesis
pathway BSID Fatty acid metabolism
drug DRUGBANK Isoxaflutole
drug DRUGBANK Formaldehyde
gene UNIPROT NRAS
gene UNIPROT BRAF
gene UNIPROT DNMT1
gene UNIPROT CD69
gene UNIPROT CD5L
disease DOID cancer
disease MESH cancer
pathway BSID Melanoma
disease DOID Melanoma
disease MESH Melanoma

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