This web portal was developed as part of the
Leucegene
project and reports:
Mass spectrometry data from proteins identified in the surface proteome of 100 primary human AML specimens.
RNA sequencing data from 430 primary human AML specimens.
Single-cell RNA sequencing data from 20 primary human AML specimens.
More details on data and analyses are available in the publication: Immunotherapeutic targeting of surfaceome heterogeneity in AML [ref].
Please use the bar on top of this web page to navigate between sections:
Surfaceome - Dataset overview: To explore surface proteins according to their percentage of detection in samples of the Leucegene AML surfaceome cohort.
Surfaceome - Differential analysis: To perform differential analyses, using DEP.
Transcriptome - Differential analysis: To perform differential analyses, using limma voom.
Single Cell RNA sequencing - Data analysis
Download: To download quantitative datasets and design files used in this portal.
References:
Maxquant: Cox J and Mann M. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol, 2008 p.1367-72.
DEP: Zhang X, Smits A, van Tilburg G, Ovaa H, Huber W and Vermeulen M. Proteome-wide identification of ubiquitin interactions using UbIA-MS. Nature Protocols, 2018, p.530–550.
Limma voom: Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W and Smyth GK. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Research, 2015 e47.