Transcriptomic Profiling of Uveal and Cutaneous Melanoma

Uveal melanoma (TCGA‐UVM) and cutaneous melanoma (TCGA‐SKCM) patients' tumor transcriptome profiling gene expression RNA sequencing data were downloaded from The Cancer Genome Atlas (TCGA) website (https://portal.gdc.cancer.gov/). NLRP3‐ and IL1B‐normalized gene expression values in transcripts per million were extracted from each case file to create a new data frame using rstudio [26 ]. Group medians were compared using the Mann–Whitney U test. Single‐cell transcriptomic data and graphs of RPE/choroid cells were acquired from spectacle website [27 (link)] (https://singlecell‐eye.org/app/spectacle/) based on Voigt et al. [28 (link)] dataset.

Free full text: Click here

Correa V.S., Efstathiou N.E., Ntentakis D.P., Yu Z., Narimatsu T., Gragoudas E., Kim I.K, & Vavvas D.G. (2023). The NLRP3 inflammasome – interleukin 1β axis in uveal melanoma. FEBS Open Bio, 13(3), 545-555.

Publication 2023

Cancer Cells Choroid Cutaneous melanoma Frame Gene expression Genome Il1b Patients Spectacle Transcriptomic Tumor Tumor rna Uveal melanoma

Corresponding Organization : Harvard University

Top 5 similar protocols

Variable analysis

independent variables

Uveal melanoma (TCGA-UVM) and cutaneous melanoma (TCGA-SKCM) patients' tumor transcriptome profiling gene expression RNA sequencing data

dependent variables

NLRP3- and IL1B-normalized gene expression values in transcripts per million

control variables

Not explicitly mentioned

controls

No positive or negative controls were specified by the authors.

Annotations

Based on most similar protocols

Etiam vel ipsum. Morbi facilisis vestibulum nisl. Praesent cursus laoreet felis. Integer adipiscing pretium orci. Nulla facilisi. Quisque posuere bibendum purus. Nulla quam mauris, cursus eget, convallis ac, molestie non, enim. Aliquam congue. Quisque sagittis nonummy sapien. Proin molestie sem vitae urna. Maecenas lorem.

As authors may omit details in methods from publication, our AI will look for missing critical information across the 5 most similar protocols.

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!