X-Meeting presentations

SINGLE-CELL TRANSCRIPTOMIC ANALYSIS OF CACHEXIA-INDUCING FACTORS IN CANCER CELL LINES

Published in 08/11/2023 - ISBN: 978-65-272-0061-1

Link All Papers
LinkSubmission
Paper Title
SINGLE-CELL TRANSCRIPTOMIC ANALYSIS OF CACHEXIA-INDUCING FACTORS IN CANCER CELL LINES
Authors
  • Caio Fernando Ferreira Mussatto
  • Amanda Piveta Schnepper
  • Victória Larissa Schimidt Camargo
  • Sarah Santiloni Cury
  • Ana Luiza Labbate Bonaldo
  • Jakeline Santos Oliveira
  • Robson Francisco Carvalho
Modality
Poster
Subject area
RNA and transcriptomics
Publishing Date
08/11/2023
Country of Publishing
Brazil | Brasil
Language of Publishing
Inglês
Paper Page
https://www.even3.com.br/anais/xmeeting2023/643258-single-cell-transcriptomic-analysis-of-cachexia-inducing-factors-in-cancer-cell-lines
ISBN
978-65-272-0061-1
Keywords
scRNA-seq, Cachexia, Cancer cell lines
Summary
Cachexia is a multifactorial syndrome characterized by ongoing loss of skeletal muscle mass, with or without loss of adipose tissue. It affects nearly 80% of cancer patients with advanced-stage disease, and is prevalent in lung, pancreas, and head and neck cancers. Secreted molecules from the tumor microenvironment, known as the secretome, contribute to a pro-inflammatory state associated with cachexia development. Cachexia-inducing factors (CIF) from the tumor secretome show a specific gene expression profile according to cancer type and prevalence of cachexia. However, it is not clear which cancer cell lines are most suitable for studying the syndrome. We analyzed the expression of secretome genes in 89 cancer cell lines and the respective primary tumors (lung, skin, pancreas, ovary, kidney, head and neck, prostate, breast, brain, hematologic, and colorectal) using single-cell RNA sequencing (scRNA-seq) data available at the Curated Cancer Cell Atlas (3CA) database (https://www.weizmann.ac.il/sites/3CA/). We selected five cancer cell lines that showed a high correlating to the primary tumor using the online tool Celligner (https://depmap.org/portal/celligner/). The CIF genes were selected using the literature mining tools Geneshot (https://maayanlab.cloud/geneshot/) and Open Target (https://www.opentargets.org/) with the terms cachexia and cancer cachexia. The list of CIF genes from literature was further filtered by the human secretome according to the Human Protein Atlas (https://www.proteinatlas.org/) to ensure that only secretome genes were selected. We obtained scRNA-seq data of these cell lines and from 11 cancer types (lung, skin, pancreas, ovary, kidney, head and neck, prostate, breast, brain, hematologic, and colorectal) from the publicly available Curated Cancer Cell Atlas (3CA) database (https://www.weizmann.ac.il/sites/3CA/). We reanalyzed the scRNA-seq data using Rstudio (https://www.rstudio.com - v4.2) with the Seurat package (v4). and by Pearson correlation, indicate the most mateched ones. First, we selected 123 CIFs that were investigated in 89 highly correlated cell lines (22,073 single-cells) and 259.431 malignant single-cells from primary tumors. The average scaled expression of the 101 CIFs that was present in the cell lines had a correlation profile according to the tumor type, revealing that the cell lines LNCAPCLONEFGC (r = 0.43; p = 3.15E-05), HCC1419 (r = 0.4; p = 1.08E-04 ), and LS180 (r = 0.31; p = 0.00308) derived from prostate, breast, and lung cancers, respectively, showed the highest correlation values with the neoplastic cells, suggesting that they are most appropriate for study cachexia, enabling a better results when studying this heterogeneous syndrome.
Title of the Event
X-Meeting / BSB 2023
City of the Event
Curitiba
Title of the Proceedings of the event
X-Meeting presentations
Name of the Publisher
Even3
Means of Dissemination
Meio Digital

How to cite

MUSSATTO, Caio Fernando Ferreira et al.. SINGLE-CELL TRANSCRIPTOMIC ANALYSIS OF CACHEXIA-INDUCING FACTORS IN CANCER CELL LINES.. In: X-Meeting presentations. Anais...Curitiba(PR) Campus da indústria, 2023. Available in: https//www.even3.com.br/anais/xmeeting2023/643258-SINGLE-CELL-TRANSCRIPTOMIC-ANALYSIS-OF-CACHEXIA-INDUCING-FACTORS-IN-CANCER-CELL-LINES. Access in: 13/10/2025

Paper

Even3 Publicacoes