Specific transcriptional signature dataset of extracellular signal-regulated kinase 5 in leiomyosarcoma derived cell lines

Two uterine leiomyosarcoma cell lines, SK-UT-1 and AA, underwent ERK5 genetic knockdown via lentiviral transduction with shRNA followed by puromycin selection. Knockdown efficiency was confirmed through RT-qPCR and Western blotting. RNA sequencing was performed using the DNBSEQ platform. Raw reads underwent quality filtering and were aligned to the human genome (GRCh38.p13) with Bowtie2. Gene expression was quantified by RSEM, and differential expression analysis was conducted with DESeq2 (|log2FC|≥ 1, q-value ≤ 0.05). As a result, we identified 1218 and 227 differentially expressed genes for AA and SK-UT-1 respectively, and 81 in common for both cell lines. The raw and RNAseq data and sequences are available at the NCBI GEO repository under GSE297879. Sequence comparison could reveal new therapeutic targets based on the ERK5 signalling pathway, which is critical in experimental models of soft-tissue sarcoma.

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Journal
BMC Research Notes
Published
2025-11-13
DOI
https://doi.org/10.1186/s13104-025-07551-2
Primary Topic
Melanoma and MAPK Pathways
Type
article
Field-Weighted Citation Impact
0.00

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article

Specific transcriptional signature dataset of extracellular signal-regulated kinase 5 in leiomyosarcoma derived cell lines

Francisco J. Cimas, Pablo Fernández‐Aroca, Ricardo Sánchez‐Prieto, Jaime Jiménez‐Suárez et al.
BMC Research Notes
Melanoma and MAPK Pathways
article

Specific transcriptional signature dataset of extracellular signal-regulated kinase 5 in leiomyosarcoma derived cell lines

Francisco J. Cimas, Pablo Fernández‐Aroca, Ricardo Sánchez‐Prieto, Jaime Jiménez‐Suárez, Borja Belandia, Cristina Garnés‐García, María José Ruiz‐Hidalgo, Juan Aparicio-Canada
article en

Abstract

Two uterine leiomyosarcoma cell lines, SK-UT-1 and AA, underwent ERK5 genetic knockdown via lentiviral transduction with shRNA followed by puromycin selection. Knockdown efficiency was confirmed through RT-qPCR and Western blotting. RNA sequencing was performed using the DNBSEQ platform. Raw reads underwent quality filtering and were aligned to the human genome (GRCh38.p13) with Bowtie2. Gene expression was quantified by RSEM, and differential expression analysis was conducted with DESeq2 (|log2FC|≥ 1, q-value ≤ 0.05). As a result, we identified 1218 and 227 differentially expressed genes for AA and SK-UT-1 respectively, and 81 in common for both cell lines. The raw and RNAseq data and sequences are available at the NCBI GEO repository under GSE297879. Sequence comparison could reveal new therapeutic targets based on the ERK5 signalling pathway, which is critical in experimental models of soft-tissue sarcoma.

BMC Research NotesVol. 18(1)
Consejo Superior de Investigaciones Científicas (ES), Instituto de Investigaciones Biomédicas Sols-Morreale (ES), Instituto Ramón y Cajal de Investigación Sanitaria (ES), Servicio de Salud de Castilla La Mancha (ES), Universidad Autónoma de Madrid (ES), University of Castilla-La Mancha (ES)
Universidad de Castilla-La Mancha, Junta de Comunidades de Castilla-La Mancha, European Regional Development Fund, Agencia Estatal de Investigación, European Social Fund
Openalex Percentile: Top 70%
Melanoma and MAPK Pathways
DOIOpen Access PDFOpenAlex
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