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Gene expression profiles of two lung squamous cell carcinoma cell lines treated with SOX2 siRNA

ABSTRACT: SOX2 is a transcription factor essential for self-renewal and pluripotency of embryonic stem cells. Recently SOX2 was found overexpressed in the majority of the lung squamous cell carcinoma (SQC), in which it acts as a lineage-survival oncogene. However, downstream targets/pathways of SOX2 in lung SQC cells remain to be identified. In order to identify genes/pathways likely to be downstream of SOX2, we conducted SOX2 silencing experiments in LK2 and NCI-H520 (H520 thereafter), two SOX2-abundant lung SQC cell lines and analyzed global gene transcription changes by gene expression microarray assay.

ORGANISM(S): Homo sapiens

PROVIDER: GSE48871 | GEO | 2014/07/30

SECONDARY ACCESSION(S): PRJNA212043

REPOSITORIES: GEO

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Gene expression profiles of two lung squamous cell carcinoma cell lines treated with SOX2 siRNA

Project description:SOX2 is a transcription factor essential for self-renewal and pluripotency of embryonic stem cells. Recently SOX2 was found overexpressed in the majority of the lung squamous cell carcinoma (SQC), in which it acts as a lineage-survival oncogene. However, downstream targets/pathways of SOX2 in lung SQC cells remain to be identified. In order to identify genes/pathways likely to be downstream of SOX2, we conducted SOX2 silencing experiments in LK2 and NCI-H520 (H520 thereafter), two SOX2-abundant lung SQC cell lines and analyzed global gene transcription changes by gene expression microarray assay. Each of H520 and LK2 cell lines was treated with either pooled siRNAs of SOX2 or non-silencing (control) siRNAs. After 48 h, cells were harvested and totoal RNA extracted for gene expression microarray analysis using Illumina HumanHT12 v3 BeadChip.

2014-07-30 | E-GEOD-48871 | biostudies-arrayexpress

A genome-wide CRISPR activation screening identified that OCT4 and SOX2 co-regulate SIA-cIgG expression

Project description:Misplaced IgG expression in cancer cells has been implicated in exacerbated malignancy and poor clinical prognosis. Accumulating evidence indicate that a non-conventional sialylation modification is critical for the function of cancer-derived IgG, rendering the name sialylated cancer IgG (SIA-cIgG). However, our knowledge remains rudimentary about the regulatory mechanism that controls the expression and function of SIA-cIgG. To investigate the regulatory mechanisms of SIA-cIgG expression in lung cancer stem cells, we performed a genome-wide CRISPR activation screen in NCI-H520 cells by expressing a lentiviral library of 70,290 CRISPR-activating gRNAs targeting 23,430 genes. We investigated that the stemness-related transcriptional factors OCT4 (Gene name: POU5F1) and SOX2 were both among the top genes enriched in SIA-cIgG high cells, suggesting that OCT4 and SOX2 may serve as key factors promoting SIA-cIgG expression.

2023-03-13 | GSE222024 | GEO

SOX2 overexpression effect on human lung squamous cells

Project description:We have identified SOX2 as a new oncogene and a likely driver of recurrent 3q26.3 amplifications in lung Squamous Cell Carcinoma. SOX2 is a crucial transcription factor implicated in Embryonic and Neural Stem Cells, that we found widely activatd in human lung SCC. This part of the study aimed at analyzing the transcriptomic consequences of SOX2 overexpression in a simple in vitro model (human lung squamous immortalized cells). Human lung squamous BEAS-2B cells were transduced for Control or SOX2 expression, and their transcriptomes compared using Affymetrix arrays.

2010-02-21 | E-GEOD-14883 | biostudies-arrayexpress

SOX2 overexpression effect on human lung squamous cells

2010-02-10 | GSE14883 | GEO

A self-propagating c-Met-SOX2 axis drives cancer-derived IgG signaling that promotes lung cancer cell stemness [RNA-seq]

Project description:Misplaced IgG expression in cancer cells has been implicated in exacerbated malignancy and poor clinical prognosis. Accumulating evidence indicate that a non-conventional sialylation modification is critical for the function of cancer-derived IgG, rendering the name sialylated cancer IgG (SIA-cIgG). However, our knowledge remains rudimentary about the functional role of SIA-cIgG in lung stemness maintenance. To investigate the mechanisms of SIA-cIgG in the regulation of lung stemness maintenance, we performed RNA-seq using established NCI-H520 cell lines sorted by FACS to have high or low expression of SIA-cIgG. This revealed that genes upregulated in SIA-cIgG high cells were associated with stem cell proliferation and maintenance.

2023-03-13 | GSE222023 | GEO

Identification the Expression of Sox2 in Colorectal Cancer Tissues

Project description:Sox2 has been studied in several types of human solid tumors. The investigators found that Sox2 had higher expression level in colorectal cancer and metastatic tissues than normal tissues. So the investigators assumed that whether Sox2 plays an important role in the progression and migration of colon cancer.

| 2124687 | ecrin-mdr-crc

SOX2 and p63 occupancy in human squamous carcinoma cell lines and embryonic stem cells.

Project description:SOX2 is a transcription factor essential for pluripotent stem cells, and development and maintenance of squamous epithelium. We previously reported SOX2 an oncogene subject to highly recurrent genomic amplification in squamous cell carcinomas (SCCs). Here we demonstrate in SCCs that SOX2 interacts with another master squamous transcription factor p63, and through ChIP-seq show that genomic occupancy of SOX2 overlaps with that of p63 at a large number of loci and that they cooperatively regulate gene expression including ETV4, which we find essential for SOX2-amplified SCC cell survival. Furthermore, SOX2 binds to distinct genomic loci in SCCs than in embryonic stem cells and the SOX2-p63 coordinate binding is unique to SCC. In addition, a subset of SOX2 genomic binding sites in SCC that lack p63 co-occupancy are co-occupied by the AP-1 transcriptional complex. These demonstrate that SOX2’s actions in SCC differ substantially from its role in pluripotency and identify novel SOX2 interactions that will enable deeper characterization of SOX2’s function in SCC. SOX2 and p63 ChIP-seq from three lung and esophageal squamous carcinoma cell lines with amplification of SOX2 as well as SOX2 ChIP-seq from an ES cells.

2014-03-12 | E-GEOD-46837 | biostudies-arrayexpress

SOX2 genomic binding sites in lung squamous cell carcinoma GEMM tumor and cell lines

Project description:SOX2 is a lineage specifier oncogene for lung squamous cell carcinoma (LSCC) and frequently amplified and overexpressed in human LSCC tumors (up to 90% of the cases). Our study demonstrated that SOX2 is a key determinant of neutrophil recruitment to tumors even in the absence of squamous histology. We generated cell lines from KrasLSL-G12D/+;Trp53fl/fl (KP) tumors that overexpress Sox2 (i.e. tumors from Lenti-Sox2-Cre infected KP mice that are validated to have Sox2 overexpression) (abbreviated as KPS) and employed chromatin immunoprecipitation sequencing (ChIP-seq) to identify genomic binding loci of SOX2 in KPS lines as well as Lkb1fl/fl;Ptenfl/fl (LP) LSCC tumors.

2018-10-16 | GSE118244 | GEO

SOX2 is a new oncogene activated by the recurrent 3q26.3 amplifications in lung Squamous Cell Carcinoma

Project description:This SuperSeries is composed of the following subset Series: GSE14859: ArrayCGH mapping of chromosome 3 aberrations in lung Squamous Cell Carcinoma (SCC) GSE14883: SOX2 overexpression effect on human lung squamous cells GSE15079: ArrayCGH mapping of the recurrent 3q26.3-q27mplifications in lung Squamous Cell Carcinoma (SCC) Refer to individual Series

2010-05-14 | E-GEOD-15080 | biostudies-arrayexpress

ChIP-Seq of BCL11A and SOX2 in lung squamous cell carcinoma (LUSC) LK-2 cell line with or without BCL11A knockdown

Project description:BCL11A is upregulated in lung squamous cell carcinoma (LUSC) but not in lung adenocarcinoma (LUAD). BCL11A interacts with SOX2 at protein level. ChIP-Seq experiment was performed for BCL11A and SOX2 in LUSC LK-2 control or BCL11A-KD cell line in order to identify their role in LUSC pathology.

2018-07-05 | E-MTAB-6958 | biostudies-arrayexpress

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