&lt;p&gt;Identification of Long Non-Coding RNA &lt;em&gt;SNHG&lt;/em&gt; Family as Promising Prognostic Biomarkers in Acute Myeloid Leukemia&lt;/p&gt;

Shi, Jianzhong; Ding, Weifeng; Lü, Hong

doi:10.2147/ott.s265853

Cited by 18 publications

(19 citation statements)

References 18 publications

(25 reference statements)

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“…Six AS events regulated by SF3B4 in tumor samples overlapped with the top SF3B4 regulated AS events in ESCC. The oncogenic role of SRSF5 [ 49 ], PHF6 [ 50 ], SNHG12 [ 51 ] and KIAA1217 [ 52 ] have been reported in different tumors, but we firstly discovered that intron retention in these genes are repressed by SF3B4. Retained intron (RI) repression potentially leads to productive transcripts, because retained introns usually produce premature termination codons, which may generate unproductive, unstable transcripts or truncated proteins [ 53 ].…”

Section: Discussionmentioning

confidence: 99%

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

Ding

Cheng

et al. 2021

Cell Biosci

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Alternative splicing (AS) is an important biological process for regulating the expression of various isoforms from a single gene and thus to promote proteome diversity. In this study, RNA-seq data from 15 pairs of matched esophageal squamous cell carcinoma (ESCC) and normal tissue samples as well as two cell lines were analyzed. AS events with significant differences were identified between ESCC and matched normal tissues, which were re-annotated to find protein coding genes or non-coding RNAs. A total of 45,439 AS events were found. Of these, 6019 (13.25%) significant differentially AS events were identified. Exon skipping (SE) events occupied the largest proportion of abnormal splicing events. Fifteen differential splicing events with the same trends of ΔΨ values in ESCC tissues, as well in the two cell lines were found. Four pathways and 20 biological processes related to pro-metastasis cell junction and migration were significantly enriched for the differentially spliced genes. The upregulated splicing factor SF3B4, which regulates 92 gene splicing events, could be a potential prognostic factor of ESCC. Differentially spliced genes, including HNRNPC, VCL, ZNF207, KIAA1217, TPM1 and CALD1 are shown with a sashimi plot. These results suggest that cell junction- and migration-related biological processes are influenced by AS abnormalities, and aberrant splicing events can be affected by splicing factor expression changes. The involved splicing factor SF3B4 was found to be a survival-related gene in ESCC and is presumed to regulate AS in multiple cancers. In summary, we identified significant differentially expressed AS events which may be related to the development of ESCC.

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Section: Discussionmentioning

confidence: 99%

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

Ding

Cheng

et al. 2021

Cell Biosci

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“…Non-coding RNAs (ncRNAs), such as long non-coding RNAs (lncRNAs) and microRNAs (miRNAs), have been confirmed to affect progression, growth and spread of cancers [6][7][8]. Among them, small nucleolar host gene 4 (SNHG4) is a novel lncRNA that belongs to SNHGs family, members of which have been documented to play critical roles in regulating tumorigenesis [9][10][11]. Recent studies have identified that SNHG4 functions as an important carcinogenic molecule in several cancers.…”

mentioning

confidence: 99%

Knockdown of lncRNA SNHG4 suppresses gastric cancer cell proliferation and metastasis by targeting miR-204-5p

Cheng¹,

Zhang²,

Zhu³

et al. 2021

neo

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Long non-coding RNAs (lncRNAs) have been identified as critical regulators in gastric cancer (GC) progression. However, whether lncRNA small nucleolar host gene 4 (SNHG4) functions in GC development remains unknown. In this study, the bio-functional role of SNHG4 and its potential mechanism on GC progression were systematically dissected. To investigate the role of SNHG4 in GC, we silenced SNHG4 using short hairpin RNAs (shRNAs) to perform loss-of-function assays. The results showed that SNHG4 expression in GC cells was at a higher level compared to normal gastric mucosal epithelial cells. Knockdown of SNHG4 dramatically suppressed proliferation, migration and invasion, and blocked cell cycle progression of GC cells. Moreover, knockdown of SNHG4 upregulated microRNA-204-5p (miR-204-5p) expression, whereas downregulated ribonucleotide reductase subunit M2 (RRM2) expression in GC cells. Dua l-luciferase reporter assay results showed that miR-204-5p was a direct target of SN HG4. Additionally, knockdown of SHNG4 suppressed GC tumorigenesis in xenograft mouse models. Taken together, these data demonstrated that knockdown of SNHG4 suppressed GC development by targeting miR-204-5p.

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“…Six AS events regulated by SF3B4 in tumor samples overlapped with the top SF3B4 regulated AS events in ESCC. The oncogenic role of SRSF5 [49], PHF6 [50], SNHG12 [51] and KIAA1217 [52] have been reported in different tumors, but we rstly discovered that intron retention in these genes are repressed by SF3B4. Retained intron (RI) repression potentially leads to productive transcripts, because retained introns usually produce premature termination codons, which may generate unproductive, unstable transcripts or truncated proteins [53].…”

Section: Discussionmentioning

confidence: 94%

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

Ding

Cheng

et al. 2021

Preprint

View full text Add to dashboard Cite

Alternative splicing (AS) is an important biological process for regulating the expression of various isoforms from a single gene and thus to promote proteome diversity. In this study, RNA-seq data from 15 pairs of matched esophageal squamous cell carcinoma (ESCC) and normal tissue samples as well as two cell lines were analyzed. AS events with significant differences were identified between ESCC and matched normal tissues, which were re-annotated to find protein coding genes or non-coding RNAs. A total of 45,439 AS events were found. Of these, 6,019 (13.25%) significant differentially AS events were identified. Exon skipping (SE) events occupied the largest proportion of abnormal splicing events. Fifteen differential splicing events with the same trends of ΔΨ values in ESCC tissues, as well in the two cell lines were found. Four pathways and 20 biological processes related to pro-metastasis cell junction and migration were significantly enriched for the differentially spliced genes. The upregulated splicing factor SF3B4, which regulates 92 gene splicing events, could be a potential prognostic factor of ESCC. Differentially spliced genes, including HNRNPC, VCL, ZNF207, KIAA1217, TPM1 and CALD1 are shown with a sashimi plot. These results suggest that cell junction- and migration-related biological processes are influenced by AS abnormalities, and aberrant splicing events can be affected by splicing factor expression changes. The involved splicing factor SF3B4 was found to be a survival-related gene in ESCC and is presumed to regulate AS in multiple cancers. In summary, we identified significant differentially expressed AS events which may be related to the development of ESCC.

show abstract

<p>Identification of Long Non-Coding RNA <em>SNHG</em> Family as Promising Prognostic Biomarkers in Acute Myeloid Leukemia</p>

Cited by 18 publications

References 18 publications

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

Knockdown of lncRNA SNHG4 suppresses gastric cancer cell proliferation and metastasis by targeting miR-204-5p

Alterations of RNA splicing patterns in esophagus squamous cell carcinoma

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