Quantitative Analysis of Differential Expression of HOX Genes in Multiple Cancers

Adato, Orit; Orenstein, Yaron; Kopolovic, Juri; Juven‐Gershon, Tamar; Unger, Ron

doi:10.3390/cancers12061572

Cited by 5 publications

(6 citation statements)

References 65 publications

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“…The HOX gene family is highly conserved across species; according to the distribution of the HOX gene family in different chromosomes, four subgroups with genomic clusters of A-D were established (6,7). Primarily, the HOX gene family drives normal cellular differentiation and morphogenesis in embryonic stages, and regulates normal tissue morphology in adults (8). HOX genes have been reported to be abnormally expressed in leukemia, breast and gastric cancer (9,10).…”

Section: Introductionmentioning

confidence: 99%

Low HOXC10 expression in liver cancer regulates proliferation via a mechanism involving miR‑221 and the MAPK signaling pathway

Zhao

Guo

et al. 2020

Oncol Lett

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Homeodomain-containing gene 10 (HOXC10) is associated with the progression of a variety of different types of human cancer; however, the role of HOXC10 in liver cancer is not completely understood. The present study aimed to investigate the mechanisms underlying the effects of HOXC10 on liver cancer tumorigenesis. Quantitative PCR and western blotting were used to detect the expression patterns of HOXC10 in cancer and adjacent healthy tissues. EdU, Cell Counting Kit-8 and colony formation assays were used to determine the functions of HOXC10 in liver cancer cell lines. ENCORI, TargetScan and miRTarBase were used to identify microRNAs that target HOXC10. The verification of the interaction between HOXC10 and microRNA-221 was determined by a luciferase assay. Compared with adjacent non-cancerous tissues, the expression of HOXC10 was markedly decreased in liver cancer tissues. A HOXC10 small interfering (si)RNA significantly attenuated HOXC10 expression at the mRNA and protein levels, and enhanced cell proliferation compared with the siRNA-negative control group. In addition, the luciferase reporter assay indicated that microRNA-221 directly bound to the 3'-untranslated region of HOXC10, and interfered with the inhibitory effect of HOXC10 on proliferation. In addition, HOXC10 knockdown elevated the expression levels of mitogen-activated protein kinase signaling pathway markers compared with the siRNA-negative control group. Therefore, the results of the present study may aid with the development of novel therapeutic regimens and diagnostic markers of liver cancer.

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Section: Introductionmentioning

confidence: 99%

Low HOXC10 expression in liver cancer regulates proliferation via a mechanism involving miR‑221 and the MAPK signaling pathway

Zhao

Guo

et al. 2020

Oncol Lett

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“…Except for diagnosis, we hope to know the special genes of every type as receptors to develop drugs. So, finding the differential genes among muti subtypes of one disease is of clinical and curable significance [22][23][24]. But, the traditional method has little effect for multi-classification and deep learning can deal well with it.…”

Section: Introductionmentioning

confidence: 99%

Finding Group Gene Biomarkers by improved LRP algoirthm and Intersection Selection Idea

Zheng,

Qing,

Yuan

et al. 2024

Preprint

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Gene Biomarkers is valuable to the medical mechanism and drug targets. But it is very hard to find the accurate biomarkers. The traditional bioinfomatical methods and machine learning both focus on binary classified methods. However, it is also important to find precised biomarkers for one disease consisting of many subtypes. Deep learning can deal well with multi-classification. But, finding gene biomarker is short of good related methods. LRP is one of interpretable methods in deep learning. It is more valid for MLP-likelihood networks. Since LRP method just finds the features for one sample not for a group composed of many samples with the common features. In this paper,we propose an improved LRP to represent features for a group, not for a single sample. In addition, to make up the inaccuracy of the method, we propose to use the feature intersection of genes from two MLP-likehood models as the biomarkers. To find the two MLP-likelihood models, we construct a two-way MLP-likelihood network ConvAttMLPA, inspired by NFM network. Then, select any two models from MLP, NFM and ConvAttnMLPA, to compute feature genes based on improved LRP. To validate this method, we propose an evaluation method and based on it, find the best genes as biomarkers.

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“…HOX genes encode a family of highly evolutionarily conserved homeodomain-containing transcription factors [ 1 , 2 ]. The dysregulation of HOX gene expression plays a key role in the regulation of tumorigenesis [ 3 , 4 ]. As a member of the HOX gene family, HOXA13 has been specifically implicated as the critical factor of the progression of some cancers [ 5 , 6 ].…”

Section: Introductionmentioning

confidence: 99%

HOXA13 promotes gastric cancer progression partially via the FN1-mediated FAK/Src axis

Qin

Zhou

2022

Exp Hematol Oncol

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Background Gastric cancer (GC) is one of the most common cancers causing a poor prognosis worldwide. HOXA13, as a member of the homeobox (HOX) family, is involved in the regulation of cancer progression and has attracted increasing attention, as a potential novel target for anticancer strategies. However, the significance of HOXA13 in GC remains unclear. This article aims to explore the potential mechanism of HOXA13 in GC progression. Methods Quantitative real-time PCR was carried out to detect the expression of HOXA13 and FN1 and the correlation between HOXA13 and FN1 in GC tissues. In vitro assays were conducted to investigate the role of HOXA13 and FN1 in the malignant phenotypes of GC cells and the function of HOXA13 in the activation of the FAK/Src axis in GC cells. Coimmunoprecipitation was performed to reveal the relationship between ITGA5, ITGB1 and FN1 in GC cells. A dual luciferase assay was performed to assess miR-449a-targeted regulation of HOXA13 expression. Results Quantitative real-time PCR verified that HOXA13 was elevated and positively correlated with FN1 in GC. In vitro and in vivo assays demonstrated that high expression of HOXA13 promoted GC progression, especially metastasis. Mechanistically, rescue experiments, chromatin immunoprecipitation and dual luciferase assays revealed that HOXA13 directly bound to the FN1 promoter region to enhance the activation of the FAK/Src axis, leading to GC cell proliferation and metastasis. Furthermore, the result of a dual luciferase assay suggested that HOXA13 was directly targeted by miR-449a. Conclusions Our results show that HOXA13 is a positive regulator of the FAK/Src axis mediated by FN1 in GC and promotes GC progression. Thus, targeting HOXA13, together with FN1, may provide a novel prospective anticancer strategy.

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Quantitative Analysis of Differential Expression of HOX Genes in Multiple Cancers

Cited by 5 publications

References 65 publications

Low HOXC10 expression in liver cancer regulates proliferation via a mechanism involving miR‑221 and the MAPK signaling pathway

Low HOXC10 expression in liver cancer regulates proliferation via a mechanism involving miR‑221 and the MAPK signaling pathway

Finding Group Gene Biomarkers by improved LRP algoirthm and Intersection Selection Idea

HOXA13 promotes gastric cancer progression partially via the FN1-mediated FAK/Src axis

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