Hox genes regulate the onset of Tbx5 expression in the forelimb

: HOX genes belong to the highly conserved homeobox superfamily, responsible for the regulation of various cellular processes that control cell homeostasis, from embryogenesis to carcinogenesis. The abnormal expression of HOX genes is observed in various cancers, including breast cancer; they act as oncogenes or as suppressors of cancer, according to context. In this review, we analyze HOX gene expression patterns in breast cancer and examine their relationship, based on the three-dimensional genome structure of the HOX locus. The presence of non-coding RNAs, embedded within the HOX cluster, and the role of these molecules in breast cancer have been reviewed. We further evaluate the characteristic activity of HOX protein in breast cancer and its therapeutic potential.

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PATH-25. SURVIVAL STRATIFICATION OF IDH MUTANT GLIOMA USING METHYLATION AND mRNA ANALYSIS OF HOX GENES

Neuro-Oncology ◽

10.1093/neuonc/noy148.681 ◽

2018 ◽

Vol 20 (suppl_6) ◽

pp. vi163-vi164

Author(s):

Yasin Mamatjan ◽

Severa Bunda ◽

Fabio Moraes ◽

Suganth Suppiah ◽

Pardeep Heir ◽

...

Keyword(s):

Hox Genes ◽

Mrna Analysis

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Hox dosage contributes to flight appendage morphology in Drosophila

Nature Communications ◽

10.1038/s41467-021-23293-8 ◽

2021 ◽

Vol 12 (1) ◽

Author(s):

Rachel Paul ◽

Guillaume Giraud ◽

Katrin Domsch ◽

Marilyne Duffraisse ◽

Frédéric Marmigère ◽

...

Keyword(s):

Drosophila Melanogaster ◽

Differential Expression ◽

Hox Genes ◽

Expression Profiles ◽

Fruit Fly ◽

Insect Species ◽

Wing Morphology ◽

Hox Proteins ◽

Spatial Expression ◽

Flying Insects

AbstractFlying insects have invaded all the aerial space on Earth and this astonishing radiation could not have been possible without a remarkable morphological diversification of their flight appendages. Here, we show that characteristic spatial expression profiles and levels of the Hox genes Antennapedia (Antp) and Ultrabithorax (Ubx) underlie the formation of two different flight organs in the fruit fly Drosophila melanogaster. We further demonstrate that flight appendage morphology is dependent on specific Hox doses. Interestingly, we find that wing morphology from evolutionary distant four-winged insect species is also associated with a differential expression of Antp and Ubx. We propose that variation in the spatial expression profile and dosage of Hox proteins is a major determinant of flight appendage diversification in Drosophila and possibly in other insect species during evolution.

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The landscape of gene co-expression modules correlating with prognostic genetic abnormalities in AML

Journal of Translational Medicine ◽

10.1186/s12967-021-02914-2 ◽

2021 ◽

Vol 19 (1) ◽

Author(s):

Chao Guo ◽

Ya-yue Gao ◽

Qian-qian Ju ◽

Chun-xia Zhang ◽

Ming Gong ◽

...

Keyword(s):

Regression Analysis ◽

Prediction Model ◽

Hox Genes ◽

Expression Profiles ◽

Penalized Regression ◽

Diagnostic Utility ◽

Lasso Regression ◽

Hub Genes ◽

Npm1 Mutation ◽

Genetic Abnormalities

Abstract Background The heterogenous cytogenetic and molecular variations were harbored by AML patients, some of which are related with AML pathogenesis and clinical outcomes. We aimed to uncover the intrinsic expression profiles correlating with prognostic genetic abnormalities by WGCNA. Methods We downloaded the clinical and expression dataset from BeatAML, TCGA and GEO database. Using R (version 4.0.2) and ‘WGCNA’ package, the co-expression modules correlating with the ELN2017 prognostic markers were identified (R2 ≥ 0.4, p < 0.01). ORA detected the enriched pathways for the key co-expression modules. The patients in TCGA cohort were randomly assigned into the training set (50%) and testing set (50%). The LASSO penalized regression analysis was employed to build the prediction model, fitting OS to the expression level of hub genes by ‘glmnet’ package. Then the testing and 2 independent validation sets (GSE12417 and GSE37642) were used to validate the diagnostic utility and accuracy of the model. Results A total of 37 gene co-expression modules and 973 hub genes were identified for the BeatAML cohort. We found that 3 modules were significantly correlated with genetic markers (the ‘lightyellow’ module for NPM1 mutation, the ‘saddlebrown’ module for RUNX1 mutation, the ‘lightgreen’ module for TP53 mutation). ORA revealed that the ‘lightyellow’ module was mainly enriched in DNA-binding transcription factor activity and activation of HOX genes. The ‘saddlebrown’ module was enriched in immune response process. And the ‘lightgreen’ module was predominantly enriched in mitosis cell cycle process. The LASSO- regression analysis identified 6 genes (NFKB2, NEK9, HOXA7, APRC5L, FAM30A and LOC105371592) with non-zero coefficients. The risk score generated from the 6-gene model, was associated with ELN2017 risk stratification, relapsed disease, and prior MDS history. The 5-year AUC for the model was 0.822 and 0.824 in the training and testing sets, respectively. Moreover, the diagnostic utility of the model was robust when it was employed in 2 validation sets (5-year AUC 0.743–0.79). Conclusions We established the co-expression network signature correlated with the ELN2017 recommended prognostic genetic abnormalities in AML. The 6-gene prediction model for AML survival was developed and validated by multiple datasets.

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