Pan-cancer and single-cell analysis reveal THRAP3 as a prognostic and immunological biomarker for multiple cancer types
Conclusion: Our findings uncover that THRAP3 is a promising prognostic biomarker and immunotherapeutic target in multiple cancers, but in LUAD and LUSC, it may be a protective gene. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 25, 2024 Category: Genetics & Stem Cells Source Type: research
Artificial intelligence and database for NGS-based diagnosis in rare disease
Rare diseases (RDs) are rare complex genetic diseases affecting a conservative estimate of 300 million people worldwide. Recent Next-Generation Sequencing (NGS) studies are unraveling the underlying genetic heterogeneity of this group of diseases. NGS-based methods used in RDs studies have improved the diagnosis and management of RDs. Concomitantly, a suite of bioinformatics tools has been developed to sort through big data generated by NGS to understand RDs better. However, there are concerns regarding the lack of consistency among different methods, primarily linked to factors such as the lack of uniformity in input and ...
Source: Frontiers in Genetics - January 25, 2024 Category: Genetics & Stem Cells Source Type: research
Editorial: Application of genomics in livestock populations under selection or conservation
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 24, 2024 Category: Genetics & Stem Cells Source Type: research
RECCIPE: A new framework assessing localized cell-cell interaction on gene expression in multicellular ST data
Cell-cell interaction (CCI) plays a pivotal role in cellular communication within the tissue microenvironment. The recent development of spatial transcriptomics (ST) technology and associated data analysis methods has empowered researchers to systematically investigate CCI. However, existing methods are tailored to single-cell resolution datasets, whereas the majority of ST platforms lack such resolution. Additionally, the detection of CCI through association screening based on ST data, which has complicated dependence structure, necessitates proper control of false discovery rates due to the multiple hypothesis testing is...
Source: Frontiers in Genetics - January 24, 2024 Category: Genetics & Stem Cells Source Type: research
Evaluation and identification of powdery mildew-resistant genes in 137 wheat relatives
This study not only provides reference information and valuable germplasm resources for breeding new wheat varieties with disease resistance but also lays a foundation for enriching the genetic basis of wheat resistance to powdery mildew. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 24, 2024 Category: Genetics & Stem Cells Source Type: research
Inherited bone marrow failure syndromes: phenotype as a tool for early diagnostic suspicion at a major reference center in Mexico
Conclusions: Thorough examination of reported clinical data allowed us to highly suspect a specific IBMFS in approximately 70% of patients; however, an important number of patients remained with suspicion of an undefined IBMFS. Implementation of NGS and telomere length measurement are forthcoming measures to improve IBMFS diagnosis in Mexico. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 24, 2024 Category: Genetics & Stem Cells Source Type: research
Endometrial DNA methylation signatures during the time of breeding in relation to the pregnancy outcome in postpartum dairy cows fed a control diet or supplemented with rumen-protected methionine
Post calving metabolic stress reduces the fertility of high producing dairy cows possibly by altering the expression of genes in the maternal environment via epigenetic modifications. Therefore, this study was conducted to identify endometrial DNA methylation marks that can be associated with pregnancy outcomes in postpartum cows at the time of breeding. For this, twelve days post-calving, cows were either offered a control diet or supplemented daily with rumen-protected methionine. Cows showing heat 50–64 days postpartum were artificially inseminated. Endometrial cytobrush samples were collected 4–8 h after artifici...
Source: Frontiers in Genetics - January 24, 2024 Category: Genetics & Stem Cells Source Type: research
Integrated transcriptome and cell phenotype analysis suggest involvement of PARP1 cleavage, Hippo/Wnt, TGF- β and MAPK signaling pathways in ovarian cancer cells response to cannabis and PARP1 inhibitor treatment
Conclusion: The synergistic effect of the niraparib + F7 may result from the treatment affecting multiple genetic pathways involving cell death and reducing mesenchymal characteristics. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 23, 2024 Category: Genetics & Stem Cells Source Type: research
Molecular circuit for exponentiation based on the domain coding strategy
DNA strand displacement (DSD) is an efficient technology for constructing molecular circuits. However, system computing speed and the scale of logical gate circuits remain a huge challenge. In this paper, a new method of coding DNA domains is proposed to carry out logic computation. The structure of DNA strands is designed regularly, and the rules of domain coding are described. Based on this, multiple-input and one-output logic computing modules are built, which are the basic components forming digital circuits. If the module has n inputs, it can implement 2n logic functions, which reduces the difficulty of designing and ...
Source: Frontiers in Genetics - January 23, 2024 Category: Genetics & Stem Cells Source Type: research
Chronic stress from adolescence to adulthood increases adiposity and anxiety in rats with decreased expression of Krtcap3
We previously identified Keratinocyte-associated protein 3, Krtcap3, as a novel adiposity gene, but subsequently found that its impact on adiposity may depend on environmental stress. To more thoroughly understand the connection between Krtcap3, adiposity, and stress, we exposed wild-type (WT) and Krtcap3 knock-out (KO) rats to chronic stress then measured adiposity and behavioral outcomes. We found that KO rats displayed lower basal stress than WT rats under control conditions and exhibited metabolic and behavioral responses to chronic stress exposure. Specifically, stress-exposed KO rats gained more weight, consumed more...
Source: Frontiers in Genetics - January 23, 2024 Category: Genetics & Stem Cells Source Type: research
Forensic analysis and sequence variation of 133 STRs in the Hakka population
In this study, we obtained genotype data for 52 A-STRs and 81 Y-STRs from the Hakka population in Meizhou, Guangdong, China, using the Forensic Analysis System Multiplecues SetB Kit on the MGISEQ-2000 platform.Results: Our findings demonstrate that these 133 STRs are highly efficient for forensic applications within the Meizhou Hakka population. Statistical analysis revealed Hobs values ranging from 0.61306 to 0.91083 and Hexp values ranging from 0.59156 to 0.91497 for A-STRs based on length polymorphism. For sequence polymorphism, Hobs values ranged from 0.61306 to 0.94586, and Hexp values fluctuated between 0.59156 and 0...
Source: Frontiers in Genetics - January 22, 2024 Category: Genetics & Stem Cells Source Type: research
The value of genome-wide analysis in craniosynostosis
Conclusion: These results confirm WGS/WES as a powerful diagnostic tool capable of either targeted in silico or broad genomic analysis depending on phenotypic presentation (e.g., classical or unusual forms of syndromic CS). (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 22, 2024 Category: Genetics & Stem Cells Source Type: research
Editorial: Recent advances in the molecular genetics and precision medicine of lung carcinoma
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 22, 2024 Category: Genetics & Stem Cells Source Type: research
Genome-wide identification and expression analysis of the C2H2-zinc finger transcription factor gene family and screening of candidate genes involved in floral development in Coptis teeta Wall. (Ranunculaceae)
Conclusion: These data provide a solid basis for further in-depth studies of the C2H2 zinc finger transcription factor gene family in this species and provide preliminary information on which to base further research into the role of the C2H2 ZFPs gene family in floral development in C. teeta. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 22, 2024 Category: Genetics & Stem Cells Source Type: research
Liver function indicators and risk of hepatocellular carcinoma: a bidirectional mendelian randomization study
This study provides evidence to support that genetically predicted higher levels of AST are related to increased risk of HCC, with no strong evidence of a causal effect of genetically predicted ALP, ALP, and GGT on HCC. In addition, genetic predisposition to HCC could influence blood concentration of ALT, AST, and ALP. Thus, this may create a vicious cycle. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - January 22, 2024 Category: Genetics & Stem Cells Source Type: research
