PCGIMA: developing the web server for human position-defined CpG islands methylation analysis
This study develops Human position-defined CGI prediction method to locate CpG islets using high performance computing, and then builds up a novel human genome annotation and analysis method to investigate the connections among CGI, gene expression and methylation. Finally, we integrate these functions into PCGIMA to provide relevant online computing and visualization service.Results: The main results include: (1) Human position-defined CGI prediction method is more efficient to predict position-defined CGIs with multiple consecutive (d) values and locate more potential short CGIs than previous CGI prediction methods. (2) ...
Source: Frontiers in Genetics - March 13, 2024 Category: Genetics & Stem Cells Source Type: research
The dynamic world of RNA: beyond translation to subcellular localization and function
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 12, 2024 Category: Genetics & Stem Cells Source Type: research
Corrigendum: Extension of mitogenome enrichment based on single long-range PCR: mtDNAs and putative mitochondrial-derived peptides of five rodent hibernators
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 12, 2024 Category: Genetics & Stem Cells Source Type: research
LncRNA-mediated ceRNA network reveals the mechanism of action of Saorilao-4 decoction against pulmonary fibrosis
Conclusion: Our findings suggest that SRL-4 improves PF by regulating the lncRNA-miRNA-mRNA network. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 12, 2024 Category: Genetics & Stem Cells Source Type: research
Integrative analysis identifies cancer cell-intrinsic RARRES1 as a predictor of prognosis and immune response in triple-negative breast cancer
In conclusion, this study characterized the heterogeneity of cellular components in TME of TNBC patients, and brought new insights into the relationship between cancer cells and TME. In addition, RARRES1 was identified as a potential predictor of prognosis and response to ICIs in TNBC. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 12, 2024 Category: Genetics & Stem Cells Source Type: research
Corrigendum: The maternal U1 haplogroup in the Koraga tribe as a correlate of their North Dravidian linguistic affinity
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 12, 2024 Category: Genetics & Stem Cells Source Type: research
Corrigendum: Chromatin structure and context-dependent sequence features control prime editing efficiency
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 11, 2024 Category: Genetics & Stem Cells Source Type: research
Corrigendum: Evolutionary tracks of chromosomal diversification in surgeonfishes (Acanthuridae: Acanthurus) along the world ’s biogeographic domains
(Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 11, 2024 Category: Genetics & Stem Cells Source Type: research
Salivary miRNAs as auxiliary liquid biopsy biomarkers for diagnosis in patients with oropharyngeal squamous cell carcinoma: a systematic review and meta-analysis
Conclusion: Combined blood- and saliva-derived miRNAs demonstrated a high diagnostic accuracy in detecting oropharyngeal squamous cell carcinoma.Systematic review registration:https://www.crd.york.ac.uk/prospero/display_record.php?ID=CRD42024509424. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 11, 2024 Category: Genetics & Stem Cells Source Type: research
A case report of Pallister-Killian syndrome with an unusual mosaic supernumerary marker chromosome 12 with interstitial 12p13.1-p12.1 duplication
Pallister-Killian syndrome (PKS) is a rare inherited disease with multiple congenital anomalies, profound intellectual disability, and the presence in the karyotype of sSMC - i(12)(p10). The frequency of PKS may be underestimated due to problems with cytogenetic diagnosis caused by tissue-specific mosaicism and usually a low percentage of peripheral blood cells containing sSMC. Such tissue-specific mosaicism also complicates a detailed analysis of the sSMC, which, along with the assessment of mosaicism in different tissues, is an important part of cytogenetic diagnosis in PKS. Unfortunately, a full-fledged diagnosis in PKS...
Source: Frontiers in Genetics - March 11, 2024 Category: Genetics & Stem Cells Source Type: research
Case report: Novel SIN3A loss-of-function variant as causative for hypogonadotropic hypogonadism in Witteveen –Kolk syndrome
In conclusion, these findings point to SIN3A as the gene in 15q24 related to the reproductive phenotype in patients with overlapping WITKOS and Kallmann syndrome. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 11, 2024 Category: Genetics & Stem Cells Source Type: research
Fibroblast heterogeneity and functions: insights from single-cell sequencing in wound healing, breast cancer, ovarian cancer and melanoma
Cancer has been described as the wound that does not heal, in large part due to fibroblast involvement. Activation of cancer-associated fibroblasts (CAFs) contributes to critical features of the tumor microenvironment, including upregulation of key marker proteins, recruitment of immune cells, and deposition of extracellular matrix (ECM)—similar to fibroblast activation in injury-induced wound healing. Prior to the widespread availability of single-cell RNA sequencing (scRNA seq), studies of CAFs or fibroblasts in wound healing largely relied on models guided by individual fibroblast markers, or methods with less resolut...
Source: Frontiers in Genetics - March 8, 2024 Category: Genetics & Stem Cells Source Type: research
Dual-transgenic BiFC vector systems for protein-protein interaction analysis in plants
Protein-protein interaction (PPI) play a pivotal role in cellular signal transduction. The bimolecular fluorescence complementation (BiFC) assay offers a rapid and intuitive means to ascertain the localization and interactions of target proteins within living cells. BiFC is based on fluorescence complementation by reconstitution of a functional fluorescent protein by co-expression of N- and C-terminal fragments of this protein. When fusion proteins interact, the N- and C-terminal fragments come into close proximity, leading to the reconstitution of the fluorescent protein. In the conventional approach, the N-terminal and C...
Source: Frontiers in Genetics - March 8, 2024 Category: Genetics & Stem Cells Source Type: research
Impact of persistent barrier to gene flow and catastrophic events on red algae evolutionary history along the Chilean coast
Historical vicariance events, linked to the existence of stable physical barriers to gene flow, generate concordant genetic breaks in co-distributed species while stochastic processes (e.g., costal uplift) could cause species-specific genetic breaks as a result of local strong demographic bottlenecks or extinction. In Chile, previous studies show that the area of the 30°S-33°S could correspond to a stable barrier to gene flow that have affected the genetic structure of various algae and marine invertebrates. Here we sequenced two organellar genes (COI and rbcL) in four taxonomically accepted co-distributed red seaweeds s...
Source: Frontiers in Genetics - March 8, 2024 Category: Genetics & Stem Cells Source Type: research
Neurodevelopmental disorders as a risk factor for temporomandibular disorder: evidence from Mendelian randomization studies
Conclusion: This study reveals the elevated risk of various TMD aspects due to ADHD. Furthermore, we discuss the link between low vitamin D levels ADHD and TMD. Future research should address these limitations and delve further into the complex interactions between ADHD, ASD, TD, and TMD. (Source: Frontiers in Genetics)
Source: Frontiers in Genetics - March 8, 2024 Category: Genetics & Stem Cells Source Type: research
