Identification and Functional Mechanism Verification of Novel MicroRNAs Associated with the Fibrosis Progression in Chronic Kidney Disease
Biochem Genet. 2024 Feb 5. doi: 10.1007/s10528-024-10688-7. Online ahead of print.ABSTRACTChronic kidney disease (CKD) is a serious threat to human health worldwide, and its incidence is increasing annually. A growing amount of information is emerging about the role of micoRNAs (miRNAs) in the regulation of renal fibrosis, which has aroused interest in the development of drugs that block pathogenic miRNAs or restore protective miRNAs levels. To clarify the role of miRNAs in CKD, we selected patients with significant renal fibrotic disease (diabetic nephropathy (DN) and focal segmental glomerulosclerosis (FSGS)) as the dise...
Source: Biochemical Genetics - February 5, 2024 Category: Genetics & Stem Cells Authors: Kaiying He Xiaochun Zhou Jing Zhao Hongxuan Du Juan Guo Rongrong Deng Jianqin Wang Source Type: research
KLK7, KLK10, and KLK11 in Papillary Thyroid Cancer: Bioinformatic Analysis and Experimental Validation
Biochem Genet. 2024 Feb 5. doi: 10.1007/s10528-024-10679-8. Online ahead of print.ABSTRACTDespite many studies on papillary thyroid carcinoma (PTC) in the past few decades, some critical and significant genes remain undiscovered. To explore genes that may play crucial roles in PTC, a detailed analysis of the expression levels, mutations, and clinical significance of Kallikrein-related peptidases (KLKs) family genes in PTC was undertaken to provide new targets for the precise treatment of the disease. A comprehensive analysis of KLK family genes was performed using various online tools, such as GEPIA, Kaplan-Meier Plotter, ...
Source: Biochemical Genetics - February 5, 2024 Category: Genetics & Stem Cells Authors: Tao Ni Ru-Hua Zhao Jing-Fang Wu Chao-You Li Gang Xue Xu Lin Source Type: research
Comprehensive Analysis and Experimental Validation of the Parkinson's Disease Lysosomal Gene ACP2 and Pan-cancer
Biochem Genet. 2024 Feb 3. doi: 10.1007/s10528-023-10652-x. Online ahead of print.ABSTRACTThe pivotal role of lysosomal function in preserving neuronal homeostasis is recognized, with its dysfunction being implicated in neurodegenerative processes, notably in Parkinson's disease (PD). Yet, the molecular underpinnings of lysosome-related genes (LRGs) in the context of PD remain partially elucidated. We collected RNA-seq data from the brain substantia nigra of 30 PD patients and 20 normal subjects from the GEO database. We obtained molecular classification clusters from the screened lysosomal expression patterns. The lysosom...
Source: Biochemical Genetics - February 3, 2024 Category: Genetics & Stem Cells Authors: Yu Liang Guangshang Zhong Yangyang Li Mingxin Ren Ao Wang Mengjiao Ying Changqing Liu Yu Guo Ding Zhang Source Type: research
The Complete Mitochondrial Genome of Chilo infuscatellus (Lepidoptera: Pyralidae), and Related Phylogenetic Analysis
Biochem Genet. 2024 Feb 2. doi: 10.1007/s10528-023-10639-8. Online ahead of print.ABSTRACTThe Chilo infuscatellus (Lepidoptera: Pyralidae) is a significant pest of sugarcane in China. The genome-level characteristics of this pest are important genetic resources for identification, phylogenetic analysis, and even management. In the present study, the complete mitogenome of C. infuscatellus was sequenced and characterized. The assembled mitochondrial genome is 15,252 bp in length and includes 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (rRNAs), and an A + T-rich region. Except for the...
Source: Biochemical Genetics - February 2, 2024 Category: Genetics & Stem Cells Authors: Jiequn Yi Jianbai Liu Yongkai Mao Yinjie Cheng Minjiang Lin Hanliang Xu Yuxing An Jihu Li Han Wu Source Type: research
Development of Gene-Based InDel Markers on Putative Drought Stress-Responsive Genes and Genetic Diversity of Durian (Durio zibethinus)
This study aimed to develop drought-related gene-based InDel markers for durian through bioinformatic analysis of RNA-Seq datasets. The polymorphism of the markers was verified in 24 durian genotypes local to Thailand. Bioinformatic analysis indicated 496 InDel loci having lengths more than 9 bp. To evaluate these InDel markers, 15 InDel loci were selected. Nine markers were successfully amplified a clear polymorphic band pattern on 2% agarose gel. The polymorphic information content (PIC) of these nine markers ranged from 0.1103 to 0.5808. The genetic distance between the 24 genotypes ranged from 0.222 to 0.889. The phylo...
Source: Biochemical Genetics - February 2, 2024 Category: Genetics & Stem Cells Authors: Ponsit Sathapondecha Phassorn Suksri Jiratchaya Nuanpirom Korakot Nakkanong Charassri Nualsri Sukhuman Whankaew Source Type: research
Exploration of Diagnostic Deubiquitinating Enzymes in Endometriosis and Its Immune Infiltration
Biochem Genet. 2024 Feb 1. doi: 10.1007/s10528-023-10653-w. Online ahead of print.ABSTRACTThe mechanism involved in the pathogenesis of endometriosis is poorly understood. The purpose of this study is to identify key deubiquitinating enzymes (DUBs) for endometriosis diagnosis and elucidate the possible mechanism, offering novel insights for noninvasive early diagnosis and treatment. Four gene expression datasets were employed from the Gene Expression Omnibus to identify differentially expressed genes (DEGs) between endometriosis and normal controls. GO and KEGG pathways were performed for enrichment analysis. Calibration c...
Source: Biochemical Genetics - February 1, 2024 Category: Genetics & Stem Cells Authors: Xinyun Yang Kai Yan Qitao Zhan Hao Chen Chang-Zhu Pei Linling Zhu Source Type: research
DCLK1 is Overexpressed and Associated with Immune Cell Infiltration in Hepatocellular Carcinoma
In this study, we used a modified model of the resistant hepatocyte (MRHM) to evaluate DCLK1 expression in HCC. Furthermore, DCLK1 expression in HCC was analyzed using TIMER 2.0, UALCAN, GEPIA, GEO, and HPA web-based tools. Correlations between DCLK1 expression and clinicopathological factors in patients were analyzed using the UALCAN web-based tool. Finally, correlations between DCLK1 and immune infiltrates were investigated using the TIMER 2.0 and TISIDB web-based tools. The results showed that DCLK1 is significantly overexpressed during progression of the HCC carcinogenic process in the MRHM. DCLK1 is overexpressed in H...
Source: Biochemical Genetics - January 31, 2024 Category: Genetics & Stem Cells Authors: Juan Manuel Vel ázquez-Enríquez Renata Cerna Olga Beltr án-Ramírez Carolina Pi ña-Vázquez Sa úl Villa-Treviño Ver ónica Rocío Vásquez-Garzón Source Type: research
Antioxidant Genes Variants and Their Association with Sperm DNA Fragmentation
Biochem Genet. 2024 Jan 31. doi: 10.1007/s10528-023-10559-7. Online ahead of print.ABSTRACTSemen possesses a variety of antioxidant defense mechanisms which protect sperm DNA from the damaging effects of oxidative stress. Correlation between antioxidant genes variants and sperm DNA fragmentation (SDF) level is not sufficiently studied. Therefore, we investigated the association between several single nucleotide polymorphisms (SNPs): CYP1A1 (rs1048943A > G), CYP4F2 (rs2108622G > A), NRF2 (rs6721961C > A), PON1 (rs662A > G), NOS3 (rs1799983G > T), GSTM1 (null), CAT (rs1001179C > T), SOD2 (rs4880A > G), G...
Source: Biochemical Genetics - January 31, 2024 Category: Genetics & Stem Cells Authors: Fadel A Sharif Mohammed J Ashour Hadeer N Abuwarda Soher Ismail Noor Salem Raed Suleiman Nora Hassouna Source Type: research
FOXE1 Gene is a Probable Tumor Suppressor Gene with Decreased Expression as Papillary Thyroid Cancers Grow, and is Absent in Anaplastic Thyroid Cancers
Biochem Genet. 2024 Jan 31. doi: 10.1007/s10528-023-10642-z. Online ahead of print.ABSTRACTPapillary thyroid carcinoma (PTC), the most prevalent cancer of the thyroid, is more common in women than in men. To uncover the expression profile of FOXE1 gene in PTC tumor etiology. Microarray and RNA sequencing data on PTC in humans were analyzed. Eleven PTC tumor tissue samples and their neighboring normal tissue samples were collected. RT-qPCR was performed. Data normality, ROC construction, and logistic regression analysis were conducted. PTC tumors, normal tissues surrounding tumors, patients of different sexes and ages, meta...
Source: Biochemical Genetics - January 31, 2024 Category: Genetics & Stem Cells Authors: Roya Hajian Seyed-Morteza Javadirad Mohsen Kolahdouzan Source Type: research
Clinical and Immunological Significance of ANKRD52 in Pan-Cancer
Biochem Genet. 2024 Jan 31. doi: 10.1007/s10528-023-10645-w. Online ahead of print.ABSTRACTAnkyrin repeat domain 52 (ANKRD52) is a regulatory component of the protein phosphatase 6 (PP6) holoenzyme. Evidence has emerged to suggest involvement of ANKRD52 in tumor metastases and cancer cell escape from T cell-mediated elimination and immunotherapy but there has been no research across different cancer types. The current study explored the biological functions of ANKRD52 by combining data from many databases. The aim was to expose new diagnostic or treatment biomarkers for malignant tumors. The roles of ANKRD52 with respect t...
Source: Biochemical Genetics - January 31, 2024 Category: Genetics & Stem Cells Authors: Hui-Zi Yin Meng-Chun Zhang Hao Wu Source Type: research
A Comprehensive Metagenome Study Identifies Distinct Biological Pathways in Asthma Patients: An In-Silico Approach
Biochem Genet. 2024 Jan 29. doi: 10.1007/s10528-023-10635-y. Online ahead of print.ABSTRACTAsthma is a multifactorial disease with phenotypes and several clinical and pathophysiological characteristics. Besides innate and adaptive immune responses, the gut microbiome generates Treg cells, mediating the allergic response to environmental factors and exposure to allergens. Because of the complexity of asthma, microbiome analysis and other precision medicine methods are now widely regarded as essential elements of efficient disease therapy. An in-silico pipeline enables the comparative taxonomic profiling of 16S rRNA metageno...
Source: Biochemical Genetics - January 29, 2024 Category: Genetics & Stem Cells Authors: Samiksha Rana Pooja Singh Tulika Bhardwaj Pallavi Somvanshi Source Type: research
NPC1L1 rs217434 A & gt; G as a Novel Single Nucleotide Polymorphism Related to Dyslipidemia in a Korean Population
This study provided evidence for a relationship between the NPC1L1 rs217434 A > G genotype and dyslipidemia in the Korean population, which highlights the potential of the NPC1L1 rs217434 A > G genotype as an early predictor of dyslipidemia.PMID:38280151 | DOI:10.1007/s10528-023-10649-6 (Source: Biochemical Genetics)
Source: Biochemical Genetics - January 27, 2024 Category: Genetics & Stem Cells Authors: Dahyun Cho Ximei Huang Youngmin Han Minjoo Kim Source Type: research
Transcriptome Sequencing and Mass Spectrometry Reveal Genes Involved in the Non-mendelian Inheritance-Mediated Feather Growth Rate in Chicken
This study helps to elucidate the potential mechanism of the feather growth rate in chickens that do not conform to genetic law.PMID:38280152 | DOI:10.1007/s10528-023-10643-y (Source: Biochemical Genetics)
Source: Biochemical Genetics - January 27, 2024 Category: Genetics & Stem Cells Authors: Mohan Qiu Zengrong Zhang Shiliang Zhu Siyang Liu Han Peng Xia Xiong Jialei Chen Chenming Hu Li Yang Xiaoyan Song Bo Xia Chunlin Yu Chaowu Yang Source Type: research
Association of Interleukin 23 Receptor Polymorphisms with Predisposition to Rheumatoid Arthritis: An Updated Meta and Trial Sequential Analysis
Biochem Genet. 2024 Jan 25. doi: 10.1007/s10528-023-10644-x. Online ahead of print.ABSTRACTThe etiology of Rheumatoid Arthritis (RA) development remained unclear, and several factors, such as environmental, genetic, and immune system dysfunction, have been attributed to the susceptibility. Interleukin 23 (IL23) induces expansion of the Th17 cells through the IL-23 receptor (IL-23R) and believes in playing a major role in RA pathogenesis. Various genetic mutants in the IL23R gene (rs10489629, rs1343151, rs2201841, rs7517847, rs1004819, rs10889677, rs11209026, rs7530511) have been associated with the susceptibility RA, but r...
Source: Biochemical Genetics - January 25, 2024 Category: Genetics & Stem Cells Authors: Surjyapratap Sarangi Debashis Barik Suraj Kumar Nahak Aditya K Panda Source Type: research
Prognostic Value of CXCR6 and the Correlation with Immune Infiltration in the Microenvironment of Skin Cutaneous Melanoma
In this study, we aimed to investigate the expression characteristics of CXCRs in SKCM tissues, analyze their prognostic value and the correlation with immune cell infiltration. Multiple public databases were used for exploration, including GEPIA2, GSCA, ULCAN, Metascape, STRING, TIMER2.0, HPA, and Cistrome DB database. And a confirmation experiment was conducted on melanoma mice with flow cytometry. Compared with normal tissues, lower expression of CXCR2/7/8 and higher expression of CXCR3/4 were found in SKCM tissues. CXCR3/4/6 were abnormally expressed in each pathological stage. Moreover, CXCRs were closely related to i...
Source: Biochemical Genetics - January 25, 2024 Category: Genetics & Stem Cells Authors: Guiqing Ding Tong Zhang Hua Yu Jinyun Ma Yuanhua Wang Yuxin Chen Xiaodong Cheng Source Type: research
