journal
https://read.qxmd.com/read/38740982/fbxo11-variants-are-associated-with-intellectual-disability-and-variable-clinical-manifestation-in-chinese-affected-individuals
#1
JOURNAL ARTICLE
Xin Pan, Li Liu, Xu Zhang, Xianglan Tang, Guanhua Qian, Hao Qiu, Shuhong Lin, Hong Yao, Xiaojing Dong, Bo Tan
F-box protein 11 (FBXO11) is a member of F-Box protein family, which has recently been proved to be associated with intellectual developmental disorder with dysmorphic facies and behavioral abnormalities (IDDFBA, OMIM: 618089). In this study, 12 intellectual disability individuals from 5 Chinese ID families were collected, and whole exome sequencing (WES), sanger sequencing, and RNA sequencing (RNA-seq) were conducted. Almost all the affected individuals presented with mild to severe intellectual disability (12/12), global developmental delay (10/12), speech and language development delay (8/12) associated with a range of alternate features including increased body weight (7/12), short stature (6/12), seizures (3/12), reduced visual acuity (4/12), hypotonia (1/12), and auditory hallucinations and hallucinations (1/12)...
May 13, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38730006/fundamentals-for-predicting-transcriptional-regulations-from-dna-sequence-patterns
#2
REVIEW
Masaru Koido, Kohei Tomizuka, Chikashi Terao
Cell-type-specific regulatory elements, cataloged through extensive experiments and bioinformatics in large-scale consortiums, have enabled enrichment analyses of genetic associations that primarily utilize positional information of the regulatory elements. These analyses have identified cell types and pathways genetically associated with human complex traits. However, our understanding of detailed allelic effects on these elements' activities and on-off states remains incomplete, hampering the interpretation of human genetic study results...
May 10, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38730005/a-novel-pathogenic-mitochondrial-dna-variant-m-4344t-c-in-trna-gln-causes-developmental-delay
#3
JOURNAL ARTICLE
Xiaojie Yin, Qiyu Dong, Shuanglong Fan, Lina Yang, Hao Li, Yijun Jin, Mahlatsi Refiloe Laurentinah, Xiandan Chen, Aliaksei Sysa, Hezhi Fang, Jianxin Lyu, Yongguo Yu, Ya Wang
Mitochondrial diseases are a group of genetic diseases caused by mutations in mitochondrial DNA and nuclear DNA. However, the genetic spectrum of this disease is not yet complete. In this study, we identified a novel variant m.4344T>C in mitochondrial tRNAGln from a patient with developmental delay. The mutant loads of m.4344T>C were 95% and 89% in the patient's blood and oral epithelial cells, respectively. Multialignment analysis showed high evolutionary conservation of this nucleotide. TrRosettaRNA predicted that m...
May 10, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38714835/exploring-the-relationship-between-admixture-and-genetic-susceptibility-to-attention-deficit-hyperactivity-disorder-in-two-latin-american-cohorts
#4
JOURNAL ARTICLE
Nicolás Garzón Rodríguez, Ignacio Briceño-Balcázar, Humberto Nicolini, José Jaime Martínez-Magaña, Alma D Genis-Mendoza, Julio C Flores-Lázaro, Jorge A Villatoro Velázquez, Marycarmen Bustos Gamiño, Maria Elena Medina-Mora, Maria Fernanda Quiroz-Padilla
Contemporary research on the genomics of Attention Deficit Hyperactivity Disorder (ADHD) often underrepresents admixed populations of diverse genomic ancestries, such as Latin Americans. This study explores the relationship between admixture and genetic associations for ADHD in Colombian and Mexican cohorts. Some 546 participants in two groups, ADHD and Control, were genotyped with Infinium PsychArray®. Global ancestry levels were estimated using overall admixture proportions and principal component analysis, while local ancestry was determined using a method to estimate ancestral components along the genome...
May 7, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38664537/prevalence-of-fsh-r-asn680ser-and-ala307thr-receptor-polymorphism-and-their-correlation-with-art-outcomes-among-infertile-indian-asian-women-a-prospective-cohort-study
#5
JOURNAL ARTICLE
Reeta Mahey, Monika Rajput, Rima Dada, Mani Kalaivani, Monica Gupta, Rohitha Cheluvaraju, Neena Malhotra, Monika Saini, Ashok Bhatt, Manoj Kumar, Neeta Singh, Neerja Bhatla
The present prospective cohort study evaluated the prevalence of FSH-R receptor Asn680Ser and Ala307Thr among infertile Indian women and the correlation of these polymorphisms with ART outcomes. Total 804 infertile and 209 fertile controls were enrolled for FSH-R analysis. Correlation of different genotypes with ovarian reserve markers, IVF parameters, and cumulative live birth rates (CLBR) was done among women undergoing IVF. In fertile controls, at 680 position GG (Ser/Ser) was the most common genotype; but among infertile women, all the genotypes were equally distributed...
April 25, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38649436/mediation-role-of-dna-methylation-in-association-between-handgrip-strength-and-cognitive-function-in-monozygotic-twins
#6
JOURNAL ARTICLE
Jin Liu, Weijing Wang, Jia Luo, Haiping Duan, Chunsheng Xu, Xiaocao Tian, Shumin Chen, Lin Ge, Dongfeng Zhang
Handgrip strength is a crucial indicator to monitor the change of cognitive function over time, but its mechanism still needs to be further explored. We sampled 59 monozygotic twin pairs to explore the potential mediating effect of DNA methylation (DNAm) on the association between handgrip strength and cognitive function. The initial step was the implementation of an epigenome-wide association analysis (EWAS) in the study participants, with the aim of identifying DNAm variations that are associated with handgrip strength...
April 23, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38632380/exploring-inheritance-and-clinical-penetrance-of-distal-xq28-duplication-syndrome-insights-from-47-new-unpublished-cases
#7
JOURNAL ARTICLE
Michal Levy, Eyal Elron, Mordechai Shohat, Shira Lifshitz, Sarit Kahana, Hagit Shani, Anat Grossman, Shirly Amar, Ginat Narkis, Lena Sagi-Dain, Lina Basel-Salmon, Idit Maya
BACKGROUND: Distal Xq28 duplication, or int22h1/int22h2-mediated Xq28 duplication syndrome, leads to cognitive impairment, neurobehavioral issues, and facial dysmorphisms. Existing literature has limited information on clinical traits and penetrance. METHODS: We identified cases of distal Xq28 duplication (chrX: 154,126,575-154,709,680, GRCh37/hg19) through a review of clinical records and microarray reports from five centers, encompassing both postnatal and prenatal cases, with no prior family knowledge of the duplication...
April 18, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38605133/role-of-toe1-variants-at-the-nuclear-localization-motif-in-pontocerebellar-hypoplasia-7
#8
JOURNAL ARTICLE
Yukiko Kuroda, Takuya Naruto, Yu Tsuyusaki, Ayumi Kato, Noriko Aida, Kenji Kurosawa
Biallelic TOE1 variants can cause pontocerebellar hypoplasia type 7 (PCH7), a condition characterized by pontocerebellar hypoplasia with genital abnormality. TOE1 is a 3'-exonuclese for 3'-end maturation in small nuclear RNA. TOE1 pathogenic variants have been reported at the DEDD catalytic domain and zinc finger motif. Here, we describe a PCH7 patient with novel compound heterozygous TOE1 variants and a detailed clinical course. The patient was a 3-year-old female and showed developmental delay without cerebellar ataxic behavior...
April 11, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38589509/heritability-of-complex-traits-in-sub-populations-experiencing-bottlenecks-and-growth
#9
JOURNAL ARTICLE
Cameron S Taylor, Daniel J Lawson
Populations that have experienced a bottleneck are regularly used in Genome Wide Association Studies (GWAS) to investigate variants associated with complex traits. It is generally understood that these isolated sub-populations may experience high frequency of otherwise rare variants with large effect size, and therefore provide a unique opportunity to study said trait. However, the demographic history of the population under investigation affects all SNPs that determine the complex trait genome-wide, changing its heritability and genetic architecture...
April 8, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38589508/long-term-course-of-a-case-with-a-novel-homozygous-kyphoscoliosis-peptidase-variant
#10
JOURNAL ARTICLE
Yohei Misumi, Taro Yamashita, Aki Kuratomi, Yoshitaka Murakami, Atsushi Fujita, Naomichi Matsumoto, Mitsuharu Ueda
We herein report a case with a novel homozygous variant in the kyphoscoliosis peptidase (KY) gene. A 58-year-old Japanese female was referred to our hospital with a gait disturbance that gradually worsened after the age of 50. She had bilateral equinus foot deformity since early childhood. Neurological examination revealed moderate weakness of the neck, trunk, femoral, and brachial muscles, mild respiratory failure, and areflexia. Whole-exome sequencing revealed a novel homozygous frameshift variant of the KY gene, NM_178554...
April 8, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38565611/identification-of-a-novel-lfng-variant-in-a-chinese-fetus-with-spondylocostal-dysostosis-and-a-systematic-review
#11
JOURNAL ARTICLE
Lin Wang, Shuji Mizumoto, Ruixue Zhang, Yuqi Zhang, Yuan Liu, Wenjing Cheng, Xin Li, Min Dan, Chunyan Zhang, Xinru Gao, Juan Wang, Jiaqi Han, Lianying Jiao, Yating Wang, Qiujie Jin, Lihui Yang, Chenxing Li, Shuxian Li, Jinhui Zhu, Hai Jiang, Gen Nishimura, Takahiro Yamada, Shuhei Yamada, Na Cai, Rong Qiang, Long Guo
Spondylocostal dysostosis (SCDO) encompasses a group of skeletal disorders characterized by multiple segmentation defects in the vertebrae and ribs. SCDO has a complex genetic etiology. This study aimed to analyze and identify pathogenic variants in a fetus with SCDO. Copy number variant sequencing and whole exome sequencing were performed on a Chinese fetus with SCDO, followed by bioinformatics analyses, in vitro functional assays and a systematic review on the reported SCDO cases with LFNG pathogenic variants...
April 2, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38548934/correction-genetic-etiology-of-truncus-arteriosus-excluding-22q11-2-deletion-syndrome-and-identification-of-c-1617del-a-prevalent-variant-in-tmem260-in-the-japanese-population
#12
Hisao Yaoita, Eiichiro Kawai, Jun Takayama, Shinya Iwasawa, Naoya Saijo, Masayuki Abiko, Kouta Suzuki, Masato Kimura, Akira Ozawa, Gen Tamiya, Shigeo Kure, Atsuo Kikuchi
No abstract text is available yet for this article.
March 29, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38528049/a-mediation-analysis-framework-based-on-variance-component-to-remove-genetic-confounding-effect
#13
JOURNAL ARTICLE
Zihan Dong, Hongyu Zhao, Andrew T DeWan
Identification of pleiotropy at the single nucleotide polymorphism (SNP) level provides valuable insights into shared genetic signals among phenotypes. One approach to study these signals is through mediation analysis, which dissects the total effect of a SNP on the outcome into a direct effect and an indirect effect through a mediator. However, estimated effects from mediation analysis can be confounded by the genetic correlation between phenotypes, leading to inaccurate results. To address this confounding effect in the context of genetic mediation analysis, we propose a restricted-maximum-likelihood (REML)-based mediation analysis framework called REML-mediation, which can be applied to either individual-level or summary statistics data...
March 25, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38528048/visit-to-visit-transition-in-txnip-gene-methylation-and-the-risk-of-type-2-diabetes-mellitus-a-nested-case-control-study
#14
JOURNAL ARTICLE
Yuying Wu, Weiling Chen, Yang Zhao, Minqi Gu, Yajuan Gao, Yamin Ke, Longkang Wang, Mengmeng Wang, Wenkai Zhang, Yaobing Chen, Weifeng Huo, Xueru Fu, Xi Li, Dongdong Zhang, Pei Qin, Fulan Hu, Yu Liu, Xizhuo Sun, Ming Zhang, Dongsheng Hu
Our study aimed to investigate the association between the transition of the TXNIP gene methylation level and the risk of incident type 2 diabetes mellitus (T2DM). This study included 263 incident cases of T2DM and 263 matched non-T2DM participants. According to the methylation levels of five loci (CpG1-5; chr1:145441102-145442001) on the TXNIP gene, the participants were classified into four transition groups: maintained low, low to high, high to low, and maintained high methylation levels. Compared with individuals whose methylation level of CpG2-5 at the TXNIP gene was maintained low, individuals with maintained high methylation levels showed a 61-87% reduction in T2DM risk (66% for CpG2 [OR: 0...
March 25, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38480854/correction-the-frequency-and-pathogenicity-of-brca1-and-brca2-variants-in-the-general-japanese-population
#15
Masashi Idogawa, Tasuku Mariya, Yumi Tanaka, Tsuyoshi Saito, Hiroshi Nakase, Takashi Tokino, Akihiro Sakurai
No abstract text is available yet for this article.
March 14, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38467738/expanding-the-genetic-and-phenotypic-spectrum-of-trappc9-and-mid2-related-neurodevelopmental-disabilities-report-of-two-novel-mutations-3d-modelling-and-molecular-docking-studies
#16
JOURNAL ARTICLE
Marwa Kharrat, Chahnez Triki, Abir Ben Isaa, Wafa Bouchaala, Olfa Alila, Jihen Chouchen, Yosra Ghouliya, Fatma Kamoun, Abdelaziz Tlili, Faiza Fakhfakh
Intellectual disabilities (ID) and autism spectrum disorders (ASD) have a variety of etiologies, including environmental and genetic factors. Our study reports a psychiatric clinical investigation and a molecular analysis using whole exome sequencing (WES) of two siblings with ID and ASD from a consanguineous family. Bioinformatic prediction and molecular docking analysis were also carried out. The two patients were diagnosed with profound intellectual disability, brain malformations such as cortical atrophy, acquired microcephaly, and autism level III...
March 11, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38459226/correction-the-c-1617del-variant-of-tmem260-is-identified-as-the-most-frequent-single-gene-determinant-for-japanese-patients-with-a-specific-type-of-congenital-heart-disease
#17
Tadashi Inoue, Ryuta Takase, Keiko Uchida, Kazuki Kodo, Kenji Suda, Yoriko Watanabe, Koh-Ichiro Yoshiura, Masaya Kunimatsu, Reina Ishizaki, Kenko Azuma, Kei Inai, Jun Muneuchi, Yoshiyuki Furutani, Hiroyuki Akagawa, Hiroyuki Yamagishi
No abstract text is available yet for this article.
March 8, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38459225/a-bird-s-eye-view-on-the-use-of-whole-exome-sequencing-in-rare-congenital-ophthalmic-diseases
#18
JOURNAL ARTICLE
Jessica Zucco, Federica Baldan, Lorenzo Allegri, Elisa Bregant, Nadia Passon, Alessandra Franzoni, Angela Valentina D'Elia, Flavio Faletra, Giuseppe Damante, Catia Mio
Phenotypic and genotypic heterogeneity in congenital ocular diseases, especially in anterior segment dysgenesis (ASD), have created challenges for proper diagnosis and classification of diseases. Over the last decade, genomic research has indeed boosted our understanding in the molecular basis of ASD and genes associated with both autosomal dominant and recessive patterns of inheritance have been described with a wide range of expressivity. Here we describe the molecular characterization of a cohort of 162 patients displaying isolated or syndromic congenital ocular dysgenesis...
March 8, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38459224/new-insights-into-the-clinical-and-molecular-spectrum-of-the-madd-related-neurodevelopmental-disorder
#19
JOURNAL ARTICLE
Ghada M H Abdel-Salam, Mohamed S Abdel-Hamid
Biallelic pathogenic variants in MADD lead to a very rare neurodevelopmental disorder which is phenotypically pleiotropic grossly ranging from severe neonatal hypotonia, failure to thrive, multiple organ dysfunction, and early lethality to a similar but milder phenotype with better survival. Here, we report 5 patients from 3 unrelated Egyptian families in whom 4 patients showed the severe end of the spectrum displaying neonatal respiratory distress, hypotonia and chronic diarrhea while one patient presented with the mild form displaying moderate intellectual disability and myopathy...
March 8, 2024: Journal of Human Genetics
https://read.qxmd.com/read/38454133/weighted-burden-analysis-of-rare-coding-variants-in-470-000-exome-sequenced-uk-biobank-participants-characterises-effects-on-hyperlipidaemia-risk
#20
JOURNAL ARTICLE
David Curtis
A previous study of 200,000 exome-sequenced UK Biobank participants investigating the association between rare coding variants and hyperlipidaemia had implicated four genes, LDLR, PCSK9, APOC3 and IFITM5, at exome-wide significance. In addition, a further 43 protein-coding genes were significant with an uncorrected p value of <0.001. Exome sequence data has become available for a further 270,000 participants and weighted burden analysis to test for association with hyperlipidaemia was carried out in this sample for the 47 genes highlighted by the previous study...
March 7, 2024: Journal of Human Genetics
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