Annals of Human Genetics最新文献

筛选
英文 中文
Three siblings with variable degrees of neuromuscular involvement and congenital sideroblastic anemia: A peculiar phenotype and a surprise genotypic explanation 三个兄弟姐妹不同程度的神经肌肉受累和先天性铁母细胞性贫血:一种特殊的表型和令人惊讶的基因型解释
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-14 DOI: 10.1111/ahg.12505
Mai Abd El Salam, Khaled Salama, Yasmeen M. M. Selim, Mariam Saad, Rasha Rady, Salem Alawbathani, Sabine Schroeder, Mohamed A. Elmonem, Nour Elkhateeb
{"title":"Three siblings with variable degrees of neuromuscular involvement and congenital sideroblastic anemia: A peculiar phenotype and a surprise genotypic explanation","authors":"Mai Abd El Salam,&nbsp;Khaled Salama,&nbsp;Yasmeen M. M. Selim,&nbsp;Mariam Saad,&nbsp;Rasha Rady,&nbsp;Salem Alawbathani,&nbsp;Sabine Schroeder,&nbsp;Mohamed A. Elmonem,&nbsp;Nour Elkhateeb","doi":"10.1111/ahg.12505","DOIUrl":"10.1111/ahg.12505","url":null,"abstract":"<div>\u0000 \u0000 <section>\u0000 \u0000 <p>Introduction: Congenital sideroblastic anemias (CSAs) are a group of inherited bone-marrow disorders manifesting with erythroid hyperplasia and ineffective erythropoiesis. Methods: We describe a detailed clinical and genetic characterization of three siblings with CSA. Results: Two of them had limb-girdle myopathy and global developmental delay. The two elder siblings performed allogenic hematopoietic stem-cell transplantation 5 and 3 years prior with stabilization of the hematological features. Exome sequencing in the non-transplanted sibling revealed a novel homozygous nonsense variant in <i>SLC25A38</i> gene NM_017875.2:c.559C &gt; T; p.(Arg187*) causing autosomal-recessive sideroblastic anemia type-2, and a second homozygous pathogenic previously reported variant in <i>GMPPB</i> gene NM_013334.3:c.458C &gt; T; p.(Thr153Ile) causing autosomal-recessive muscular dystrophy-dystroglycanopathy type B14. With the established diagnosis, hematopoietic stem cell transplantation is now being scheduled for the youngest sibling, and a trial therapy with acetylcholine esterase inhibitors was started for the two neurologically affected patients with partial clinical improvement. Conclusion: This family emphasizes the importance of whole-exome sequencing for familial cases with complex phenotypes and vague neurological manifestations.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 4","pages":"166-173"},"PeriodicalIF":1.9,"publicationDate":"2023-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9675243","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
A de novo low-frequency mosaic variant of KIF1A causes hereditary spastic paraplegia: A literature review KIF1A的低频嵌合变异引起遗传性痉挛性截瘫:文献综述
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-10 DOI: 10.1111/ahg.12503
Mengyuan Liu, Bing Li, Xiaona Wang, Dongxiao Li, Zhenhua Xie, Yuke Li, Yang Gao, Baiyun Chen, Huichun Zhang, Yanli Wang, Chao Gao
{"title":"A de novo low-frequency mosaic variant of KIF1A causes hereditary spastic paraplegia: A literature review","authors":"Mengyuan Liu,&nbsp;Bing Li,&nbsp;Xiaona Wang,&nbsp;Dongxiao Li,&nbsp;Zhenhua Xie,&nbsp;Yuke Li,&nbsp;Yang Gao,&nbsp;Baiyun Chen,&nbsp;Huichun Zhang,&nbsp;Yanli Wang,&nbsp;Chao Gao","doi":"10.1111/ahg.12503","DOIUrl":"10.1111/ahg.12503","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Objective</h3>\u0000 \u0000 <p>The objective of this study was to investigate the pathogenesis and inheritance pattern of a Chinese Han family with hereditary spastic paraplegia and to retrospectively analyze the characteristics of KIF1A gene variants and related clinical manifestations.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Methods</h3>\u0000 \u0000 <p>High-throughput whole-exome sequencing was performed on members of a Chinese Han family with a clinical diagnosis of hereditary spastic paraplegia, and the sequencing results were validated by Sanger sequencing. Deep high-throughput sequencing was performed on subjects with suspected mosaic variants. The previously reported pathogenic variant loci of the KIF1A gene with complete data were collected, and the clinical manifestations and characteristics of the pathogenic KIF1A gene variant were analyzed.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>A pathogenic heterozygous variant located in the neck coil of the KIF1A gene (c.1139G&gt;C, p.Arg380Pro) was identified in the proband and four additional members of the family. It was derived from the de novo low-frequency somatic-gonadal mosaicism of the proband's grandmother and had a rate of 10.95%.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Interpretation</h3>\u0000 \u0000 <p>This study helps us to better understand the pathogenic mode and characteristics of mosaic variants, and to understand the location and clinical characteristics of pathogenic variants in KIF1A.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 4","pages":"158-165"},"PeriodicalIF":1.9,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/ahg.12503","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9672879","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The genetic era of childhood cancer: Identification of high-risk patients and germline sequencing approaches 儿童癌症的遗传时代:高风险患者的鉴定和种系测序方法
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-10 DOI: 10.1111/ahg.12502
Oscar Alonso-Luna, Gabriela E Mercado-Celis, Jorge Melendez-Zajgla, Marta Zapata-Tarres, Elvia Mendoza-Caamal
{"title":"The genetic era of childhood cancer: Identification of high-risk patients and germline sequencing approaches","authors":"Oscar Alonso-Luna,&nbsp;Gabriela E Mercado-Celis,&nbsp;Jorge Melendez-Zajgla,&nbsp;Marta Zapata-Tarres,&nbsp;Elvia Mendoza-Caamal","doi":"10.1111/ahg.12502","DOIUrl":"10.1111/ahg.12502","url":null,"abstract":"<p>Childhood cancer is a leading cause of death by disease in children ages 5–14, for which there are no preventive strategies. Due to early-age of diagnosis and short period of exposure to environmental factors, increasing evidence suggests childhood cancer could have strong association with germline alterations in predisposition cancer genes but, their frequency and distribution are largely unknown. Several efforts have been made to develop tools to identify children with increased risk of cancer who may benefit from genetic testing but their validation and application on a large scale is necessary. Research on genetic bases of childhood cancer is ongoing, in which several approaches for the identification of genetic variants related to cancer predisposition have been used. In this paper, we discuss the updated efforts, strategies, molecular mechanisms and clinical implications for germline predisposition gene alterations and the characterization of risk variants in childhood cancer.</p>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 3","pages":"81-90"},"PeriodicalIF":1.9,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/ahg.12502","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9566277","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Cover Image, Volume 87, Issue 1–2 封面图片,第87卷,第1-2期
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-01 DOI: 10.1111/ahg.12504
{"title":"Cover Image, Volume 87, Issue 1–2","authors":"","doi":"10.1111/ahg.12504","DOIUrl":"https://doi.org/10.1111/ahg.12504","url":null,"abstract":"<p><b>Cover Image</b>: The cover image is based on the Original Article <i>Proteome changes in autosomal recessive primary microcephaly</i> by Sami Zaqout et al., https://doi.org/10.1111/ahg.12489.\u0000\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure>\u0000 </p>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 1-2","pages":""},"PeriodicalIF":1.9,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/ahg.12504","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50118106","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-01 DOI: 10.1111/ahg.12485
{"title":"","authors":"","doi":"10.1111/ahg.12485","DOIUrl":"10.1111/ahg.12485","url":null,"abstract":"<p>Retraction: Liu, H., Wang, T., Chen, X., Jiang, J., Song, N., Li, R., Xin, Y. and Xuan, S. (2020). Inhibition of miR-499-5p expression improves nonalcoholic fatty liver disease<i>. Annals of Human Genetics</i>. (https://doi.org/10.1111/ahg.12374).</p><p>The above article, published online on 20 January 2020 in Wiley Online Library (www.wileyonlinelibrary.com), has been retracted by agreement between the journal Editor in Chief Rosemary Ekong, the authors, and John Wiley &amp; Sons Ltd./University College London. The retraction has been agreed because there are inconsistencies in Figures 1 and 5 that render the data difficult to interpret and the original data could not be provided to support the conclusions. The authors asked to retract the manuscript because their confidence in the results has been undermined by these inconsistencies.</p>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 1-2","pages":"80"},"PeriodicalIF":1.9,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10117590/pdf/AHG-87-80.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9389046","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A novel nonsense variant in the ATL3 gene is associated with disturbed pain sensitivity, numbness of distal limbs and muscle weakness ATL3基因的一种新的无义变异与疼痛敏感性紊乱、远端肢体麻木和肌肉无力有关
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-03-01 DOI: 10.1111/ahg.12501
Sanaz Mohammadi, Hossein Jafari Khamirani, Maryam Baneshi, Neda Kamal, Jamal Manoocheri, Mahsa Saffar, Mehdi Dianatpour, Seyed Mohammad Bagher Tabei, Seyed Alireza Dastgheib
{"title":"A novel nonsense variant in the ATL3 gene is associated with disturbed pain sensitivity, numbness of distal limbs and muscle weakness","authors":"Sanaz Mohammadi,&nbsp;Hossein Jafari Khamirani,&nbsp;Maryam Baneshi,&nbsp;Neda Kamal,&nbsp;Jamal Manoocheri,&nbsp;Mahsa Saffar,&nbsp;Mehdi Dianatpour,&nbsp;Seyed Mohammad Bagher Tabei,&nbsp;Seyed Alireza Dastgheib","doi":"10.1111/ahg.12501","DOIUrl":"10.1111/ahg.12501","url":null,"abstract":"<div>\u0000 \u0000 <section>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3>1.1 Introduction</h3>\u0000 \u0000 <p>Hereditary sensory neuropathy (HSN) describes as a heterogeneous group of peripheral neuropathies. HSN type 1 (HSN1) is one subtype characterized by distal sensory impairment that occurs in the form of numbness, tingling, or pain. To date, only two variants in the atlastin GTPase 3 (ATL3) gene have been identified that result in hereditary sensory neuropathy type 1F (HSN1F) with autosomal dominantinheritance.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3>1.2 Methods</h3>\u0000 \u0000 <p>We sudied and examined who present with sensory disturbances and muscle weakness in their lower limb. Patients underwent Whole Exome Sequencing and Sanger sequencing was performed in families for validation of detected variant.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3>1.3 Results</h3>\u0000 \u0000 <p>Here, we identified two Iranian families carrying the novel heterozygous stop variant NM_015459.5: c.16C&gt;T, p.Arg6Ter in <i>ATL3</i> that led to disturbed pain and touch sensitivity. This variant in the ATL3 gene was detected in both families (NM_015459.5: c.16C&gt;T, p.Arg6Ter) by whole-exome sequencing and confirmed by Sanger sequencing.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3>1.4 Conclusion</h3>\u0000 \u0000 <p>In this study, the subjects manifested weakness of distal limb muscles and numbness of the lower extremities. In addition, some unusual features, including hearing problems and inability to sit and walk presented in one of the patients. Eventually, we provide a case-based review of the clinical features associated with HSN1F. Hitherto, only 11 patients with HSN1F have been reported. We compared our findings to previously reported cases, suggesting that the clinical features are generally variable in the HSN1F patients.</p>\u0000 </section>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 4","pages":"147-157"},"PeriodicalIF":1.9,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10030893","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Development of molecular diagnostic platform for α0-thalassemia 44.6 kb (Chiang Rai, --CR) deletion in individuals with microcytic red blood cells across Thailand α0-地中海贫血44.6kb(Chiang Rai,-CR)缺失分子诊断平台的开发
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-01-29 DOI: 10.1111/ahg.12496
Pinyaphat Khamphikham, Oravee Hanmanoviriya, Somsakul Pop Wongpalee, Thongperm Munkongdee, Kittiphong Paiboonsukwong, Yupin Jopang, Chaowanee Wangchauy, Charan Sancharernsook, Nathawat Jinorose, Sakorn Pornprasert
{"title":"Development of molecular diagnostic platform for α0-thalassemia 44.6 kb (Chiang Rai, --CR) deletion in individuals with microcytic red blood cells across Thailand","authors":"Pinyaphat Khamphikham,&nbsp;Oravee Hanmanoviriya,&nbsp;Somsakul Pop Wongpalee,&nbsp;Thongperm Munkongdee,&nbsp;Kittiphong Paiboonsukwong,&nbsp;Yupin Jopang,&nbsp;Chaowanee Wangchauy,&nbsp;Charan Sancharernsook,&nbsp;Nathawat Jinorose,&nbsp;Sakorn Pornprasert","doi":"10.1111/ahg.12496","DOIUrl":"https://doi.org/10.1111/ahg.12496","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>The α<sup>0</sup>-thalassemia 44.6 kb or Chiang Rai (--<sup>CR</sup>) deletion has been reported in northern Thailand and is capable of causing hemoglobin (Hb) H disease and a lethal α-thalassemia genotype, Hb Bart's hydrops fetalis, in this region. However, there are no current data regarding the frequency of --<sup>CR</sup> nationwide due to a lack of effective diagnostic assay. Therefore, this study aimed to develop a reliable platform for simultaneous genotyping of --<sup>CR</sup> and two common α<sup>0</sup>-thalassemias in Thailand (--<sup>SEA</sup> and --<sup>THAI</sup>) and investigate the frequency of --<sup>CR</sup> across Thailand.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Methods</h3>\u0000 \u0000 <p>Multiplex gap-PCR assay and five renewable plasmid DNA controls for --<sup>CR</sup>, --<sup>SEA</sup>, --<sup>THAI</sup>, α2-globin (<i>HBA2</i>), and β-actin (<i>ACTB</i>) were newly developed and validated with reference methods. The developed assay was further tested on 1046 unrelated individuals with a reduced mean corpuscular volume (MCV) of less than 75 fl for investigating genotypic and allelic spectrum of --<sup>CR</sup>.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Our developed assay showed 100% concordance with reference methods. The results were valid and reproducible throughout hundreds of reactions. Comparison of the genotypic and allelic spectra revealed that heterozygous --<sup>SEA</sup> (--<sup>SEA</sup>/αα) and --<sup>SEA</sup> alleles were dominant with the frequency of 22.85% (239/1046) and 13.34% (279/2092), respectively. Of these, --<sup>THAI</sup> and --<sup>CR</sup> were relatively rare in this population and comparable to each other with the allelic frequency of 0.14% (3/2092).</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>This study successfully established a reliable molecular diagnostic platform for genotyping of --<sup>CR</sup>, --<sup>SEA</sup>, and --<sup>THAI</sup> in a single reaction. Additionally, we demonstrated the frequency of --<sup>CR</sup> in Thailand for the first time and provided knowledge basis for the planning of severe α-thalassemia prevention and control programs in Thailand, where thalassemia is endemic.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 3","pages":"137-145"},"PeriodicalIF":1.9,"publicationDate":"2023-01-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50124741","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Insights into gene tissue specificity and protein–protein interactions in the context of purifying selection in humans 在人类净化选择的背景下,深入了解基因组织特异性和蛋白质-蛋白质相互作用
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-01-27 DOI: 10.1111/ahg.12497
Massimo Mezzavilla, Massimiliano Cocca
{"title":"Insights into gene tissue specificity and protein–protein interactions in the context of purifying selection in humans","authors":"Massimo Mezzavilla,&nbsp;Massimiliano Cocca","doi":"10.1111/ahg.12497","DOIUrl":"10.1111/ahg.12497","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Background</h3>\u0000 \u0000 <p>How much are natural selection and gene characteristics, such as the number of protein-protein interactions (PPIs), tissue specificity (𝞽), and expression level, connected?</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Methods</h3>\u0000 \u0000 <p>In order to investigate these relationships, we combined different metrics linked to genetic constraints and analyzed their distribution concerning PPIs, 𝞽 and expression levels.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>We discovered a positive correlation between genetic constraints, PPIs, and expression levels in all tissues. On the other hand, we obtained a negative correlation between genetic constraints and 𝞽. Furthermore, the fraction of variance in PPI and 𝞽 explained by the constraints metrics is around 6% and 10%, respectively.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusions</h3>\u0000 \u0000 <p>We observed that the variance of expression of tissue-specific genes seems not related to their level of selection constraints, which is the opposite of what is found on non-tissue-specific genes. Overall these observations would help to elucidate the relationship between natural selection and gene features.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 1-2","pages":"75-79"},"PeriodicalIF":1.9,"publicationDate":"2023-01-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9073379","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Multimarker omnibus tests by leveraging individual marker summary statistics from large biobanks 利用来自大型生物库的单个标记摘要统计数据进行多标记综合测试
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2023-01-22 DOI: 10.1111/ahg.12495
Angela M. Zigarelli, Hanna M. Venera, Brody A. Receveur, Jack M. Wolf, Jason Westra, Nathan L. Tintle
{"title":"Multimarker omnibus tests by leveraging individual marker summary statistics from large biobanks","authors":"Angela M. Zigarelli,&nbsp;Hanna M. Venera,&nbsp;Brody A. Receveur,&nbsp;Jack M. Wolf,&nbsp;Jason Westra,&nbsp;Nathan L. Tintle","doi":"10.1111/ahg.12495","DOIUrl":"10.1111/ahg.12495","url":null,"abstract":"<div>\u0000 \u0000 <section>\u0000 \u0000 \u0000 <p>As biobanks become increasingly popular, access to genotypic and phenotypic data continues to increase in the form of precomputed summary statistics (PCSS). Widespread accessibility of PCSS alleviates many issues related to biobank data, including that of data privacy and confidentiality, as well as high computational costs. However, questions remain about how to maximally leverage PCSS for downstream statistical analyses. Here we present a novel method for testing the association of an arbitrary number of single nucleotide variants (SNVs) on a linear combination of phenotypes after adjusting for covariates for common multimarker tests (e.g., SKAT, SKAT-O) without access to individual patient-level data (IPD). We validate exact formulas for each method, and demonstrate their accuracy through simulation studies and an application to fatty acid phenotypic data from the Framingham Heart Study.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 3","pages":"125-136"},"PeriodicalIF":1.9,"publicationDate":"2023-01-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/ahg.12495","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9514791","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
NLRP13 inflammasome complex is hypermethylated in familial Mediterranean fever and global methylation correlates with the disease severity NLRP13炎性小体复合物在家族性地中海热中高甲基化,全球甲基化与疾病严重程度相关
IF 1.9 4区 生物学
Annals of Human Genetics Pub Date : 2022-12-30 DOI: 10.1111/ahg.12493
Feyzanur Yildirimtepe Caldiran, Koksal Deveci, Ercan Cacan
{"title":"NLRP13 inflammasome complex is hypermethylated in familial Mediterranean fever and global methylation correlates with the disease severity","authors":"Feyzanur Yildirimtepe Caldiran,&nbsp;Koksal Deveci,&nbsp;Ercan Cacan","doi":"10.1111/ahg.12493","DOIUrl":"10.1111/ahg.12493","url":null,"abstract":"<div>\u0000 \u0000 <section>\u0000 \u0000 \u0000 <p>Familial Mediterranean fever (FMF) is an autoinflammatory disease caused by variations in the <i>MEFV</i> gene, which encodes the pyrin protein, a member of the inflammasomes. Despite the complex pathogenesis of FMF, epigenetic changes also play roles in the disease progression. In our previous study, we observed a relationship between <i>NLRP13</i>, which is one of the members of the inflammasome complex and has a pyrin domain in its structure, and the <i>MEFV</i> gene using the STRING database. In this study, we examined <i>NLRP13</i> expression and methylation status in 40 patients with FMF attack and 20 healthy individuals. We then investigated the global DNA methylation status of patients with FMF in the attack period and control groups. We further examined the relationship between the clinical manifestation and global methylation as well as <i>NLRP13</i> gene expression of patients with FMF and healthy individuals. As a result, we showed that hypomethylation in patients with FMF leads to different clinical outcomes in terms of disease severity. In addition, the data indicated that <i>NLRP13</i> inflammasome is epigenetically controlled in patients with FMF and the presence of amyloidosis may affect the hypermethylation of this gene. Moreover, <i>NLRP13</i> was silenced because of the hypermethylation of the promoter. The increase of methylation level at the promoter region participated in the inactivation of <i>NLRP13</i>. In the current study, we not only found a new gene that plays a role in the pathogenesis of FMF disease, but also new evidence for the epigenetic regulation of the disease.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"87 3","pages":"115-124"},"PeriodicalIF":1.9,"publicationDate":"2022-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9514326","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信