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      A Patient with Berardinelli-Seip Syndrome, Novel AGPAT2 Splicesite Mutation and Concomitant Development of Non-diabetic Polyneuropathy

      case-report

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          Abstract

          Primary polyneuropathy in the context of Seip-Berardinelli type 1 seipinopathy, or congenital generalized lipodystrophy type 1 (CGL1) has not been previously reported. We report the case history of a 27 year old female CGL1 patient presenting with an unusual additional development of non-diabetic peripheral neuropathy and learning disabilities in early adolescence. Whole exome sequencing (WES) of the patient genome identified a novel variant, homozygous for a 52 bp intronic deletion in the AGPAT2 locus, coding for 1-acylglycerol-3-phosphate O-acyltransferase 2, which is uniquely associated with CGL1 seipinopathies, with no molecular evidence for dual diagnosis. Functional studies using RNA isolated from patient peripheral blood leucocytes showed abnormal RNA splicing resulting in the loss of 25 amino acids from the patient AGPAT2 protein coding sequence. Stability and transcription levels for the misspliced AGPAT2 mRNA in our patient nonetheless remained normal. Any AGPAT2 protein produced in our patient is therefore likely to be dysfunctional. However, formal linkage of this deletion to the neuropathy observed remains to be shown. The classical clinical presentation of a patient with AGPAT2-associated lipodystrophy shows normal cognition and no development of polyneuropathy. Cognitive disabilities and polyneuropathy are features associated exclusively with clinical CGL type 2 arising from seipin ( BSCL2) gene mutations. This case study suggests that in some genetic contexts, AGPAT2 mutations can also produce phenotypes with primary polyneuropathy.

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          Resolution of Disease Phenotypes Resulting from Multilocus Genomic Variation.

          Background Whole-exome sequencing can provide insight into the relationship between observed clinical phenotypes and underlying genotypes. Methods We conducted a retrospective analysis of data from a series of 7374 consecutive unrelated patients who had been referred to a clinical diagnostic laboratory for whole-exome sequencing; our goal was to determine the frequency and clinical characteristics of patients for whom more than one molecular diagnosis was reported. The phenotypic similarity between molecularly diagnosed pairs of diseases was calculated with the use of terms from the Human Phenotype Ontology. Results A molecular diagnosis was rendered for 2076 of 7374 patients (28.2%); among these patients, 101 (4.9%) had diagnoses that involved two or more disease loci. We also analyzed parental samples, when available, and found that de novo variants accounted for 67.8% (61 of 90) of pathogenic variants in autosomal dominant disease genes and 51.7% (15 of 29) of pathogenic variants in X-linked disease genes; both variants were de novo in 44.7% (17 of 38) of patients with two monoallelic variants. Causal copy-number variants were found in 12 patients (11.9%) with multiple diagnoses. Phenotypic similarity scores were significantly lower among patients in whom the phenotype resulted from two distinct mendelian disorders that affected different organ systems (50 patients) than among patients with disorders that had overlapping phenotypic features (30 patients) (median score, 0.21 vs. 0.36; P=1.77×10(-7)). Conclusions In our study, we found multiple molecular diagnoses in 4.9% of cases in which whole-exome sequencing was informative. Our results show that structured clinical ontologies can be used to determine the degree of overlap between two mendelian diseases in the same patient; the diseases can be distinct or overlapping. Distinct disease phenotypes affect different organ systems, whereas overlapping disease phenotypes are more likely to be caused by two genes encoding proteins that interact within the same pathway. (Funded by the National Institutes of Health and the Ting Tsung and Wei Fong Chao Foundation.).
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            Using XHMM Software to Detect Copy Number Variation in Whole-Exome Sequencing Data.

            Copy number variation (CNV) has emerged as an important genetic component in human diseases, which are increasingly being studied for large numbers of samples by sequencing the coding regions of the genome, i.e., exome sequencing. Nonetheless, detecting this variation from such targeted sequencing data is a difficult task, involving sorting out signal from noise, for which we have recently developed a set of statistical and computational tools called XHMM. In this unit, we give detailed instructions on how to run XHMM and how to use the resulting CNV calls in biological analyses.
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              Circular RNAs: Biogenesis, Function, and a Role as Possible Cancer Biomarkers

              Circular RNAs (circRNAs) are a class of noncoding RNAs (ncRNAs) that form covalently closed continuous loop structures, lacking the terminal 5′ and 3′ ends. CircRNAs are generated in the process of back-splicing and can originate from different genomic regions. Their unique circular structure makes circRNAs more stable than linear RNAs. In addition, they also display insensitivity to ribonuclease activity. Generally, circRNAs function as microRNA (miRNA) sponges and have a regulatory role in transcription and translation. They may be also translated in a cap-independent manner in vivo, to generate specific proteins. In the last decade, next-generation sequencing techniques, especially RNA-seq, have revealed great abundance and also dysregulation of many circRNAs in various diseases, suggesting their involvement in disease development and progression. Regarding their high stability and relatively specific differential expression patterns in tissues and extracellular environment (e.g., body fluids), they are regarded as promising novel biomarkers in cancer. Therefore, we focus this review on describing circRNA biogenesis, function, and involvement in human cancer development and address the potential of circRNAs to be effectively used as novel cancer diagnostic and prognostic biomarkers.
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                Author and article information

                Journal
                J Clin Res Pediatr Endocrinol
                J Clin Res Pediatr Endocrinol
                JCRPE
                Journal of Clinical Research in Pediatric Endocrinology
                Galenos Publishing
                1308-5727
                1308-5735
                September 2019
                3 September 2019
                : 11
                : 3
                : 319-326
                Affiliations
                [1 ]Medical University of Silesia in Katowice, Department of Pediatrics in Zabrze, Silesia, Poland
                [2 ]Institute of Mother and Child, Department of Medical Genetics, Warsaw, Poland
                [3 ]Warsaw University of Technology, Institute of Computer Science, Warsaw, Poland
                [4 ]Baylor College of Medicine, Department of Molecular and Human Genetics, Texas, USA
                [5 ]Medical University of Silesia in Katowice, Department of Pediatrics in Bytom, Silesia, Poland
                [6 ]No current affiliation
                [7 ]Human Genome Sequencing Center, Baylor College of Medicine, Texas, USA
                [8 ]Baylor College of Medicine, Department of Pediatrics, Texas, USA
                [9 ]Texas Children’s Hospital, Texas, USA
                [10 ]Oregon Health and Science University, Department of Molecular and Medical Genetics, Portland, USA
                Author notes
                * Address for Correspondence: Institute of Mother and Child, Department of Medical Genetics, Warsaw, Poland Phone: +48223277299 E-mail: pawel.gawlinski@ 123456imid.med.pl
                Author information
                https://orcid.org/0000-0003-3151-0487
                https://orcid.org/0000-0001-5102-8722
                https://orcid.org/0000-0002-0941-4571
                https://orcid.org/0000-0002-6977-6021
                https://orcid.org/0000-0001-6166-3068
                https://orcid.org/0000-0002-7372-2472
                https://orcid.org/0000-0002-1139-6034
                https://orcid.org/0000-0002-6674-0074
                https://orcid.org/0000-0002-8725-5406
                https://orcid.org/0000-0002-6655-1679
                https://orcid.org/0000-0001-9907-9246
                https://orcid.org/0000-0002-1792-5152
                https://orcid.org/0000-0002-3672-5834
                Article
                20613
                10.4274/jcrpe.galenos.2018.2018.0227
                6745459
                30563316
                e1b771f6-31ca-4670-b066-e595a48e88da
                ©Copyright 2019 by Turkish Pediatric Endocrinology and Diabetes Society | The Journal of Clinical Research in Pediatric Endocrinology published by Galenos Publishing House.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 19 September 2018
                : 17 December 2018
                Categories
                Case Report

                Pediatrics
                berardinelli-seip syndrome,seipinopathy,congenital generalized lipodystrophy,polyneuropathy,agpat2,fat biology

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