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  1. Article ; Online: Genetics of otosclerosis: finally catching up with other complex traits?

    Tavernier, Lisse J M / Fransen, Erik / Valgaeren, Hanne / Van Camp, Guy

    Human genetics

    2021  Volume 141, Issue 3-4, Page(s) 939–950

    Abstract: Otosclerosis is a relatively common cause of hearing impairment, characterized by abnormal bone remodeling of the middle and inner ear. In about 50-60% of the patients, the disease is present in a familial form. In most of these families, otosclerosis ... ...

    Abstract Otosclerosis is a relatively common cause of hearing impairment, characterized by abnormal bone remodeling of the middle and inner ear. In about 50-60% of the patients, the disease is present in a familial form. In most of these families, otosclerosis seems to be caused by a small number of genetic factors (oligogenic) while only in a small number of families the disease seems to be truly monogenic. In the remaining patients a complex genetic form of otosclerosis is present. Several studies have aimed to identify the genetic factors underlying otosclerosis, which has led to the identification of eight published loci for monogenic otosclerosis, as well as several genes and one chromosomal region (11q13.1) with a clear association with otosclerosis. Implementation of next-generation sequencing (NGS) in otosclerosis research has led to the identification of pathogenic variants in MEPE, ACAN and SERPINF1, although the pathogenic role of the latter is under debate. In addition, a recent GWAS can be considered a breakthrough for otosclerosis as it identified several strong associations with otosclerosis and suggested new potential candidate genes. These recent findings are important for unraveling the genetic architecture of otosclerosis. More future studies will help to understand the complete pathogenesis of the disease.
    MeSH term(s) Ear, Inner ; Humans ; Multifactorial Inheritance ; Otosclerosis/genetics
    Language English
    Publishing date 2021-09-09
    Publishing country Germany
    Document type Journal Article ; Review
    ZDB-ID 223009-4
    ISSN 1432-1203 ; 0340-6717
    ISSN (online) 1432-1203
    ISSN 0340-6717
    DOI 10.1007/s00439-021-02357-1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: A new perspective on the genetics of keratoconus: why have we not been more successful?

    Valgaeren, Hanne / Koppen, Carina / Van Camp, Guy

    Ophthalmic genetics

    2017  Volume 39, Issue 2, Page(s) 158–174

    Abstract: Twin studies and family studies suggest an important genetic basis for keratoconus (KC). Involvement and association of several genes with the disease has been reported. Additionally, genes associated with central corneal thickness (CCT) and corneal ... ...

    Abstract Twin studies and family studies suggest an important genetic basis for keratoconus (KC). Involvement and association of several genes with the disease has been reported. Additionally, genes associated with central corneal thickness (CCT) and corneal curvature (CC) via genome-wide association studies (GWAS), also potentially underlie KC. Although a long list of genes has been reported for KC, the evidence for a pathogenic role for most genes remains limited. Furthermore, if the involvement of the reported genes in KC development can be proven, they only account for a limited number of patients. VSX1, ZNF469, SOD1, and miR184 have been most frequently investigated, but only mutations in miR184 indisputably underlie corneal abnormalities. For the three other genes, analysis of the minor allele frequencies (MAF) in public databases argues against a pathogenic role for most reported variants. For the remainder of variants, functional evidence is needed to prove their contribution to the pathogenesis. Despite the large amount of studies, clear results remain rare. A possible explanation for the cumbersome gene-identification is that genetic defects underlying KC are located in regions that are understudied (such as non-coding regions) or that KC is not as monogenic (= one gene with large effect size) as initially considered. Since many of the applied research strategies can only identify large effect mutations, strategies to identify variants with smaller effect sizes might lead to more progress in KC research.
    MeSH term(s) Eye Proteins/genetics ; Genetic Linkage ; Genome-Wide Association Study ; High-Throughput Nucleotide Sequencing ; Homeodomain Proteins/genetics ; Humans ; Keratoconus/epidemiology ; Keratoconus/genetics ; Mutation ; Transcription Factors/genetics
    Chemical Substances Eye Proteins ; Homeodomain Proteins ; Transcription Factors
    Language English
    Publishing date 2017-11-07
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1199279-7
    ISSN 1744-5094 ; 0167-6784 ; 1381-6810
    ISSN (online) 1744-5094
    ISSN 0167-6784 ; 1381-6810
    DOI 10.1080/13816810.2017.1393831
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Resequencing of candidate genes for Keratoconus reveals a role for Ehlers-Danlos Syndrome genes.

    Fransen, Erik / Valgaeren, Hanne / Janssens, Katleen / Sommen, Manou / De Ridder, Raphael / Vandeweyer, Geert / Bisceglia, Luigi / Soler, Vincent / Hoischen, Alexander / Mortier, Geert / Malecaze, François / Koppen, Carina / Van Camp, Guy

    European journal of human genetics : EJHG

    2021  Volume 29, Issue 12, Page(s) 1745–1755

    Abstract: The involvement of genetic factors in the pathogenesis of KC has long been recognized but the identification of variants affecting the underlying protein functions has been challenging. In this study, we selected 34 candidate genes for KC based on ... ...

    Abstract The involvement of genetic factors in the pathogenesis of KC has long been recognized but the identification of variants affecting the underlying protein functions has been challenging. In this study, we selected 34 candidate genes for KC based on previous whole-exome sequencing (WES) and the literature, and resequenced them in 745 KC patients and 810 ethnically matched controls from Belgium, France and Italy. Data analysis was performed using the single variant association test as well as gene-based mutation burden and variance components tests. In our study, we detected enrichment of genetic variation across multiple gene-based tests for the genes COL2A1, COL5A1, TNXB, and ZNF469. The top hit in the single variant association test was obtained for a common variant in the COL12A1 gene. These associations were consistently found across independent subpopulations. Interestingly, COL5A1, TNXB, ZNF469 and COL12A1 are all known Ehlers-Danlos Syndrome (EDS) genes. Though the co-occurrence of KC and EDS has been reported previously, this study is the first to demonstrate a consistent role of genetic variants in EDS genes in the etiology of KC. In conclusion, our data show a shared genetic etiology between KC and EDS, and clearly confirm the currently disputed role of ZNF469 in disease susceptibility for KC.
    MeSH term(s) Collagen Type II/genetics ; Collagen Type V/genetics ; Ehlers-Danlos Syndrome/diagnosis ; Ehlers-Danlos Syndrome/genetics ; Humans ; Keratoconus/diagnosis ; Keratoconus/genetics ; Sequence Analysis, DNA ; Tenascin/genetics ; Transcription Factors/genetics
    Chemical Substances COL2A1 protein, human ; COL5A1 protein, human ; Collagen Type II ; Collagen Type V ; Tenascin ; Transcription Factors ; ZNF469 protein, human ; tenascin X
    Language English
    Publishing date 2021-03-19
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1141470-4
    ISSN 1476-5438 ; 1018-4813
    ISSN (online) 1476-5438
    ISSN 1018-4813
    DOI 10.1038/s41431-021-00849-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Accuracy and Reproducibility of Low-Dose Submillisievert Chest CT for the Diagnosis of COVID-19.

    Dangis, Anthony / Gieraerts, Christopher / De Bruecker, Yves / Janssen, Lode / Valgaeren, Hanne / Obbels, Dagmar / Gillis, Marc / Van Ranst, Marc / Frans, Johan / Demeyere, Annick / Symons, Rolf

    Radiology. Cardiothoracic imaging

    2020  Volume 2, Issue 2, Page(s) e200196

    Abstract: Purpose: To demonstrate the accuracy and reproducibility of low-dose submillisievert chest CT for the diagnosis of coronavirus disease 2019 (COVID-19) infection in patients in the emergency department.: Materials and methods: This was a Health ... ...

    Abstract Purpose: To demonstrate the accuracy and reproducibility of low-dose submillisievert chest CT for the diagnosis of coronavirus disease 2019 (COVID-19) infection in patients in the emergency department.
    Materials and methods: This was a Health Insurance Portability and Accountability Act-compliant, institutional review board-approved retrospective study. From March 14 to 24, 2020, 192 patients in the emergency department with symptoms suggestive of COVID-19 infection were studied by using low-dose chest CT and real-time reverse transcription polymerase chain reaction (RT-PCR). Image analysis included the likelihood of COVID-19 infection and the semiquantitative extent of lung involvement. CT images were analyzed by two radiologists blinded to the RT-PCR results. Reproducibility was assessed using the McNemar test and intraclass correlation coefficient. Time between CT acquisition and report was measured.
    Results: When compared with RT-PCR, low-dose submillisievert chest CT demonstrated excellent sensitivity, specificity, positive predictive value, negative predictive value, and accuracy for diagnosis of COVID-19 (86.7%, 93.6%, 91.1%, 90.3%, and 90.2%, respectively), in particular in patients with clinical symptoms for more than 48 hours (95.6%, 93.2%, 91.5%, 96.5%, and 94.4%, respectively). In patients with a positive CT result, the likelihood of disease increased from 43.2% (pretest probability) to 91.1% or 91.4% (posttest probability), while in patients with a negative CT result, the likelihood of disease decreased to 9.6% or 3.7% for all patients or those with clinical symptoms for >48 hours. The prevalence of alternative diagnoses based on chest CT in patients without COVID-19 infection was 17.6%. The mean effective radiation dose was 0.56 mSv ± 0.25 (standard deviation). Median time between CT acquisition and report was 25 minutes (interquartile range: 13-49 minutes). Intra- and interreader reproducibility of CT was excellent (all intraclass correlation coefficients ≥ 0.95) without significant bias in the Bland-Altman analysis.
    Conclusion: Low-dose submillisievert chest CT allows for rapid, accurate, and reproducible assessment of COVID-19 infection in patients in the emergency department, in particular in patients with symptoms lasting longer than 48 hours. Chest CT has the additional advantage of offering alternative diagnoses in a significant subset of patients.© RSNA, 2020.
    Language English
    Publishing date 2020-04-21
    Publishing country United States
    Document type Journal Article
    ISSN 2638-6135
    ISSN (online) 2638-6135
    DOI 10.1148/ryct.2020200196
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Insufficient evidence for a role of SERPINF1 in otosclerosis.

    Valgaeren, Hanne / Sommen, Manou / Beyens, Matthias / Vandeweyer, Geert / Schrauwen, Isabelle / Schepers, Anne / Schatteman, Isabelle / Topsakal, Vedat / Dhooge, Ingeborg / Kunst, Henricus / Zanetti, Diego / Huber, Alexander M / Hoischen, Alexander / Fransen, Erik / Van Camp, Guy

    Molecular genetics and genomics : MGG

    2019  Volume 294, Issue 4, Page(s) 1001–1006

    Abstract: Otosclerosis is a common form of hearing loss (HL) due to abnormal remodeling of the otic capsule. The genetic causes of otosclerosis remain largely unidentified. Only mutations in a single gene, SERPINF1, were previously published in patients with ... ...

    Abstract Otosclerosis is a common form of hearing loss (HL) due to abnormal remodeling of the otic capsule. The genetic causes of otosclerosis remain largely unidentified. Only mutations in a single gene, SERPINF1, were previously published in patients with familial otosclerosis. To unravel the contribution of genetic variation in this gene to otosclerosis, this gene was re-sequenced in a large population of otosclerosis patients and controls. Resequencing of the 5' and 3' UTRs, coding regions, and exon-intron boundaries of SERPINF1 was performed in 1604 unrelated otosclerosis patients and 1538 unscreened controls, and in 62 large otosclerosis families. Our study showed no enrichment of rare variants, stratified by type, in SERPINF1 in patients versus controls. Furthermore, the c.392C > A (p.Ala131Asp) variant, previously reported as pathogenic, was identified in three patients and four controls, not replicating its pathogenic nature. We could also not find evidence for a pathogenic role in otosclerosis for 5' UTR variants in the SERPINF1-012 transcript (ENST00000573763), described as the major transcript in human stapes. Furthermore, no rare variants were identified in the otosclerosis families. This study does not support a pathogenic role for variants in SERPINF1 as a cause of otosclerosis. Therefore, the etiology of the disease remains largely unknown and will undoubtedly be the focus of future studies.
    MeSH term(s) 3' Untranslated Regions ; 5' Untranslated Regions ; Case-Control Studies ; Eye Proteins/genetics ; Female ; Humans ; Male ; Nerve Growth Factors/genetics ; Otosclerosis/genetics ; Pedigree ; Sequence Analysis, DNA/methods ; Serpins/genetics
    Chemical Substances 3' Untranslated Regions ; 5' Untranslated Regions ; Eye Proteins ; Nerve Growth Factors ; Serpins ; pigment epithelium-derived factor
    Language English
    Publishing date 2019-04-09
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2044817-X
    ISSN 1617-4623 ; 1617-4615
    ISSN (online) 1617-4623
    ISSN 1617-4615
    DOI 10.1007/s00438-019-01558-8
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: New environmental reservoir of CPE in hospitals.

    Smismans, Annick / Ho, Erwin / Daniels, Davy / Ombelet, Sara / Mellaerts, Bea / Obbels, Dagmar / Valgaeren, Hanne / Goovaerts, Anja / Huybrechts, Eline / Montag, Ilke / Frans, Johan

    The Lancet. Infectious diseases

    2019  Volume 19, Issue 6, Page(s) 580–581

    MeSH term(s) Aged ; Aged, 80 and over ; Carbapenem-Resistant Enterobacteriaceae/isolation & purification ; Disease Reservoirs/microbiology ; Female ; Hospitals/statistics & numerical data ; Humans ; Infection Control/methods ; Male ; Toilet Facilities/statistics & numerical data ; United States
    Language English
    Publishing date 2019-05-20
    Publishing country United States
    Document type Case Reports ; Letter
    ZDB-ID 2061641-7
    ISSN 1474-4457 ; 1473-3099
    ISSN (online) 1474-4457
    ISSN 1473-3099
    DOI 10.1016/S1473-3099(19)30230-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Insufficient evidence for a role of SERPINF1 in otosclerosis

    Valgaeren, Hanne / Sommen, Manou / Beyens, Matthias / Vandeweyer, Geert / Schrauwen, Isabelle / Schepers, Anne / Schatteman, Isabelle / Topsakal, Vedat / Dhooge, Ingeborg / Kunst, Henricus / Zanetti, Diego / Huber, Alexander M / Hoischen, Alexander / Fransen, Erik / Van Camp, Guy

    Molecular genetics and genomics. 2019 Aug., v. 294, no. 4

    2019  

    Abstract: Otosclerosis is a common form of hearing loss (HL) due to abnormal remodeling of the otic capsule. The genetic causes of otosclerosis remain largely unidentified. Only mutations in a single gene, SERPINF1, were previously published in patients with ... ...

    Abstract Otosclerosis is a common form of hearing loss (HL) due to abnormal remodeling of the otic capsule. The genetic causes of otosclerosis remain largely unidentified. Only mutations in a single gene, SERPINF1, were previously published in patients with familial otosclerosis. To unravel the contribution of genetic variation in this gene to otosclerosis, this gene was re-sequenced in a large population of otosclerosis patients and controls. Resequencing of the 5′ and 3′ UTRs, coding regions, and exon–intron boundaries of SERPINF1 was performed in 1604 unrelated otosclerosis patients and 1538 unscreened controls, and in 62 large otosclerosis families. Our study showed no enrichment of rare variants, stratified by type, in SERPINF1 in patients versus controls. Furthermore, the c.392C > A (p.Ala131Asp) variant, previously reported as pathogenic, was identified in three patients and four controls, not replicating its pathogenic nature. We could also not find evidence for a pathogenic role in otosclerosis for 5′ UTR variants in the SERPINF1-012 transcript (ENST00000573763), described as the major transcript in human stapes. Furthermore, no rare variants were identified in the otosclerosis families. This study does not support a pathogenic role for variants in SERPINF1 as a cause of otosclerosis. Therefore, the etiology of the disease remains largely unknown and will undoubtedly be the focus of future studies.
    Keywords etiology ; genes ; genetic variation ; genomics ; humans
    Language English
    Dates of publication 2019-08
    Size p. 1001-1006.
    Publishing place Springer Berlin Heidelberg
    Document type Article
    ISSN 1617-4615
    DOI 10.1007/s00438-019-01558-8
    Database NAL-Catalogue (AGRICOLA)

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  8. Article ; Online: Accuracy and reproducibility of low-dose submillisievert chest CT for the diagnosis of COVID-19

    Dangis, Anthony / Gieraerts, Christopher / Bruecker, Yves De / Janssen, Lode / Valgaeren, Hanne / Obbels, Dagmar / Gillis, Marc / Ranst, Marc Van / Frans, Johan / Demeyere, Annick / Symons, Rolf

    Radiol Cardiothorac Imaging

    Abstract: PURPOSE: To demonstrate the accuracy and reproducibility of low-dose submillisievert chest CT for the diagnosis of COVID-19 infection in emergency room (ER) patients. MATERIALS AND METHODS: This was a HIPAA-compliant, institutional review board-approved ... ...

    Abstract PURPOSE: To demonstrate the accuracy and reproducibility of low-dose submillisievert chest CT for the diagnosis of COVID-19 infection in emergency room (ER) patients. MATERIALS AND METHODS: This was a HIPAA-compliant, institutional review board-approved retrospective study. From March 14(th) to March 24(th) 2020, 192 ER patients with symptoms suggestive of COVID-19 infection were studied with low-dose chest CT and real time polymerase chain reaction (RT-PCR). Image analysis included likelihood of COVID-19 infection and semi-quantitative extent of lung involvement. CT images were analyzed by 2 radiologists blinded to RT-PCR results. Reproducibility was assessed with McNemar test and intra-class correlation coefficient (ICC). Time between CT acquisition and report was measured. RESULTS: When compared to RT-PCR, low-dose submillisievert chest CT demonstrated excellent sensitivity, specificity, positive predictive value, negative predictive value, and accuracy for diagnosis of COVID-19 (86.7%, 93.6%, 91.1%, 90.3%, and 90.2%, respectively), in particular in patients with clinical symptoms for >48h (95.6%, 93.2%, 91.5%, 96.5%, and 94.4%, respectively). In patients with a positive CT, likelihood of disease increased from 43.2% (pre-test probability) to 91.1% or 91.4% (post-test probability), while in patients with a negative CT, likelihood of disease decreased to 9.6% or 3.7% for all patients or those with clinical symptoms for >48h, respectively. The prevalence of alternative diagnoses based on chest CT in patients without COVID-19 infection was 17.6%. Mean effective radiation dose was 0.56±0.25 mSv (SD). Median time between CT acquisition and report was 25 minutes (IQR: 13-49 minutes). Intra- and interreader reproducibility of CT was excellent (all ICC□0.95) without significant bias in Bland-Altman analysis. CONCLUSION: Low-dose submillisievert chest CT allows for rapid, accurate and reproducible assessment of COVID-19 infection in ER patients, in particular in patients with symptoms lasting longer than 48 hours. Chest CT has the additional advantage of offering alternative diagnoses in a significant subset of patients.
    Keywords covid19
    Publisher PMC
    Document type Article ; Online
    DOI 10.1148/ryct.2020200196
    Database COVID19

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  9. Article ; Online: Variants affecting diverse domains of MEPE are associated with two distinct bone disorders, a craniofacial bone defect and otosclerosis.

    Schrauwen, Isabelle / Valgaeren, Hanne / Tomas-Roca, Laura / Sommen, Manou / Altunoglu, Umut / Wesdorp, Mieke / Beyens, Matthias / Fransen, Erik / Nasir, Abdul / Vandeweyer, Geert / Schepers, Anne / Rahmoun, Malika / van Beusekom, Ellen / Huentelman, Matt J / Offeciers, Erwin / Dhooghe, Ingeborg / Huber, Alex / Van de Heyning, Paul / Zanetti, Diego /
    De Leenheer, Els M R / Gilissen, Christian / Hoischen, Alexander / Cremers, Cor W / Verbist, Berit / de Brouwer, Arjan P M / Padberg, George W / Pennings, Ronald / Kayserili, Hülya / Kremer, Hannie / Van Camp, Guy / van Bokhoven, Hans

    Genetics in medicine : official journal of the American College of Medical Genetics

    2018  Volume 21, Issue 5, Page(s) 1199–1208

    Abstract: Purpose: To characterize new molecular factors implicated in a hereditary congenital facial paresis (HCFP) family and otosclerosis.: Methods: We performed exome sequencing in a four-generation family presenting nonprogressive HCFP and mixed hearing ... ...

    Abstract Purpose: To characterize new molecular factors implicated in a hereditary congenital facial paresis (HCFP) family and otosclerosis.
    Methods: We performed exome sequencing in a four-generation family presenting nonprogressive HCFP and mixed hearing loss (HL). MEPE was analyzed using either Sanger sequencing or molecular inversion probes combined with massive parallel sequencing in 89 otosclerosis families, 1604 unrelated affected subjects, and 1538 unscreened controls.
    Results: Exome sequencing in the HCFP family led to the identification of a rare segregating heterozygous frameshift variant p.(Gln425Lysfs*38) in MEPE. As the HL phenotype in this family resembled otosclerosis, we performed variant burden and variance components analyses in a large otosclerosis cohort and demonstrated that nonsense and frameshift MEPE variants were significantly enriched in affected subjects (p = 0.0006-0.0060).
    Conclusion: MEPE exerts its function in bone homeostasis by two domains, an RGD and an acidic serine aspartate-rich MEPE-associated (ASARM) motif inhibiting respectively bone resorption and mineralization. All variants associated with otosclerosis are predicted to result in nonsense mediated decay or an ASARM-and-RGD-truncated MEPE. The HCFP variant is predicted to produce an ASARM-truncated MEPE with an intact RGD motif. This difference in effect on the protein corresponds with the presumed pathophysiology of both diseases, and provides a plausible molecular explanation for the distinct phenotypic outcome.
    MeSH term(s) Adult ; Bone and Bones/metabolism ; Extracellular Matrix Proteins/genetics ; Extracellular Matrix Proteins/metabolism ; Facial Paralysis/congenital ; Facial Paralysis/etiology ; Facial Paralysis/genetics ; Facial Paralysis/metabolism ; Family ; Female ; Genetic Diseases, X-Linked/genetics ; Genetic Variation/genetics ; Glycoproteins/genetics ; Glycoproteins/metabolism ; Hearing Loss/genetics ; Heterozygote ; Humans ; Male ; Otosclerosis/genetics ; Pedigree ; Phenotype ; Phosphoproteins/genetics ; Phosphoproteins/metabolism ; Whole Exome Sequencing/methods
    Chemical Substances Extracellular Matrix Proteins ; Glycoproteins ; MEPE protein, human ; Phosphoproteins
    Language English
    Publishing date 2018-10-05
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1455352-1
    ISSN 1530-0366 ; 1098-3600
    ISSN (online) 1530-0366
    ISSN 1098-3600
    DOI 10.1038/s41436-018-0300-5
    Database MEDical Literature Analysis and Retrieval System OnLINE

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