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  1. Article ; Online: Segmental Ipsilateral Odontognathic Dysplasia (Mandibular Involvement in Segmental Odontomaxillary Dysplasia?) and Identification of PIK3CA Somatic Variant in Lesional Mandibular Gingival Tissue.

    Gibson, Tanya M / Rafferty, Keith / Ryan, Elyse / Ganguly, Arupa / Koutlas, Ioannis G

    Head and neck pathology

    2020  Volume 15, Issue 1, Page(s) 368–373

    Abstract: Segmental odontomaxillary dysplasia (SOD) is a developmental condition of the middle and posterior maxilla featuring dysplastic bone overgrowth, dental abnormalities and, occasionally, various homolateral cutaneous manifestations. Herein, we describe an ... ...

    Abstract Segmental odontomaxillary dysplasia (SOD) is a developmental condition of the middle and posterior maxilla featuring dysplastic bone overgrowth, dental abnormalities and, occasionally, various homolateral cutaneous manifestations. Herein, we describe an individual with maxillary abnormality akin to SOD and associated ipsilateral segmental odontomandibular dysplasia. Also, the result of the evaluation of lesional mandibular gingival tissue for overgrowth-related gene variants is reported. An 8-year-old girl presented clinically with congenital maxillary and mandibular alveolar soft tissue enlargement in the area of the premolars. A panoramic radiograph revealed abnormal trabeculation essentially similar to SOD in the maxilla and mandible with congenitally missing maxillary and mandibular first and second premolars and mandibular canines. Diagnostic mandibular bone biopsy was performed and lesional mandibular gingival hyperplastic tissue was obtained for variant analysis of somatic overgrowth genes PIK3CA, AKT1, AKT3, GNAQ, GNA11, MTOR, PIK3R2. Cone beam computerized tomography (CBCT) disclosed osseous abnormalities on the left side of the maxilla and mandible and very mild osseous expansion in the mandible. Histologically, abnormal bone exhibiting prominent reversal lines was present and associated with fibrocollagenous tissue. Genomic DNA analysis disclosed PIK3CAc.1571G>A; pArg524Lys which was seen at a low mosaic level in the blood, indicating a post-zygotic change. Although this case may be a unique disorder, by sharing features with SOD, one can suggest the possibility of mandibular involvement in SOD. The presence of a PIK3CA variant may support the hypothesis that these segmental disorders could be part of the PIK3CA-related overgrowth spectrum.
    MeSH term(s) Child ; Class I Phosphatidylinositol 3-Kinases/genetics ; Female ; Gingival Hyperplasia/congenital ; Gingival Hyperplasia/genetics ; Humans ; Mandible/abnormalities ; Maxilla/abnormalities ; Odontodysplasia/genetics ; Odontodysplasia/pathology
    Chemical Substances Class I Phosphatidylinositol 3-Kinases (EC 2.7.1.137) ; PIK3CA protein, human (EC 2.7.1.137)
    Language English
    Publishing date 2020-06-04
    Publishing country United States
    Document type Case Reports ; Journal Article
    ZDB-ID 2407834-7
    ISSN 1936-0568 ; 1936-055X
    ISSN (online) 1936-0568
    ISSN 1936-055X
    DOI 10.1007/s12105-020-01185-5
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Erratum: Orofacial overgrowth with peripheral nerve enlargement and perineuriomatous pseudo-onion bulb proliferations is part of the

    Koutlas, Ioannis G / Anbinder, Ana-Lia / Alshagroud, Rana / Rodrigues Cavalcante, Ana Sueli / Al Kindi, Mohammed / Crenshaw, Molly M / Sapp, Julie C / Kondolf, Hannah / Lindhurst, Marjorie J / Dudley, Jeffrey N / Johnston, Jennifer J / Ryan, Elyse / Rafferty, Keith / Ganguly, Arupa / Biesecker, Leslie G

    HGG advances

    2021  Volume 3, Issue 1, Page(s) 100062

    Abstract: This corrects the article DOI: 10.1016/j.xhgg.2020.100009.]. ...

    Abstract [This corrects the article DOI: 10.1016/j.xhgg.2020.100009.].
    Language English
    Publishing date 2021-10-26
    Publishing country United States
    Document type Published Erratum
    ISSN 2666-2477
    ISSN (online) 2666-2477
    DOI 10.1016/j.xhgg.2021.100062
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Molecular diagnosis of somatic overgrowth conditions: A single-center experience.

    Lalonde, Emilie / Ebrahimzadeh, Jessica / Rafferty, Keith / Richards-Yutz, Jennifer / Grant, Richard / Toorens, Erik / Marie Rosado, Jennifer / Schindewolf, Erica / Ganguly, Tapan / Kalish, Jennifer M / Deardorff, Matthew A / Ganguly, Arupa

    Molecular genetics & genomic medicine

    2019  Volume 7, Issue 3, Page(s) e536

    Abstract: Background: Somatic overgrowth conditions, including Proteus syndrome, Sturge-Weber syndrome, and PIK3CA-related overgrowth spectrum, are caused by post-zygotic pathogenic variants, result in segmental mosaicism, and give rise to neural, cutaneous and/ ... ...

    Abstract Background: Somatic overgrowth conditions, including Proteus syndrome, Sturge-Weber syndrome, and PIK3CA-related overgrowth spectrum, are caused by post-zygotic pathogenic variants, result in segmental mosaicism, and give rise to neural, cutaneous and/or lipomatous overgrowth. These variants occur in growth-promoting pathways leading to cellular proliferation and expansion of tissues that arise from the affected cellular lineage.
    Methods: We report on 80 serial patients evaluated for somatic overgrowth conditions in a diagnostic laboratory setting, including three prenatal patients. In total, 166 tissues from these 80 patients were subjected to targeted sequencing of an 8-gene panel capturing 10.2 kb of sequence containing known pathogenic variants associated with somatic overgrowth conditions. Deep next-generation sequencing was performed with the IonTorrent PGM platform at an average depth typically >5,000×.
    Results: Likely pathogenic or pathogenic variants were identified in 36 individuals and variants of unknown significance in four. The overall molecular diagnostic yield was 45% but was highly influenced by both submitted tissue type and phenotype. In the prenatal setting, two patients had pathogenic variants identified in cultured amniocytes but in a third patient, the pathogenic variant was only present in post-natal tissues. Finally, expanding the test to include full gene sequencing of PIK3CA in contrast to targeted sequencing identified likely pathogenic variants in 3 of 7 patients that tested negative on the original panel.
    Conclusion: Next-generation sequencing has enabled sensitive detection of somatic pathogenic variants associated with overgrowth conditions. However, as the pathogenic variant allele frequency varies by tissue type within an individual, submission of affected tissue(s) greatly increases the chances of a molecular diagnosis.
    MeSH term(s) Class I Phosphatidylinositol 3-Kinases/genetics ; Genetic Testing ; Humans ; Lipoma/diagnosis ; Lipoma/genetics ; Musculoskeletal Abnormalities/diagnosis ; Musculoskeletal Abnormalities/genetics ; Mutation ; Nevus/diagnosis ; Nevus/genetics ; Proteus Syndrome/diagnosis ; Proteus Syndrome/genetics ; Sequence Analysis, DNA ; Sturge-Weber Syndrome/diagnosis ; Sturge-Weber Syndrome/genetics ; Vascular Malformations/diagnosis ; Vascular Malformations/genetics
    Chemical Substances Class I Phosphatidylinositol 3-Kinases (EC 2.7.1.137) ; PIK3CA protein, human (EC 2.7.1.137)
    Language English
    Publishing date 2019-02-13
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2734884-2
    ISSN 2324-9269 ; 2324-9269
    ISSN (online) 2324-9269
    ISSN 2324-9269
    DOI 10.1002/mgg3.536
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Orofacial overgrowth with peripheral nerve enlargement and perineuriomatous pseudo-onion bulb proliferations is part of the

    Koutlas, Ioannis G / Anbinder, Ana-Lia / Alshagroud, Rana / Rodrigues Cavalcante, Ana Sueli / Al Kindi, Mohammed / Crenshaw, Molly M / Sapp, Julie C / Kondolf, Hannah / Lindhurst, Marjorie J / Dudley, Jeffrey N / Johnston, Jennifer J / Ryan, Elyse / Rafferty, Keith / Ganguly, Arupa / Biesecker, Leslie G

    HGG advances

    2020  Volume 1, Issue 1, Page(s) 100009

    Abstract: Individuals with orofacial asymmetry due to mucosal overgrowths, ipsilateral bone and dental aberrations with perineurial hyperplasia and/or perineuriomatous pseudo-onion bulb proliferations, comprise a recognizable clinical entity. In this article, we ... ...

    Abstract Individuals with orofacial asymmetry due to mucosal overgrowths, ipsilateral bone and dental aberrations with perineurial hyperplasia and/or perineuriomatous pseudo-onion bulb proliferations, comprise a recognizable clinical entity. In this article, we describe three individuals with this clinical entity and mosaic
    Language English
    Publishing date 2020-08-14
    Publishing country United States
    Document type Journal Article
    ISSN 2666-2477
    ISSN (online) 2666-2477
    DOI 10.1016/j.xhgg.2020.100009
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Author Correction: Prioritizing multiple therapeutic targets in parallel using automated DNA-encoded library screening.

    Machutta, Carl A / Kollmann, Christopher S / Lind, Kenneth E / Bai, Xiaopeng / Chan, Pan F / Huang, Jianzhong / Ballell, Lluis / Belyanskaya, Svetlana / Besra, Gurdyal S / Barros-Aguirre, David / Bates, Robert H / Centrella, Paolo A / Chang, Sandy S / Chai, Jing / Choudhry, Anthony E / Coffin, Aaron / Davie, Christopher P / Deng, Hongfeng / Deng, Jianghe /
    Ding, Yun / Dodson, Jason W / Fosbenner, David T / Gao, Enoch N / Graham, Taylor L / Graybill, Todd L / Ingraham, Karen / Johnson, Walter P / King, Bryan W / Kwiatkowski, Christopher R / Lelièvre, Joël / Li, Yue / Liu, Xiaorong / Lu, Quinn / Lehr, Ruth / Mendoza-Losana, Alfonso / Martin, John / McCloskey, Lynn / McCormick, Patti / O'Keefe, Heather P / O'Keeffe, Thomas / Pao, Christina / Phelps, Christopher B / Qi, Hongwei / Rafferty, Keith / Scavello, Genaro S / Steiginga, Matt S / Sundersingh, Flora S / Sweitzer, Sharon M / Szewczuk, Lawrence M / Taylor, Amy / Fern Toh, May / Wang, Juan / Wang, Minghui / Wilkins, Devan J / Xia, Bing / Yao, Gang / Zhang, Jean / Zhou, Jingye / Donahue, Christine P / Messer, Jeffrey A / Holmes, David / Arico-Muendel, Christopher C / Pope, Andrew J / Gross, Jeffrey W / Evindar, Ghotas

    Nature communications

    2018  Volume 9, Page(s) 16227

    Abstract: This corrects the article DOI: 10.1038/ncomms16081. ...

    Abstract This corrects the article DOI: 10.1038/ncomms16081.
    Language English
    Publishing date 2018-07-13
    Publishing country England
    Document type Journal Article ; Published Erratum
    ISSN 2041-1723
    ISSN (online) 2041-1723
    DOI 10.1038/ncomms16227
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Prioritizing multiple therapeutic targets in parallel using automated DNA-encoded library screening.

    Machutta, Carl A / Kollmann, Christopher S / Lind, Kenneth E / Bai, Xiaopeng / Chan, Pan F / Huang, Jianzhong / Ballell, Lluis / Belyanskaya, Svetlana / Besra, Gurdyal S / Barros-Aguirre, David / Bates, Robert H / Centrella, Paolo A / Chang, Sandy S / Chai, Jing / Choudhry, Anthony E / Coffin, Aaron / Davie, Christopher P / Deng, Hongfeng / Deng, Jianghe /
    Ding, Yun / Dodson, Jason W / Fosbenner, David T / Gao, Enoch N / Graham, Taylor L / Graybill, Todd L / Ingraham, Karen / Johnson, Walter P / King, Bryan W / Kwiatkowski, Christopher R / Lelièvre, Joël / Li, Yue / Liu, Xiaorong / Lu, Quinn / Lehr, Ruth / Mendoza-Losana, Alfonso / Martin, John / McCloskey, Lynn / McCormick, Patti / O'Keefe, Heather P / O'Keeffe, Thomas / Pao, Christina / Phelps, Christopher B / Qi, Hongwei / Rafferty, Keith / Scavello, Genaro S / Steiginga, Matt S / Sundersingh, Flora S / Sweitzer, Sharon M / Szewczuk, Lawrence M / Taylor, Amy / Toh, May Fern / Wang, Juan / Wang, Minghui / Wilkins, Devan J / Xia, Bing / Yao, Gang / Zhang, Jean / Zhou, Jingye / Donahue, Christine P / Messer, Jeffrey A / Holmes, David / Arico-Muendel, Christopher C / Pope, Andrew J / Gross, Jeffrey W / Evindar, Ghotas

    Nature communications

    2017  Volume 8, Page(s) 16081

    Abstract: The identification and prioritization of chemically tractable therapeutic targets is a significant challenge in the discovery of new medicines. We have developed a novel method that rapidly screens multiple proteins in parallel using DNA-encoded library ... ...

    Abstract The identification and prioritization of chemically tractable therapeutic targets is a significant challenge in the discovery of new medicines. We have developed a novel method that rapidly screens multiple proteins in parallel using DNA-encoded library technology (ELT). Initial efforts were focused on the efficient discovery of antibacterial leads against 119 targets from Acinetobacter baumannii and Staphylococcus aureus. The success of this effort led to the hypothesis that the relative number of ELT binders alone could be used to assess the ligandability of large sets of proteins. This concept was further explored by screening 42 targets from Mycobacterium tuberculosis. Active chemical series for six targets from our initial effort as well as three chemotypes for DHFR from M. tuberculosis are reported. The findings demonstrate that parallel ELT selections can be used to assess ligandability and highlight opportunities for successful lead and tool discovery.
    MeSH term(s) Acinetobacter baumannii/drug effects ; Acinetobacter baumannii/metabolism ; Anti-Bacterial Agents/pharmacology ; Drug Discovery/methods ; Drug Evaluation, Preclinical ; Gene Library ; Molecular Targeted Therapy ; Mycobacterium tuberculosis/drug effects ; Mycobacterium tuberculosis/metabolism ; Small Molecule Libraries ; Staphylococcus aureus/drug effects ; Staphylococcus aureus/metabolism
    Chemical Substances Anti-Bacterial Agents ; Small Molecule Libraries
    Language English
    Publishing date 2017-07-17
    Publishing country England
    Document type Journal Article
    ISSN 2041-1723
    ISSN (online) 2041-1723
    DOI 10.1038/ncomms16081
    Database MEDical Literature Analysis and Retrieval System OnLINE

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