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GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis

The implementation of high‐throughput sequencing (HTS) technologies in research and diagnostic laboratories has linked many new genes to rare bleeding, thrombotic, and platelet disorders (BTPD), and revealed multiple genetic variants linked to those disorders, many of them being of uncertain pathoge...

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Autores principales: Megy, Karyn, Downes, Kate, Morel‐Kopp, Marie‐Christine, Bastida, José M., Brooks, Shannon, Bury, Loredana, Leinoe, Eva, Gomez, Keith, Morgan, Neil V., Othman, Maha, Ouwehand, Willem H., Perez Botero, Juliana, Rivera, José, Schulze, Harald, Trégouët, David‐Alexandre, Freson, Kathleen
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9291976/
https://www.ncbi.nlm.nih.gov/pubmed/34355501
http://dx.doi.org/10.1111/jth.15459
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author Megy, Karyn
Downes, Kate
Morel‐Kopp, Marie‐Christine
Bastida, José M.
Brooks, Shannon
Bury, Loredana
Leinoe, Eva
Gomez, Keith
Morgan, Neil V.
Othman, Maha
Ouwehand, Willem H.
Perez Botero, Juliana
Rivera, José
Schulze, Harald
Trégouët, David‐Alexandre
Freson, Kathleen
author_facet Megy, Karyn
Downes, Kate
Morel‐Kopp, Marie‐Christine
Bastida, José M.
Brooks, Shannon
Bury, Loredana
Leinoe, Eva
Gomez, Keith
Morgan, Neil V.
Othman, Maha
Ouwehand, Willem H.
Perez Botero, Juliana
Rivera, José
Schulze, Harald
Trégouët, David‐Alexandre
Freson, Kathleen
author_sort Megy, Karyn
collection PubMed
description The implementation of high‐throughput sequencing (HTS) technologies in research and diagnostic laboratories has linked many new genes to rare bleeding, thrombotic, and platelet disorders (BTPD), and revealed multiple genetic variants linked to those disorders, many of them being of uncertain pathogenicity when considering the accepted evidence (variant consequence, frequency in control datasets, number of reported patients, prediction models, and functional assays). The sequencing effort has also resulted in resources for gathering disease‐causing variants associated with specific genes, but for BTPD, such well‐curated databases exist only for a few genes. On the other hand, submissions by individuals or diagnostic laboratories to the variant database ClinVar are hampered by the lack of a submission process tailored to capture the specific features of hemostatic diseases. As we move toward the implementation of HTS in the diagnosis of BTPD, the Scientific and Standardization Committee for Genetics in Thrombosis and Haemostasis has developed and tested a REDCap‐based interface, aimed at the community, to submit curated genetic variants for diagnostic‐grade BTPD genes. Here, we describe the use of the interface and the initial submission of 821 variants from 30 different centers covering 14 countries. This open‐access variant resource will be shared with the community to improve variant classification and regular bulk data transfer to ClinVar.
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spelling pubmed-92919762022-07-20 GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis Megy, Karyn Downes, Kate Morel‐Kopp, Marie‐Christine Bastida, José M. Brooks, Shannon Bury, Loredana Leinoe, Eva Gomez, Keith Morgan, Neil V. Othman, Maha Ouwehand, Willem H. Perez Botero, Juliana Rivera, José Schulze, Harald Trégouët, David‐Alexandre Freson, Kathleen J Thromb Haemost Isth Ssc Communications The implementation of high‐throughput sequencing (HTS) technologies in research and diagnostic laboratories has linked many new genes to rare bleeding, thrombotic, and platelet disorders (BTPD), and revealed multiple genetic variants linked to those disorders, many of them being of uncertain pathogenicity when considering the accepted evidence (variant consequence, frequency in control datasets, number of reported patients, prediction models, and functional assays). The sequencing effort has also resulted in resources for gathering disease‐causing variants associated with specific genes, but for BTPD, such well‐curated databases exist only for a few genes. On the other hand, submissions by individuals or diagnostic laboratories to the variant database ClinVar are hampered by the lack of a submission process tailored to capture the specific features of hemostatic diseases. As we move toward the implementation of HTS in the diagnosis of BTPD, the Scientific and Standardization Committee for Genetics in Thrombosis and Haemostasis has developed and tested a REDCap‐based interface, aimed at the community, to submit curated genetic variants for diagnostic‐grade BTPD genes. Here, we describe the use of the interface and the initial submission of 821 variants from 30 different centers covering 14 countries. This open‐access variant resource will be shared with the community to improve variant classification and regular bulk data transfer to ClinVar. John Wiley and Sons Inc. 2021-08-05 2021-10 /pmc/articles/PMC9291976/ /pubmed/34355501 http://dx.doi.org/10.1111/jth.15459 Text en © 2021 The Authors. Journal of Thrombosis and Haemostasis published by Wiley Periodicals LLC on behalf of International Society on Thrombosis and Haemostasis. https://creativecommons.org/licenses/by-nc/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc/4.0/ (https://creativecommons.org/licenses/by-nc/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
spellingShingle Isth Ssc Communications
Megy, Karyn
Downes, Kate
Morel‐Kopp, Marie‐Christine
Bastida, José M.
Brooks, Shannon
Bury, Loredana
Leinoe, Eva
Gomez, Keith
Morgan, Neil V.
Othman, Maha
Ouwehand, Willem H.
Perez Botero, Juliana
Rivera, José
Schulze, Harald
Trégouët, David‐Alexandre
Freson, Kathleen
GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title_full GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title_fullStr GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title_full_unstemmed GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title_short GoldVariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: Communication from the ISTH SSC Subcommittee on Genomics in Thrombosis and Hemostasis
title_sort goldvariants, a resource for sharing rare genetic variants detected in bleeding, thrombotic, and platelet disorders: communication from the isth ssc subcommittee on genomics in thrombosis and hemostasis
topic Isth Ssc Communications
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9291976/
https://www.ncbi.nlm.nih.gov/pubmed/34355501
http://dx.doi.org/10.1111/jth.15459
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