Chromosomal Microarray, Postnatal, Clarisure® Oligo-SNP
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The National Economic Burden of Rare Disease Study February 2021
Acknowledgements This study was sponsored by the EveryLife Foundation for Rare Diseases and made possible through the collaborative efforts of the national rare disease community and key stakeholders. The EveryLife Foundation thanks all those who shared their expertise and insights to provide invaluable input to the study including: the Lewin Group, the EveryLife Community Congress membership, the Technical Advisory Group for this study, leadership from the National Center for Advancing Translational Sciences (NCATS) at the National Institutes of Health (NIH), the Undiagnosed Diseases Network (UDN), the Little Hercules Foundation, the Rare Disease Legislative Advocates (RDLA) Advisory Committee, SmithSolve, and our study funders. Most especially, we thank the members of our rare disease patient and caregiver community who participated in this effort and have helped to transform their lived experience into quantifiable data. LEWIN GROUP PROJECT STAFF Grace Yang, MPA, MA, Vice President Inna Cintina, PhD, Senior Consultant Matt Zhou, BS, Research Consultant Daniel Emont, MPH, Research Consultant Janice Lin, BS, Consultant Samuel Kallman, BA, BS, Research Consultant EVERYLIFE FOUNDATION PROJECT STAFF Annie Kennedy, BS, Chief of Policy and Advocacy Julia Jenkins, BA, Executive Director Jamie Sullivan, MPH, Director of Policy TECHNICAL ADVISORY GROUP Annie Kennedy, BS, Chief of Policy & Advocacy, EveryLife Foundation for Rare Diseases Anne Pariser, MD, Director, Office of Rare Diseases Research, National Center for Advancing Translational Sciences (NCATS), National Institutes of Health Elisabeth M. Oehrlein, PhD, MS, Senior Director, Research and Programs, National Health Council Christina Hartman, Senior Director of Advocacy, The Assistance Fund Kathleen Stratton, National Academies of Science, Engineering and Medicine (NASEM) Steve Silvestri, Director, Government Affairs, Neurocrine Biosciences Inc. -
Thrombocytopenia-Absent Radius Syndrome
Thrombocytopenia-absent radius syndrome Description Thrombocytopenia-absent radius (TAR) syndrome is characterized by the absence of a bone called the radius in each forearm and a shortage (deficiency) of blood cells involved in clotting (platelets). This platelet deficiency (thrombocytopenia) usually appears during infancy and becomes less severe over time; in some cases the platelet levels become normal. Thrombocytopenia prevents normal blood clotting, resulting in easy bruising and frequent nosebleeds. Potentially life-threatening episodes of severe bleeding ( hemorrhages) may occur in the brain and other organs, especially during the first year of life. Hemorrhages can damage the brain and lead to intellectual disability. Affected children who survive this period and do not have damaging hemorrhages in the brain usually have a normal life expectancy and normal intellectual development. The severity of skeletal problems in TAR syndrome varies among affected individuals. The radius, which is the bone on the thumb side of the forearm, is almost always missing in both arms. The other bone in the forearm, which is called the ulna, is sometimes underdeveloped or absent in one or both arms. TAR syndrome is unusual among similar malformations in that affected individuals have thumbs, while people with other conditions involving an absent radius typically do not. However, there may be other abnormalities of the hands, such as webbed or fused fingers (syndactyly) or curved pinky fingers (fifth finger clinodactyly). Some people with TAR syndrome also have skeletal abnormalities affecting the upper arms, legs, or hip sockets. Other features that can occur in TAR syndrome include malformations of the heart or kidneys. -
1 ICR-Geneset Gene List
ICR-geneset Gene List. IMAGE ID UniGene Locus Name Cluster 20115 Hs.62185 SLC9A6 solute carrier family 9 (sodium/hydrogen exchanger), isoform 6 21738 21899 Hs.78353 SRPK2 SFRS protein kinase 2 21908 Hs.79133 CDH8 cadherin 8, type 2 22040 Hs.151738 MMP9 matrix metalloproteinase 9 (gelatinase B, 92kD gelatinase, 92kD type IV collagenase) 22411 Hs.183 FY Duffy blood group 22731 Hs.1787 PHRET1 PH domain containing protein in retina 1 22859 Hs.356487 ESTs 22883 Hs.150926 FPGT fucose-1-phosphate guanylyltransferase 22918 Hs.346868 EBNA1BP2 EBNA1 binding protein 2 23012 Hs.158205 BLZF1 basic leucine zipper nuclear factor 1 (JEM-1) 23073 Hs.284244 FGF2 fibroblast growth factor 2 (basic) 23173 Hs.151051 MAPK10 mitogen-activated protein kinase 10 23185 Hs.289114 TNC tenascin C (hexabrachion) 23282 Hs.8024 IK IK cytokine, down-regulator of HLA II 23353 23431 Hs.50421 RB1CC1 RB1-inducible coiled-coil 1 23514 23548 Hs.71848 Human clone 23548 mRNA sequence 23629 Hs.135587 Human clone 23629 mRNA sequence 23658 Hs.265855 SETMAR SET domain and mariner transposase fusion gene 23676 Hs.100841 Homo sapiens clone 23676 mRNA sequence 23772 Hs.78788 LZTR1 leucine-zipper-like transcriptional regulator, 1 23776 Hs.75438 QDPR quinoid dihydropteridine reductase 23804 Hs.343586 ZFP36 zinc finger protein 36, C3H type, homolog (mouse) 23831 Hs.155247 ALDOC aldolase C, fructose-bisphosphate 23878 Hs.99902 OPCML opioid binding protein/cell adhesion molecule-like 23903 Hs.12526 Homo sapiens clone 23903 mRNA sequence 23932 Hs.368063 Human clone 23932 mRNA sequence 24004 -
Sema4 Noninvasive Prenatal Select
Sema4 Noninvasive Prenatal Select Noninvasive prenatal testing with targeted genome counting 2 Autosomal trisomies 5 Trisomy 21 (Down syndrome) 6 Trisomy 18 (Edwards syndrome) 7 Trisomy 13 (Patau syndrome) 8 Trisomy 16 9 Trisomy 22 9 Trisomy 15 10 Sex chromosome aneuploidies 12 Monosomy X (Turner syndrome) 13 XXX (Trisomy X) 14 XXY (Klinefelter syndrome) 14 XYY 15 Microdeletions 17 22q11.2 deletion 18 1p36 deletion 20 4p16 deletion (Wolf-Hirschhorn syndrome) 20 5p15 deletion (Cri-du-chat syndrome) 22 15q11.2-q13 deletion (Angelman syndrome) 22 15q11.2-q13 deletion (Prader-Willi syndrome) 24 11q23 deletion (Jacobsen Syndrome) 25 8q24 deletion (Langer-Giedion syndrome) 26 Turnaround time 27 Specimen and shipping requirements 27 2 Noninvasive prenatal testing with targeted genome counting Sema4’s Noninvasive Prenatal Testing (NIPT)- Targeted Genome Counting analyzes genetic information of cell-free DNA (cfDNA) through a simple maternal blood draw to determine the risk for common aneuploidies, sex chromosomal abnormalities, and microdeletions, in addition to fetal gender, as early as nine weeks gestation. The test uses paired-end next-generation sequencing technology to provide higher depth across targeted regions. It also uses a laboratory-specific statistical model to help reduce false positive and false negative rates. The test can be offered to all women with singleton, twins and triplet pregnancies, including egg donor. The conditions offered are shown in below tables. For multiple gestation pregnancies, screening of three conditions -
RD-Action Matchmaker – Summary of Disease Expertise Recorded Under
Summary of disease expertise recorded via RD-ACTION Matchmaker under each Thematic Grouping and EURORDIS Members’ Thematic Grouping Thematic Reported expertise of those completing the EURORDIS Member perspectives on Grouping matchmaker under each heading Grouping RD Thematically Rare Bone Achondroplasia/Hypochondroplasia Achondroplasia Amelia skeletal dysplasia’s including Achondroplasia/Growth hormone cleidocranial dysostosis, arthrogryposis deficiency/MPS/Turner Brachydactyly chondrodysplasia punctate Fibrous dysplasia of bone Collagenopathy and oncologic disease such as Fibrodysplasia ossificans progressive Li-Fraumeni syndrome Osteogenesis imperfecta Congenital hand and fore-foot conditions Sterno Costo Clavicular Hyperostosis Disorders of Sex Development Duchenne Muscular Dystrophy Ehlers –Danlos syndrome Fibrodysplasia Ossificans Progressiva Growth disorders Hypoparathyroidism Hypophosphatemic rickets & Nutritional Rickets Hypophosphatasia Jeune’s syndrome Limb reduction defects Madelung disease Metabolic Osteoporosis Multiple Hereditary Exostoses Osteogenesis imperfecta Osteoporosis Paediatric Osteoporosis Paget’s disease Phocomelia Pseudohypoparathyroidism Radial dysplasia Skeletal dysplasia Thanatophoric dwarfism Ulna dysplasia Rare Cancer and Adrenocortical tumours Acute monoblastic leukaemia Tumours Carcinoid tumours Brain tumour Craniopharyngioma Colon cancer, familial nonpolyposis Embryonal tumours of CNS Craniopharyngioma Ependymoma Desmoid disease Epithelial thymic tumours in -
The Genetic Heterogeneity of Brachydactyly Type A1: Identifying the Molecular Pathways
The genetic heterogeneity of brachydactyly type A1: Identifying the molecular pathways Lemuel Jean Racacho Thesis submitted to the Faculty of Graduate Studies and Postdoctoral Studies in partial fulfillment of the requirements for the Doctorate in Philosophy degree in Biochemistry Specialization in Human and Molecular Genetics Department of Biochemistry, Microbiology and Immunology Faculty of Medicine University of Ottawa © Lemuel Jean Racacho, Ottawa, Canada, 2015 Abstract Brachydactyly type A1 (BDA1) is a rare autosomal dominant trait characterized by the shortening of the middle phalanges of digits 2-5 and of the proximal phalange of digit 1 in both hands and feet. Many of the brachymesophalangies including BDA1 have been associated with genetic perturbations along the BMP-SMAD signaling pathway. The goal of this thesis is to identify the molecular pathways that are associated with the BDA1 phenotype through the genetic assessment of BDA1-affected families. We identified four missense mutations that are clustered with other reported BDA1 mutations in the central region of the N-terminal signaling peptide of IHH. We also identified a missense mutation in GDF5 cosegregating with a semi-dominant form of BDA1. In two families we reported two novel BDA1-associated sequence variants in BMPR1B, the gene which codes for the receptor of GDF5. In 2002, we reported a BDA1 trait linked to chromosome 5p13.3 in a Canadian kindred (BDA1B; MIM %607004) but we did not discover a BDA1-causal variant in any of the protein coding genes within the 2.8 Mb critical region. To provide a higher sensitivity of detection, we performed a targeted enrichment of the BDA1B locus followed by high-throughput sequencing. -
Pushing the Limits of Prenatal Ultrasound: a Case of Dorsal Dermal Sinus Associated with an Overt Arnold–Chiari Malformation and a 3Q Duplication
reproductive medicine Case Report Pushing the Limits of Prenatal Ultrasound: A Case of Dorsal Dermal Sinus Associated with an Overt Arnold–Chiari Malformation and a 3q Duplication Olivier Leroij 1, Lennart Van der Veeken 2,*, Bettina Blaumeiser 3 and Katrien Janssens 3 1 Faculty of Medicine, University of Antwerp, 2610 Wilrijk, Belgium; [email protected] 2 Department of Obstetrics and Gynaecology, University Hospital Antwerp, 2650 Edegem, Belgium 3 Department of Medical Genetics, University Hospital and University of Antwerp, 2650 Edegem, Belgium; [email protected] (B.B.); [email protected] (K.J.) * Correspondence: [email protected] Abstract: We present a case of a fetus with cranial abnormalities typical of open spina bifida but with an intact spine shown on both ultrasound and fetal MRI. Expert ultrasound examination revealed a very small tract between the spine and the skin, and a postmortem examination confirmed the diagnosis of a dorsal dermal sinus. Genetic analysis found a mosaic 3q23q27 duplication in the form of a marker chromosome. This case emphasizes that meticulous prenatal ultrasound examination has the potential to diagnose even closed subtypes of neural tube defects. Furthermore, with cerebral anomalies suggesting a spina bifida, other imaging techniques together with genetic tests and measurement of alpha-fetoprotein in the amniotic fluid should be performed. Citation: Leroij, O.; Van der Veeken, Keywords: dorsal dermal sinus; Arnold–Chiari anomaly; 3q23q27 duplication; mosaic; marker chro- L.; Blaumeiser, B.; Janssens, K. mosome Pushing the Limits of Prenatal Ultrasound: A Case of Dorsal Dermal Sinus Associated with an Overt Arnold–Chiari Malformation and a 3q 1. -
TAR Syndrome, a Rare Case Report with Cleft Lip/Palate a Naseh, a Hafizi, F Malek, H Mozdarani, V Yassaee
The Internet Journal of Pediatrics and Neonatology ISPUB.COM Volume 14 Number 1 TAR Syndrome, a Rare Case Report with Cleft Lip/Palate A Naseh, A Hafizi, F Malek, H Mozdarani, V Yassaee Citation A Naseh, A Hafizi, F Malek, H Mozdarani, V Yassaee. TAR Syndrome, a Rare Case Report with Cleft Lip/Palate. The Internet Journal of Pediatrics and Neonatology. 2012 Volume 14 Number 1. Abstract TAR (Thrombocytopenia-Absent Radius) is a clinically –defined syndrome characterized by hypomegakarocytic thrombocytopenia and bilateral absence of radius in the presence of both thumbs. We describe a female neonate as a rare case of TAR syndrome with orofacial cleft. Bone marrow aspiration of the patient revealed a cellular marrow with marked reduction of megakaryocytes. Our clinical observation is consistent with TAR syndrome. However, other syndromes with cleft lip/palate and radial aplasia like Roberts syndrome (tetraphocomelia), Edwards syndrome and Fanconi and sc phocomelia (which has less degree of limb reduction) should be considered. Our cytogenetic study excludes other overlapping chromosomal syndromes. RBM8A analysis may reveal nucleotide alteration, leading to definite diagnosis. Our objective is adding this cleft lip and cleft palate to the literature regarding TAR syndrome. - Eva Klopocki, Harald Schulz, Gabriele Straub,Judith Hall,Fabienne Trotier, et al(February 2007) ;Complex inheritance pattern Resembeling Autosomal Recessive Inheritance Involving a Microdeletion in Thrombocytopenia-Absent Radius Syndrome.The American Journal of Human Genetics 80:232-240 INTRODUCTION syndrome. The hemorrhage happens during the first 14 TAR is a clinically-defined syndrome characterized by months of life. Hedberg and associates concluded in a study thrombocytopenia and bilateral radial bone aplasia in the that 18 of 20 deaths in 76 patients were due to hemorrhagic forearm with thumbs present. -
American Board of Psychiatry and Neurology, Inc
AMERICAN BOARD OF PSYCHIATRY AND NEUROLOGY, INC. CERTIFICATION EXAMINATION IN NEUROLOGY 2015 Content Blueprint (January 13, 2015) Part A Basic neuroscience Number of questions: 120 01. Neuroanatomy 3-5% 02. Neuropathology 3-5% 03. Neurochemistry 2-4% 04. Neurophysiology 5-7% 05. Neuroimmunology/neuroinfectious disease 2-4% 06. Neurogenetics/molecular neurology, neuroepidemiology 2-4% 07. Neuroendocrinology 1-2% 08. Neuropharmacology 4-6% Part B Behavioral neurology, cognition, and psychiatry Number of questions: 80 01. Development through the life cycle 3-5% 02. Psychiatric and psychological principles 1-3% 03. Diagnostic procedures 1-3% 04. Clinical and therapeutic aspects of psychiatric disorders 5-7% 05. Clinical and therapeutic aspects of behavioral neurology 5-7% Part C Clinical neurology (adult and child) The clinical neurology section of the Neurology Certification Examination is comprised of 60% adult neurology questions and 40% child neurology questions. Number of questions: 200 01. Headache disorders 1-3% 02. Pain disorders 1-3% 03. Epilepsy and episodic disorders 1-3% 04. Sleep disorders 1-3% 05. Genetic disorders 1-3% 2015 ABPN Content Specifications Page 1 of 22 Posted: Certification in Neurology AMERICAN BOARD OF PSYCHIATRY AND NEUROLOGY, INC. 06. Congenital disorders 1-3% 07. Cerebrovascular disease 1-3% 08. Neuromuscular diseases 2-4% 09. Cranial nerve palsies 1-3% 10. Spinal cord diseases 1-3% 11. Movement disorders 1-3% 12. Demyelinating diseases 1-3% 13. Neuroinfectious diseases 1-3% 14. Critical care 1-3% 15. Trauma 1-3% 16. Neuro-ophthalmology 1-3% 17. Neuro-otology 1-3% 18. Neurologic complications of systemic diseases 2-4% 19. -
(TAR) Syndrome Without Significant Thrombocytopenia
Open Access Case Report DOI: 10.7759/cureus.10557 Thrombocytopenia with Absent Radii (TAR) Syndrome Without Significant Thrombocytopenia Jael Cowan 1 , Taral Parikh 1 , Rajdeepsingh Waghela 1 , Ricardo Mora 2 1. Pediatrics, Woodhull Medical Center, Brooklyn, USA 2. Neonatology, Woodhull Medical Center, Brooklyn, USA Corresponding author: Jael Cowan, [email protected] Abstract Thrombocytopenia with absent radii (TAR) syndrome is a rare genetic syndrome that occurs with a frequency of about 0.42 cases per 100,000 live births. It is characterized by hypo-megakaryocytic thrombocytopenia with bilateral absent radii and the presence of both thumbs. The thrombocytopenia is initially very severe, manifesting in the first few weeks to months of life, but subsequently improves with time to reach near normal values by one to two years of age. We present a case of a newborn with TAR syndrome with an atypical presentation of mild thrombocytopenia in the first week of life, with early normalization of platelet counts in the neonatal period. The patient deviates from the normal pattern in which 95% of patients with TAR syndrome usually develop significant thrombocytopenia (platelet counts of less than 50 x 10 9 platelets/L) within the first four months of life. Additionally, the absence of hypo-megakaryocytes on peripheral smear sets this patient apart from the typical cases of TAR syndrome. TAR syndrome is often associated with significant morbidity and mortality secondary to severe thrombocytopenia, which occurs with the highest frequency in the first 14 months of life. The most common cause of mortality is due to a severe hemorrhagic event occurring in the brain, gastrointestinal tract, and other organs. -
Joubert Syndrome Genereview
Title: Joubert Syndrome GeneReview — Molecular Genetics: Less Common Genetic Causes Authors: Parisi M, Glass I Updated: June 2017 Note: The following information is provided by the authors listed above and has not been reviewed by GeneReviews staff. Joubert Syndrome: Less Common Genetic Causes ARL13B B9D1 B9D2 CEP41 IFT172 KIF7 OFD1 (CXORF5) PDE6D POC1B TCTN1 TCTN3 TMEM138 TMEM231 TMEM237 (ALS2CR4) TTC21B ARL13B Gene structure. ARL13B is a ten-exon gene that encodes a 428-amino acid protein. Pathogenic variants. Two families with a phenotype typical of classic Joubert syndrome had missense and/or nonsense variants in this gene; one of these individuals also had evidence of a retinopathy [Cantagrel et al 2008]. Normal gene product. ARL13B encodes ADP-ribosylation factor-like protein 13B, a member of the ADP-ribosylation factor-like family. Multiple transcript variants result from alternate splicing; two protein isoforms are known. The AR13B protein is a small GTPase in the Ras superfamily that contains both N-terminal and C-terminal guanine nucleotide-binding motifs. It is localized to the cilia and plays a role in cilia formation and maintenance as well as sonic hedgehog signaling. Abnormal gene product. In C elegans, pathogenic variants in the homolog arl13 exhibit defective cilium morphology, localization, and anterograde intraflagellar transport [Cevik et al 2010]. Mice with defects in the murine ortholog have neural tube defects and polydactyly, as well as an embryonic-lethal phenotype [Cantagrel et al 2008, Doherty 2009]. B9D1. See Tables A and B. B9D2. See Tables A and B. CEP41 Gene structure. The gene consists of 11 exons and spans approximately 50 kb. -
TARGETED GENE PANELS and REFERENCE SEQUENCE (Refseq) TRANSCRIPTS by PHENOTYPE
ROYAL DEVON & EXETER NHS FOUNDATION TRUST Department of Molecular Genetics TARGETED GENE PANELS AND REFERENCE SEQUENCE (RefSeq) TRANSCRIPTS BY PHENOTYPE Table of Contents (Click to select) Alagille Syndrome 2 Chondrodysplasia punctata 2 Combined Pituitary Hormone Deficiency 2 Congenital Generalised Lipodystrophy 2 Congenital Hypothyroidism 2 Early-onset Diabetes and Autoimmunity 3 Endocrine Neoplasia Syndromes 3 Familial Glucocorticoid Deficiency 3 Familial Hyperparathyroidism 3 Familial Hypocalciuric Hypercalcaemia 3 Familial Hyperparathyroidism/hypercalcaemia 4 Familial Hypoparathyroidism 4 Familial Partial Lipodystrophy 4 Familial Porencephaly and HANAC syndrome 4 Familial Tumoral Calcinosis 4 Feingold syndrome 4 Gastrointestinal atresia 5 Generalised Arterial Calcification in Infancy 5 Holoprosencephaly 5 Hyperinsulinism 5 Hypophosphatemic Rickets 6 Isolated Growth Hormone Deficiency 6 Kabuki syndrome 6 Kallmann syndrome 6 Mandibulofacial Dysostosis with Microcephaly 6 Moebius syndrome 6 Monogenic Diabetes of the Young (MODY) 7 Multiple Exostosis 7 Neonatal Diabetes 8 Phaeochromocytoma/Paraganglioma 9 Pontocerebellar Hypoplasia 9 Primary pigmented nodular adrenocortical disease 9 Pseudohypoaldosteronism 9 Spondylocostal Dysostosis 9 Visceral heterotaxy 10 Page 1 of 10 ROYAL DEVON & EXETER NHS FOUNDATION TRUST Department of Molecular Genetics Alagille Syndrome Transcript(s) JAG1 NM_000214 NOTCH2 NM_024408 Chondrodysplasia punctata Transcript(s) AGPS NM_003659 ARSE NM_000047 EBP NM_006579 GNPAT NM_014236 PEX7 NM_000288 Combined Pituitary