Whole-Genome Sequencing in a Patient with Charcot–Marie–Tooth Neuropathy
Open accessAbstract
BACKGROUND: Whole-genome sequencing may revolutionize medical diagnostics through rapid identification of alleles that cause disease. However, even in cases with simple patterns of inheritance and unambiguous diagnoses, the relationship between disease phenotypes and their corresponding genetic changes can be complicated. Comprehensive diagnostic assays must therefore identify all possible DNA changes in each haplotype and determine which are responsible for the underlying disorder. The high number of rare, heterogeneous mutations present in all humans and the paucity of known functional variants in more than 90% of annotated genes make this challenge particularly difficult. Thus, the identification of the molecular basis of a genetic disease by means of whole-genome sequencing has remained elusive. We therefore aimed to assess the usefulness of human whole-genome sequencing for genetic diagnosis in a patient with Charcot-Marie-Tooth disease. METHODS: We identified a family with a recessive form of Charcot-Marie-Tooth disease for which the genetic basis had not been identified. We sequenced the whole genome of the proband, identified all potential functional variants in genes likely to be related to the disease, and genotyped these variants in the affected family members. RESULTS: We identified and validated compound, heterozygous, causative alleles in SH3TC2 (the SH3 domain and tetratricopeptide repeats 2 gene), involving two mutations, in the proband and in family members affected by Charcot-Marie-Tooth disease. Separate subclinical phenotypes segregated independently with each of the two mutations; heterozygous mutations confer susceptibility to neuropathy, including the carpal tunnel syndrome. CONCLUSIONS: As shown in this study of a family with Charcot-Marie-Tooth disease, whole-genome sequencing can identify clinically relevant variants and provide diagnostic information to inform the care of patients.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The most plausible explanation for incorrect detection of c.1823 G>A as a non-deleterious SNP is that the same variant is present in an ABCD1 pseudogene on chromosome 2 and was mistakenly attributed to the real ABCD1 gene.
“Therefore, the most plausible explanation for the incorrect detection of the mutation in the former study52 is that the same variant is present in an ABCD1 pseudogene located on chromosome 2 and was by mistake attributed to the real ABCD1 gene.”
From The genetic landscape of X-linked adrenoleukodystrophy: inheritance, mutations, modifier genes, and diagnosis (2015) · cites this paper as [52]
The Results (Genome Variation; page unavailable) report an ABCD1 SNP in a patient without adrenoleukodystrophy and suggest that its classification as a disease mutation might be erroneous. The paper does not identify c.1823 G>A, an ABCD1 pseudogene on chromosome 2, or mistaken attribution to the real gene as the explanation. The citing authors present that explanation as their own inference. (LLM, conf=0.85)
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Accurate whole human genome sequencing using reversible terminator chemistry
Bentley, D. R., Balasubramanian, S., Swerdlow, H. P., Smith, G. P., Milton, J., Brown, C. G., Hall, K. P., Evers, D. J., Barnes, C. L., Bignell, H. R., et al. (2008) · Nature · doi:10.1038/nature07517 · Cited by 3,684 · see citing works
The Diploid Genome Sequence of an Individual Human
Levy, S., Sutton, G., Ng, P. C., Feuk, L., Halpern, A. L., Walenz, B. P., Axelrod, N., Huang, J., Kirkness, E. F., Denisov, G., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050254 · Cited by 1,778 · see citing works
The diploid genome sequence of an Asian individual
Wang, J., Wang, W., Li, R., Li, Y., Tian, G., Goodman, L., Fan, W., Zhang, J., Li, J., Zhang, J., et al. (2008) · Nature · doi:10.1038/nature07484 · Cited by 924 · see citing works
Direct selection of human genomic loci by microarray hybridization
Albert, T. J., Molla, M. N., Muzny, D. M., Nazareth, L., Wheeler, D., Song, X., Richmond, T. A., Middle, C. M., Rodesch, M. J., Packard, C. J., et al. (2007) · Nature Methods · doi:10.1038/nmeth1111 · Cited by 681 · see citing works
Self-citationA highly annotated whole-genome sequence of a Korean individual
Kim, J.-I., Ju, Y. S., Park, H., Kim, S., Lee, S., Yi, J.-H., Mudge, J., Miller, N. A., Hong, D., Bell, C. J., et al. (2009) · Nature · doi:10.1038/nature08211 · Cited by 330 · see citing works
Dvoráková, L., Štorkánová, G., Unterrainer, G., Hujová, J., Kmoch, S., Zeman, J., Hrebícek, M., & Berger, J. (2001) · Human Mutation · doi:10.1002/humu.1149 · Cited by 23 · see citing works
Flagged first, then by citations
Research works printed but not linked: 28
- [1]Rommens JM Iannuzzi MC Kerem B Identification of the cystic fibrosis gene: chromosome walking and jumping Science 1989 245 1059 65 2772657
- [2]Wallace MR Marchuk DA Andersen LB Type 1 neurofibromatosis gene: identification of a large transcript disrupted in three NF1 patients Science 1990 249 181 6 2134734
- [3]Kajiwara K Berson EL Dryja TP Digenic retinitis pigmentosa due to mutations at the unlinked peripherin/RDS and ROM1 loci Science 1994 264 1604 8 8202715
- [4]Katsanis N Ansley SJ Badano JL Triallelic inheritance in Bardet-Biedl syndrome, a Mendelian recessive disorder Science 2001 293 2256 9 11567139
- [5]Dipple KM McCabe ERB Phenotypes of patients with “simple” Mendelian disorders are complex traits: thresholds, modifiers, and systems dynamics Am J Hum Genet 2000 66 1729 35 10793008 PMC1378056
- [6]Badano JL Katsanis N Beyond Mendel: an evolving view of human genetic disease transmission Nat Rev Genet 2002 3 779 89 12360236
- [9]England JD Gronseth GS Franklin G Practice parameter: evaluation of distal symmetric polyneuropathy: role of laboratory and genetic testing (an evidence-based review): report of the American Academy of Neurology, American Association of Neuromuscular and Electrodiag-nostic Medicine, and American Academy of Physical Medicine and Rehabilitation Neurology 2009 72 185 92 19056666
- [10]Lupski JR Structural variation in the human genome N Engl J Med 2007 356 1169 71 17360997
- [11]Roa BB Garcia CA Suter U Charcot–Marie–Tooth disease type 1A: association with a spontaneous point mutation in the PMP22 gene N Engl J Med 1993 329 96 101 8510709
- [12]McKernan KJ Peckham HE Costa GL Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding Genome Res 2009 19 1527 41 19546169 PMC2752135
- [13]Del Colle R Fabrizi GM Turazzini M Cavallaro T Silvestri M Rizzuto N Hereditary neuropathy with liability to pressure palsies: electrophysiological and genetic study of a family with carpal tunnel syndrome as only clinical manifestation Neurol Sci 2003 24 57 60 12827539
- [14]Lupski JR de Oca-Luna RM Slaugen-haupt S DNA duplication associated with Charcot-Marie-Tooth disease type 1A Cell 1991 66 219 32 1677316
- [15]International Human Genome Sequencing Consortium Finishing the euchromatic sequence of the human genome Nature 2004 431 931 45 15496913
- [17]Wheeler DA Srinivasan M Egholm M The complete genome of an individual by massively parallel DNA sequencing Nature 2008 452 872 6 18421352
- [20]Ahn SM Kim TH Lee S The first Korean genome sequence and analysis: full genome sequencing for a socioethnic group Genome Res 2009 19 1622 9 19470904 PMC2752128
- [23]Senderek J Bergmann C Stendel C Mutations in a gene encoding a novel SH3/TPR domain protein cause autosomal recessive Charcot-Marie-Tooth type 4C neuropathy Am J Hum Genet 2003 73 1106 19 14574644 PMC1180490
- [24]Azzedine H Ravisé N Verny C Spine deformities in Charcot-Marie-Tooth 4C caused by SH3TC2 gene mutations Neurology 2006 67 602 6 16924012
- [25]Gooding R Colomer J King R A novel Gypsy founder mutation, p.Arg1109X in the CMT4C gene, causes variable peripheral neuropathy phenotypes J Med Genet 2005 42 12 e69 16326826 PMC1735969
- [27]Ng SB Buckingham KJ Lee C Exome sequencing identifies the cause of a mendelian disorder Nat Genet 2010 42 30 5 19915526 PMC2847889
- [28]Arnaud E Zenker J de Preux Charles A-S SH3TC2/KIAA1985 protein is required for proper myelination and the integrity of the node of Ranvier in the peripheral nervous system Proc Natl Acad Sci U S A 2009 106 17528 33 19805030 PMC2765159
- [29]Roberts RC Peden AA Buss F Mistargeting of SH3TC2 away from the recycling endosome causes Charcot-Marie-Tooth disease type 4C Hum Mol Genet 2010 19 1009 18 20028792 PMC2830826
- [30]Lupo V Galindo M Martínez-Rubio D Mutations in the SH3TC2 protein causing Charcot-Marie-Tooth disease type 4C affect its localization in the plasma membrane and endocytic pathway Hum Mol Genet 2009 18 4603 14 19744956
- [32]Chung KW Sunwoo IN Kim SM Two missense mutations of EGR2 R359W and GJB1 V136A in a Charcot-Marie- Tooth disease family Neurogenetics 2005 6 159 63 15947997
- [33]Auer-Grumbach M Fischer C Papić L Two novel mutations in the GDAP1 and PRX genes in early onset Charcot-Marie-Tooth syndrome Neuropediatrics 2008 39 33 8 18504680 PMC3272394
- [34]Hodapp JA Carter GT Lipe HP Michelson SJ Kraft GH Bird TD Double trouble in hereditary neuropathy: concomitant mutations in the PMP-22 gene and another gene produce novel phenotypes Arch Neurol 2006 63 112 7 16401743
- [35]Roa BB Garcia CA Pentao L Evidence for a recessive PMP22 point mutation in Charcot-Marie-Tooth disease type 1A Nat Genet 1993 5 189 94 8252046
- [36]Shy ME Scavina MT Clark A T118M PMP22 mutation causes partial loss of function and HNPP-like neuropathy Ann Neurol 2006 59 358 64 16437560
- [37]Verny C Ravisé N Leutenegger AL Coincidence of two genetic forms of Charcot-Marie-Tooth disease in a single family Neurology 2004 63 1527 9 15505184
Cited by
Sorted by citations
An integrated semiconductor device enabling non-optical genome sequencing
Rothberg, J. M., Hinz, W., Rearick, T. M., Schultz, J., Mileski, W., Davey, M. S., Leamon, J. H., Johnson, K., Milgrew, M. J., Edwards, M. M., et al. (2011) · Nature · doi:10.1038/nature10242 · Cited by 2,187 · see citing works
Clinical Whole-Exome Sequencing for the Diagnosis of Mendelian Disorders
Yang, Y., Muzny, D. M., Reid, J. G., Bainbridge, M. N., Willis, A. S., Ward, P. A., Braxton, A. A., Beuten, J., Xia, F., Niu, Z., et al. (2013) · New England Journal of Medicine · doi:10.1056/nejmoa1306555 · Cited by 1,954 · see citing works
Self-citationCleft lip and palate: understanding genetic and environmental influences
Dixon, M. J., Marazita, M. L., Beaty, T. H., & Murray, J. C. (2011) · Nature Reviews Genetics · doi:10.1038/nrg2933 · Cited by 1,987 · see citing works
“Whole-exome sequencing has recently been successful in identifying causative genetic variants for Mendelian trait”
Wright, C. F., Fitzgerald, T. W., Jones, W. D., Clayton, S., McRae, J. F., van Kogelenberg, M., King, D. A., Ambridge, K., Barrett, D. M., Bayzetinova, T., et al. (2014) · The Lancet · doi:10.1016/s0140-6736(14)61705-0 · Cited by 728 · see citing works
Diagnostic exome sequencing in persons with severe intellectual disability
de Ligt, J., Willemsen, M. H., van Bon, B. W. M., Kleefstra, T., Yntema, H. G., Kroes, T., Vulto-van Silfhout, A. T., Koolen, D. A., de Vries, P., Gilissen, C., et al. (2012) · New England Journal of Medicine · doi:10.1056/nejmoa1206524 · Cited by 1,546 · see citing works
A Systematic Survey of Loss-of-Function Variants in Human Protein-Coding Genes
MacArthur, D. G., Balasubramanian, S., Frankish, A., Huang, N., Morris, J., Walter, K., Jostins, L., Habegger, L., Pickrell, J. K., Montgomery, S. B., et al. (2012) · Science · doi:10.1126/science.1215040 · Cited by 1,272 · see citing works
Self-citationGenome sequencing identifies major causes of severe intellectual disability
Gilissen, C., Hehir-Kwa, J. Y., Thung, D. T., van de Vorst, M., van Bon, B. W. M., Willemsen, M. H., Kwint, M., Janssen, I. M., Hoischen, A., Schenck, A., et al. (2014) · Nature · doi:10.1038/nature13394 · Cited by 1,125 · see citing works
Deep sequencing reveals 50 novel genes for recessive cognitive disorders
Najmabadi, H., Hu, H., Garshasbi, M., Zemojtel, T., Abedini, S. S., Chen, W., Hosseini, M., Behjati, F., Haas, S., Jamali, P., et al. (2011) · Nature · doi:10.1038/nature10423 · Cited by 965 · see citing works
A decade’s perspective on DNA sequencing technology
Mardis, E. R. (2011) · Nature · doi:10.1038/nature09796 · Cited by 913 · see citing works
Sequencing technologies and genome sequencing
Pareek, C. S., Smoczynski, R., & Tretyn, A. (2011) · Journal of Applied Genetics · doi:10.1007/s13353-011-0057-x · Cited by 868 · see citing works
“For the recent progress and development in domestic animals genome sequencing and assembling, a series of publications and studies were published(Table 3), for bovine ( Liu 2009; Elsik et al. 2009; Zimin et al. 2009), porcine (Wiedmann et al. 2008; Amaral et al. 2009; Ramos et al. 2009; Isom et al. 2010; Leifer et al.…”
BackgroundMethodA de novo paradigm for mental retardation.
Vissers, L. E. L. M., de Ligt, J., Gilissen, C., Janssen, I., Steehouwer, M., de Vries, P., van Lier, B., Arts, P., Wieskamp, N., del Rosario, M., et al. (2010) · Nature Genetics · doi:10.1038/ng.712 · Cited by 852 · see citing works
The genetics of Alzheimer disease
Tanzi, R. E. (2012) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a006296 · Cited by 727 · see citing works
Worthey, E., Mayer, A. N., Syverson, G., Helbling, D., Bonacci, B. B., Decker, B., Serpe, J. M., Dasu, T., Tschannen, M., Veith, R., et al. (2011) · Genetics in Medicine · doi:10.1097/gim.0b013e3182088158 · Cited by 704 · see citing works
Rapid Whole-Genome Sequencing for Genetic Disease Diagnosis in Neonatal Intensive Care Units
Saunders, C., Miller, N. A., Soden, S., Dinwiddie, D., Noll, A., Alnadi, N. A., Andraws, N., Patterson, M., Krivohlavek, L., Fellis, J., et al. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3004041 · Cited by 645 · see citing works
The Genetic Basis of Mendelian Phenotypes: Discoveries, Challenges, and Opportunities
Chong, J. X., Buckingham, K. J., Jhangiani, S. N., Boehm, C., Sobreira, N., Smith, J. D., Harrell, T. M., McMillin, M. J., Wiszniewski, W., Gambin, T., et al. (2015) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2015.06.009 · Cited by 643 · see citing works
Self-citationWendland, J., & McMahon, F. (2011) · Current topics in behavioral neurosciences · doi:10.1007/7854_2010_74 · Cited by 624 · see citing works
“Initial studies identified over three million such variants per individual (Lupski et al. 2010; Roach et al. 2010), at least 10,000 of which are predicted to be functional based on our current understanding of gene regulation.”
BackgroundNon-coding genetic variants in human disease: Figure 1.
Zhang, F., & Lupski, J. R. (2015) · Human Molecular Genetics · doi:10.1093/hmg/ddv259 · Cited by 588 · see citing works
“Therefore,whole genome sequencing (WGS) could be informative and promising for the future clinical practice (84,85) not only because of its ability to characterize non-coding functional variants but also because it enables robust identification of SV, including CNV and copy number neutral SV such as inversions and tra…”
BackgroundSelf-citationProgress and promise of genome-wide association studies for human complex trait genetics
Stranger, B. E., Stahl, E. A., & Raj, T. (2011) · Genetics · doi:10.1534/genetics.110.120907 · Cited by 567 · see citing works
“…advance, whole-exome and whole-genome sequencing will become feasible for large numbers of individuals; initial studies (Choi et al. 2009; Lupski et al. 2010; Ng et al. 2010) are promising, though they present a practical challenge of accurate identification of the lowest frequency…”
BackgroundModernizing Reference Genome Assemblies
Church, D., Schneider, V. A., Graves, T., Auger, K., Cunningham, F., Bouk, N., Chen, H.-C., Agarwala, R., McLaren, W., Ritchie, G., et al. (2011) · PLoS Biology · doi:10.1371/journal.pbio.1001091 · Cited by 563 · see citing works
Comprehensive Evaluation of the Child With Intellectual Disability or Global Developmental Delays
Moeschler, J., & Shevell, M. (2014) · Pediatrics · doi:10.1542/peds.2014-1839 · Cited by 547 · see citing works
Implementing genomic medicine in the clinic: the future is here
Manolio, T. A., Chisholm, R. L., Ozenberger, B., Roden, D. M., Williams, M. S., Wilson, R., Bick, D. P., Böttinger, E. P., Brilliant, M. H., Eng, C., et al. (2013) · Genetics in Medicine · doi:10.1038/gim.2012.157 · Cited by 580 · see citing works
Self-citationAdvancements in Next-Generation Sequencing
Levy, S., & Myers, R. (2016) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-083115-022413 · Cited by 598 · see citing works
Disease gene identification strategies for exome sequencing
Gilissen, C., Hoischen, A., Brunner, H. G., & Veltman, J. A. (2012) · European Journal of Human Genetics · doi:10.1038/ejhg.2011.258 · Cited by 460 · see citing works
Transcriptome analysis using next-generation sequencing.
Mutz, K., Heilkenbrinker, A., Lönne, M., Walter, J., & Stahl, F. (2013) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2012.09.004 · Cited by 481 · see citing works
Human Genome Sequencing in Health and Disease
Gonzaga-Jauregui, C. G., Lupski, J. R., & Gibbs, R. A. (2011) · Annual Review of Medicine · doi:10.1146/annurev-med-051010-162644 · Cited by 472 · see citing works
Self-citationClinical Interpretation and Implications of Whole-Genome Sequencing
Dewey, F., Grove, M. E., Pan, C., Goldstein, B., Bernstein, J., Chaib, H., Merker, J., Goldfeder, R., Enns, G., David, S., et al. (2014) · Journal of the American Medical Association (JAMA) · doi:10.1001/jama.2014.1717 · Cited by 456 · see citing works
“Genetic variants of uncertain significance 9 (4-12)”
Molecular genetic testing and the future of clinical genomics
Huston, S., & Katsanis, N. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3493 · Cited by 422 · see citing works
Computational tools for prioritizing candidate genes: boosting disease gene discovery
Moreau, Y., & Tranchevent, L.-C. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3253 · Cited by 417 · see citing works
“Sequencing projects for cancer and other diseases deliver huge lists of genomic variants 116,117 (such as single-nucleotide variants, insertions and deletions, and rearrangements), but it is extremely challenging to assess which variants are causative for or associated with the phenotype.”
BackgroundWhat can exome sequencing do for you?
Majewski, J., Schwartzentruber, J., Lalonde, E., Montpetit, A., & Jabado, N. (2011) · Journal of Medical Genetics · doi:10.1136/jmedgenet-2011-100223 · Cited by 384 · see citing works
“Such heterogeneity would make identification of the causative mutation very difficult, if not impossible, by traditional linkage-based approaches. In two recent publications WGS was used to identify the causative gene, but it should be noted that in both instances the investigators identified the genetic alterations i…”
MethodClan Genomics and the Complex Architecture of Human Disease
Lupski, J. R., Belmont, J. W., Boerwinkle, E., & Gibbs, R. A. (2011) · Cell · doi:10.1016/j.cell.2011.09.008 · Cited by 366 · see citing works
“In the latter case, haploinsufficiency due to either heterozygous SNV (Lupski et al., 2010) or heterozygous CNV (Del Colle et al.”
BackgroundInfluentialSelf-citationGuerreiro, R. J., Lohmann, E., Brás, J. M., Gibbs, J. R., Rohrer, J. D., Gurunlian, N., Dursun, B., Bilgic, B., Hanagasi, H., Gurvit, H., et al. (2013) · JAMA Neurology · doi:10.1001/jamaneurol.2013.579 · Cited by 374 · see citing works
Personalized Medicine: Progress and Promise
Chan, I. S., & Ginsburg, G. S. (2011) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-082410-101446 · Cited by 399 · see citing works
Association Mapping for Enhancing Maize ( Zea mays L.) Genetic Improvement
Yan, J., Warburton, M. L., & Crouch, J. H. (2011) · Crop Science · doi:10.2135/cropsci2010.04.0233 · Cited by 359 · see citing works
“However, there is currently no empirical validation of this target number of markers, and only resequencing via next generation sequencing may be able to provide this level of genotyping (Lupski et al., 2010) and only in species for which reference genomes are available.”
BackgroundWhole-genome sequencing in health care
van El, C. V., Cornel, M., Borry, P., Hastings, R., Fellmann, F., Hodgson, S., Howard, H., Cambon-Thomsen, A., Knoppers, B., Meijers-Heijboer, H., et al. (2013) · European Journal of Human Genetics · doi:10.1038/ejhg.2013.46 · Cited by 348 · see citing works
Willig, L., Petrikin, J., Smith, L. D., Saunders, C., Thiffault, I., Miller, N. A., Soden, S., Cakici, J. A., Herd, S. M., Twist, G. P., et al. (2015) · The Lancet Respiratory Medicine · doi:10.1016/s2213-2600(15)00139-3 · Cited by 340 · see citing works
“Total Infants with a STATseq diagnosis Infants without a STATseq diagnosis Infants 35 (100%) 20 (100%) 15 (100%) Consanguinity or isolated population 1 (3%) 1 (5%) 0 Sex, male 18 (51%) 9 (45%) 9 (60%) Family history of similar disorder 5 (14%) 4 (20%) 1 (7%) Gestational age (weeks; mean, range) 37 (29-41) 37 (29-40) 3…”
Clinical implications of genetic advances in Charcot–Marie–Tooth disease
Rossor, A., Polke, J., Houlden, H., & Reilly, M. (2013) · Nature Reviews Neurology · doi:10.1038/nrneurol.2013.179 · Cited by 335 · see citing works
Comprehensive genetic testing for hereditary hearing loss using massively parallel sequencing
Shearer, A. E., DeLuca, A. P., Hildebrand, M. S., Taylor, K. R., Gurrola, J. G., Scherer, S., Scheetz, T. E., & Smith, R. J. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1012989107 · Cited by 337 · see citing works
Low-coverage sequencing: Implications for design of complex trait association studiesPreprint
Li, Y., Sidore, C., Kang, H. M., Boehnke, M., & Abecasis, G. R. (2011) · Genome Research · doi:10.1101/gr.117259.110 · Cited by 296 · see citing works
The importance of phase information for human genomics
Tewhey, R., Bansal, V., Torkamani, A., Topol, E. J., & Schork, N. J. (2011) · Nature Reviews Genetics · doi:10.1038/nrg2950 · Cited by 302 · see citing works
“In addition, recent studies have described settings in which the characterization of the specific nucleotides on each homologous copy of a gene or genomic region inherited by an individual is essential for understanding phenotypic expressio”
BackgroundNext-generation genetic testing for retinitis pigmentosa
Neveling, K., Collin, R. W., Gilissen, C., van Huet, R. V., Visser, L., Kwint, M., Gijsen, S., Zonneveld, M. N., Wieskamp, N., de Ligt, J., et al. (2012) · Human Mutation · doi:10.1002/humu.22045 · Cited by 321 · see citing works
“An alternative for parallel, targeted resequencing of known disease genes is whole-exome or whole-genome sequencing [Choi et al., 2009; Lupski et al., 2010; Worthey et al., 2011], permitting a standardized laboratory workflow that can be used for any type of genetic disorder.”
BackgroundStavropoulos, D. J., Merico, D., Jobling, R. K., Bowdin, S. C., Monfared, N., Thiruvahindrapuram, B., Nalpathamkalam, T., Pellecchia, G., Yuen, R. K. C., Szego, M. J., et al. (2016) · npj Genomic Medicine · doi:10.1038/npjgenmed.2015.12 · Cited by 366 · see citing works
Update 2011: Clinical and Genetic Issues in Familial Dilated Cardiomyopathy
Hershberger, R., & Siegfried, J. D. (2011) · Journal of the American College of Cardiology · doi:10.1016/j.jacc.2011.01.015 · Cited by 315 · see citing works
“Al- Abbreviations and Acronyms ARVD/C arrhythmogenic right ventricular dysplasia DCM dilated cardiomyopathy FDC familial dilated cardiomyopathy FH family history HCM hypertrophic cardiomyopathy IDC idiopathic dilated cardiomyopathy LQTS long QT syndrome NGS next-generation sequencing WGS whole-genome sequencing though…”
MethodInfluentialBrownstein, C. A., Beggs, A. H., Homer, N., Merriman, B., Yu, T. W., Flannery, K. C., DeChene, E. T., Towne, M. C., Savage, S. K., Price, E., et al. (2014) · Genome biology · doi:10.1186/gb-2014-15-3-r53 · Cited by 434 · see citing works
Self-citationThe role of replicates for error mitigation in next-generation sequencing
Robasky, K., Lewis, N. E., & Church, G. M. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3655 · Cited by 299 · see citing works
Unlocking Mendelian disease using exome sequencing
Gilissen, C., Hoischen, A., Brunner, H. G., & Veltman, J. A. (2011) · Genome biology · doi:10.1186/gb-2011-12-9-228 · Cited by 265 · see citing works
Whole-Genome Sequencing for Optimized Patient Management
Bainbridge, M., Wiszniewski, W., Murdock, D. R., Friedman, J., Gonzaga-Jauregui, C., Newsham, I., Reid, J., Fink, J., Morgan, M. B., Gingras, M., et al. (2011) · Science Translational Medicine · doi:10.1126/scitranslmed.3002243 · Cited by 305 · see citing works
“Although identification of mutations that cause recessive disorders has previously been demonstrated (12, 23) and in some cases has led to the alteration of treatment (24, 25), the application of whole-genome sequencing to a direct alteration in clinical management has not yet been fully realized.”
Self-citationKlassen, T. L., Davis, C., Goldman, A., Burgess, D., Chen, T., Wheeler, D., Mcpherson, J., Bourquin, T., Lewis, L. R., Villasana, D., et al. (2011) · Cell · doi:10.1016/j.cell.2011.05.025 · Cited by 299 · see citing works
“Emerging reports of allelic variability within known disease genes in healthy individuals raise concern that ‘genetic noise’ may confound personal disease prediction, which will fail in the absence of a ‘healthy’ reference genome (Lupski et al., 2010; Ng et al., 2010).”
Self-citationRevisiting Mendelian disorders through exome sequencing
Ku, C., Naidoo, N., & Yudi Pawitan, Y. (2011) · Human Genetics · doi:10.1007/s00439-011-0964-2 · Cited by 219 · see citing works
Exome Sequencing Can Improve Diagnosis and Alter Patient Management
Dixon-Salazar, T. J., Silhavy, J., Udpa, N., Schroth, J., Bielas, S. L., Schaffer, A., Olvera, J., Bafna, V., Zaki, M., Abdel-Salam, G., et al. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3003544 · Cited by 286 · see citing works
“Whereas whole-genome sequencing is another technology that is sure to change the face of medicine in the future, whole-exome sequencing has captured the attention of the clinical genetics community because most genetic variants of large effect reside in the exome, because intronic mutations are difficult to interpret…”
BackgroundGenetics of Nonsyndromic Orofacial Clefts
Rahimov, F., Jugessur, A., & Murray, J. (2011) · The Cleft Palate-Craniofacial Journal · doi:10.1597/10-178 · Cited by 280 · see citing works
“…practical to do whole-exome (the protein-coding part of the genome) or even whole-genome sequencing for Mendelian disorders (Ng et al., 2009, 2010b; Lupski et al., 2010), providing impetus to apply this strategy to complex traits such as NS CL/P, particularly in large and/or inbred families in…”
BackgroundINF2 mutations in Charcot-Marie-Tooth disease with glomerulopathy.
Boyer, O., Névo, F., Plaisier, E., Funalot, B., Gribouval, O., Benoît, G., Huynh-Cong, E., Arrondel, C., Tête, M., Montjean, R., et al. (2011) · New England Journal of Medicine · doi:10.1056/nejmoa1109122 · Cited by 277 · see citing works
“At least 40 different genes or loci have been associated with this disease (as has been reviewed by Lupski and colleagues).(3) Autosomal dominant Charcot–Marie–Tooth type 1 is the most prevalent form, with mutations in the peripheral myelin protein 22 gene (PMP22) and the myelin protein zero gene (MPZ) underlying most…”
Heritability and familiality of type 2 diabetes and related quantitative traits in the Botnia Study
Almgren, P., Lehtovirta, M., Isomaa, B., Sarelin, L., Taskinen, M., Lyssenko, V., Tuomi, T., & Groop, L. (2011) · Diabetologia · doi:10.1007/s00125-011-2267-5 · Cited by 275 · see citing works
“Exome and whole-genome sequencing of families with extreme type 2 diabetes-related traits [37, 38] provide appealing approaches to find the missing heritability of type 2 diabetes.”
BackgroundAutosomal Recessive Causes Likely in Early-Onset Alzheimer Disease
Wingo, T. S. (2012) · Archives of Neurology · doi:10.1001/archneurol.2011.221 · Cited by 265 · see citing works
Molecular diagnostic experience of whole-exome sequencing in adult patients
Posey, J. E., Rosenfeld, J. A., James, R. A., Bainbridge, M. N., Niu, Z., Wang, X., Dhar, S. U., Wiszniewski, W. K., Coban‐Akdemir, Z., Gambin, T., et al. (2015) · Genetics in Medicine · doi:10.1038/gim.2015.142 · Cited by 240 · see citing works
Self-citationGenetic Susceptibility to Autoimmune Thyroid Disease: Past, Present, and Future
Tomer, Y. (2010) · Thyroid · doi:10.1089/thy.2010.1644 · Cited by 251 · see citing works
“Whole-genome sequencing has already been utilized successfully in two patients, one with Carcot-Marie-Tooth disease (14) and the other with acute myeloid leukemia (15).”
Primary immunodeficiency diseases: Genomic approaches delineate heterogeneous Mendelian disorders
Stray‐Pedersen, A., Sorte, H. S., Samarakoon, P. S., Gambin, T., Chinn, I. K., Coban‐Akdemir, Z., Erichsen, H. C., Forbes, L. R., Gu, S., Yuan, B., et al. (2016) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2016.05.042 · Cited by 281 · see citing works
“Widespread use of WES in diagnostics and research reveals that even variants listed as deleterious in HGMD can be misclassified.(74) A case in point is the intronic BTK variant c.”
BackgroundSelf-citationGonzaga-Jauregui, C., Harel, T., Gambin, T., Kousi, M., Griffin, L., Francescatto, L., Ozes, B., Karaca, E., Jhangiani, S., Bainbridge, M., et al. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.07.023 · Cited by 249 · see citing works
“However, association of the deletion carrier status with susceptibility to developing carpal tunnel syndrome (CTS) has been documented (Cruz-Martinez and Arpa, 1998; Potocki et al., 1999; Del Colle et al., 2003).”
BackgroundInfluentialSelf-citationMonogenic causes of chronic kidney disease in adults
Connaughton, D., Kennedy, C., Shril, S., Mann, N., Murray, S., Williams, P. A., Conlon, E., Nakayama, M., van der Ven, A. T., Ityel, H., et al. (2019) · Kidney International · doi:10.1016/j.kint.2018.10.031 · Cited by 244 · see citing works
“Comparison of the clinical characteristics of the 138 affected patients with chronic kidney disease by molecular genetic diagnostic category following whole exome sequencing Molecular genetic diagnostic category post WES Median age in years of onset of ESKD [years] (range) CKD only in adulthood a (%) ESKD in adulthood…”
BackgroundOptimized filtering reduces the error rate in detecting genomic variants by short-read sequencing
Reumers, J., Rijk, P. D., Zhao, H., Liekens, A. M. L., Smeets, D., Cleary, J., Loo, P. V., Bossche, M. J. A. V. D., Catthoor, K., Sabbe, B., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.2053 · Cited by 234 · see citing works
Genetics of Charcot-Marie-Tooth (CMT) Disease within the Frame of the Human Genome Project Success
Timmerman, V., Strickland, A. V., & Züchner, S. (2014) · Genes · doi:10.3390/genes5010013 · Cited by 234 · see citing works
“In the patient sample a compound heterozygous mutation was identified in SH3TC2, a previously known gene for recessive CMT [97,99].”
BackgroundInfluentialReid, J. G., Carroll, A. W., Veeraraghavan, N., Dahdouli, M., Sundquist, A., English, A. C., Bainbridge, M. N., White, S. J., Salerno, W. J., Buhay, C., et al. (2014) · BMC Bioinformatics · doi:10.1186/1471-2105-15-30 · Cited by 215 · see citing works
Self-citationAccurate and comprehensive sequencing of personal genomes.Preprint
Ajay, S., Parker, S., Abaan, H., Fuentes-Fajardo, K., & Margulies, E. (2011) · Genome Research · doi:10.1101/gr.123638.111 · Cited by 233 · see citing works
“Whole-genome sequencing and analysis is becoming part of a translational research toolkit (Lupski et al. 2010; Sobreira et al. 2010) to investigate small-scale changes such as single-nucleotide variants (SNVs) and indels (Bentley et al. 2008; Wang et al. 2008; Kim et al. 2009; McKernan et al. 2009;…”
BackgroundLessons learned from additional research analyses of unsolved clinical exome cases
Eldomery, M. K., Coban-Akdemir, Z., Harel, T., Rosenfeld, J. A., Gambin, T., Stray-Pedersen, A., Küry, S., Mercier, S., Lessel, D., Denecke, J., et al. (2017) · Genome Medicine · doi:10.1186/s13073-017-0412-6 · Cited by 230 · see citing works
Self-citationLelieveld, S. H., Spielmann, M., Mundlos, S., Veltman, J. A., & Gilissen, C. (2015) · Human Mutation · doi:10.1002/humu.22813 · Cited by 217 · see citing works
“The cost of whole-genome sequencing (WGS) is becoming less prohibitive for applying WGS as a clinical test [Hayden, 2014], and pilot studies have already been performed [Lupski et al., 2010; Jiang et al., 2013; Gilissen et al., 2014; Soden et al., 2014].”
MethodBishop, N. B., Stankiewicz, P., & Steinhorn, R. (2011) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201010-1697ci · Cited by 217 · see citing works
Self-citationBainbridge, M. N., Wang, M., Wu, Y., Newsham, I., Muzny, D. M., Jefferies, J. L., Albert, T. J., Burgess, D. L., & Gibbs, R. A. (2011) · Genome biology · doi:10.1186/gb-2011-12-7-r68 · Cited by 201 · see citing works
Self-citationPuente, X. S., Quesada, V., Osorio, F. G., Cabanillas, R., Cadiñanos, J., Fraile, J. M., Ordóñez, G. R., Puente, D. A., Gutiérrez‐Fernández, A., Fanjul‐Fernández, M., et al. (2011) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.04.010 · Cited by 209 · see citing works
A probabilistic disease-gene finder for personal genomes.Preprint
Yandell, M., Huff, C., Hu, H., Singleton, M., Moore, B., Xing, J.-C., Jorde, L., & Reese, M. G. (2011) · Genome Research · doi:10.1101/gr.123158.111 · Cited by 210 · see citing works
Loss-of-function variants in the genomes of healthy humans
MacArthur, D. G., & Tyler‐Smith, C. (2010) · Human Molecular Genetics · doi:10.1093/hmg/ddq365 · Cited by 195 · see citing works
“To illustrate the extent of the discrepancy, one recent exome sequencing study (27) reported an average of 45 nonsense SNPs, 16 splice-disrupting SNPs and 46 frameshift indels per genome in individuals of non-African ancestry, whereas a whole-genome sequence of a European male (28) reported 121 stop SNPs and 112 splic…”
BackgroundExome Sequencing Identifies ZNF644 Mutations in High Myopia
Shi, Y., Li, Y., Zhang, D., Zhang, H., Li, Y., Lü, F., Liu, X., He, F., Gong, B., Li, C., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002084 · Cited by 195 · see citing works
“This limitation promotes the use of the whole sequencing method to identify disease genes [26,37].”
MethodModel Organisms Facilitate Rare Disease Diagnosis and Therapeutic Research
Wangler, M. F., Yamamoto, S., Chao, H., Posey, J. E., Westerfield, M., Postlethwait, J. H., Members of the Undiagnosed Diseases Network (UDN), Hieter, P., Boycott, K. M., Campeau, P. M., et al. (2017) · Genetics · doi:10.1534/genetics.117.203067 · Cited by 208 · see citing works
“…function of thousands of genes in the human genome, and providing insights into the mechanisms of both rare Mendelian disease and more common, complex traits (Albert et al. 2007; Levy et al. 2007; Wheeler et al. 2008; Bainbridge et al. 2010; Lupski et al. 2010; Blair et al. 2013;Wu et al. 2015).”
BackgroundComprehensive gene panels provide advantages over clinical exome sequencing for Mendelian diseases
Firdous, A., Selwa, H., Tarek, O., Sameera, S., Shazia, S., Salma, M., Mohamed, A., Rula, A., Īmān, A., Khalid, A., et al. (2015) · Genome Biology · doi:10.1186/s13059-015-0693-2 · Cited by 196 · see citing works
Massively parallel sequencing and rare disease
Ng, S. B., Nickerson, D. A., Bamshad, M. J., & Shendure, J. (2010) · Human Molecular Genetics · doi:10.1093/hmg/ddq390 · Cited by 177 · see citing works
“For example, in whole-genome sequencing of an individual with Chacot–Marie–Tooth disease (CMT) (22), analysis of coding variants identified a nonsense mutation in SH3TC2 that was already implicated in CMT, and consistent with the recessive mode of inheritance, a novel missense mutation in the same…”
BackgroundValencia, C. A., Husami, A., Holle, J. R., Johnson, J. A., Qian, Y., Mathur, A., Wei, C., Indugula, S. R., Zou, F., Meng, H., et al. (2015) · Frontiers in Pediatrics · doi:10.3389/fped.2015.00067 · Cited by 185 · see citing works
Exome sequencing: Dual role as a discovery and diagnostic tool
Ku, C., Cooper, D. N., Polychronakos, C., Naidoo, N., Wu, M., & Soong, R. (2011) · Annals of Neurology · doi:10.1002/ana.22647 · Cited by 174 · see citing works
“However, this mutation could also have been identified more rapidly and cost-effectively by means of exome sequencing.(20) Although many candidate genes for CMT have been identified to date, approximately 70% of CMT2 cases still have no identifiable genetic cause, suggesting additional heterogeneity.”
BackgroundNext-generation sequencing in Charcot–Marie–Tooth disease: opportunities and challenges
Pipis, M., Rossor, A. M., Laurá, M., & Reilly, M. M. (2019) · Nature Reviews Neurology · doi:10.1038/s41582-019-0254-5 · Cited by 218 · see citing works
Genes, mutations, and human inherited disease at the dawn of the age of personalized genomics
Cooper, D. N., Chen, J., Ball, E. V., Howells, K., Mort, M. E., Phillips, A. D., Chuzhanova, N. A., Krawczak, M., Kehrer‐Sawatzki, H., & Stenson, P. D. (2010) · Human Mutation · doi:10.1002/humu.21260 · Cited by 181 · see citing works
“, 2009b] and whole-genome sequencing [Lupski et al., 2010; Roach et al., 2010], the identification of inherited pathological mutations is entering a new era.”
BackgroundRios, J. J., Stein, E. A., Shendure, J., Hobbs, H. H., & Cohen, J. C. (2010) · Human Molecular Genetics · doi:10.1093/hmg/ddq352 · Cited by 164 · see citing works
“(4), who sequenced the genome of a proband with Charcot–Marie–Tooth disease, an inherited peripheral neuropathy that can be caused by mutations in 39 separate loci (5).”
BackgroundRossetti, S., Hopp, K., Sikkink, R. A., Sundsbak, J. L., Lee, Y. K., Kubly, V. J., Eckloff, B. W., Ward, C. J., Winearls, C. G., Torres, V. E., et al. (2012) · Journal of the American Society of Nephrology · doi:10.1681/asn.2011101032 · Cited by 176 · see citing works
The burden of inherited leukodystrophies in children
Bonkowsky, J., Nelson, C., Kingston, J., Filloux, F., Mundorff, M., & Srivastava, R. (2010) · Neurology · doi:10.1212/wnl.0b013e3181eee46b · Cited by 176 · see citing works
An informatics approach to analyzing the incidentalome
Berg, J., Adams, M. C., Nassar, N., Bizon, C., Lee, K., Schmitt, C., Wilhelmsen, K., & Evans, J. P. (2012) · Genetics in Medicine · doi:10.1038/gim.2012.112 · Cited by 175 · see citing works
“Genet Med 2013:15(1):36–44 Key Words: clinical informatics; incidental findings; secondary findings; whole-exome sequencing; whole-genome sequencing”
BackgroundThe promise and challenges of next-generation genome sequencing for clinical care.
Taber, K. J. J., Dickinson, B. D., & Wilson, M. E. H. (2014) · JAMA Internal Medicine · doi:10.1001/jamainternmed.2013.12048 · Cited by 174 · see citing works
Disease Pathways and Novel Therapeutic Targets in Hypertrophic Cardiomyopathy
Ashrafian, H., McKenna, W. J., & Watkins, H. C. (2011) · Circulation Research · doi:10.1161/circresaha.111.242974 · Cited by 171 · see citing works
The Characterization of Twenty Sequenced Human Genomes
Pelak, K., Shianna, K., Ge, D., Maia, J., Zhu, M., Smith, J. P., Cirulli, E., Fellay, J., Dickson, S., Gumbs, C., et al. (2010) · PLoS Genetics · doi:10.1371/journal.pgen.1001111 · Cited by 168 · see citing works
“Whole genome sequencing has also been used to identify rare, disease-causing variants by sequencing the genome of one or a small number of affected individuals and then performing necessary follow-up work to confirm the variant [7-9], and it has also been used to study the patterns of variation that develop in cancero…”
BackgroundExploring Concordance and Discordance for Return of Incidental Findings from Clinical Sequencing
Green, R., Berg, J., Berry, G., Biesecker, L., Dimmock, D., Evans, J. P., Grody, W., Hegde, M., Kalia, S. S., Korf, B., et al. (2012) · Genetics in Medicine · doi:10.1038/gim.2012.21 · Cited by 160 · see citing works
Self-citationChallenges of sequencing human genomes
Koboldt, D., Ding, L., Mardis, E., & Wilson, R. K. (2010) · Briefings Bioinform. · doi:10.1093/bib/bbq016 · Cited by 158 · see citing works
“Indeed, the recent sequencing and analysis of a proband with Charcot–Marie tooth syndrome [22] demonstrates that these technologies have the potential for diagnostics in a clinical setting.”
BackgroundOpportunities and Challenges Associated with Clinical Diagnostic Genome Sequencing
Schrijver, I., Aziz, N., Farkas, D. H., Furtado, M. R., Gonzalez, A. F., Greiner, T. C., Grody, W. W., Hambuch, T. M., Kalman, L. V., Kant, J. A., et al. (2012) · Journal of Molecular Diagnostics · doi:10.1016/j.jmoldx.2012.04.006 · Cited by 148 · see citing works
Structural variation mutagenesis of the human genome: Impact on disease and evolution
Lupski, J. R. (2015) · Environmental and Molecular Mutagenesis · doi:10.1002/em.21943 · Cited by 147 · see citing works
“Indeed, compound heterozygous variant alleles at the SH3TC2 locus were identified [Lupski et al., 2010]—the power of personal genome sequencing was revealed to me and indeed became personal.”
BackgroundSelf-citationAssessing structural variation in a personal genome—towards a human reference diploid genome
English, A. C., Salerno, W. J., Hampton, O. A., Gonzaga-Jauregui, C. G., Ambreth, S., Ritter, D., Beck, C. R., Davis, C., Dahdouli, M., Ma, S., et al. (2015) · BMC Genomics · doi:10.1186/s12864-015-1479-3 · Cited by 150 · see citing works
“This individual has been previously analyzed with aCGH data and by whole-genome and whole-exome sequencing, revealing novel SH3TC2 SNVs causative for the subject ’ s autosomal recessive Charcot-Marie-Tooth (CMT) neuropathy [25,26].”
MethodSelf-citationThe next-generation sequencing technology and application
Zhou, X., Ren, L., Meng, Q., Li, Y., Yu, Y., & Yu, J. M. (2010) · Protein & Cell · doi:10.1007/s13238-010-0065-3 · Cited by 151 · see citing works
“More recently, James Lupski’s genome was sequenced to 30× base coverage using ABI’s SOLiD System (Lupski et al., 2010).”
MethodMultiple sclerosis genetics—is the glass half full, or half empty?
Oksenberg, J., & Baranzini, S. (2010) · Nature Reviews Neurology · doi:10.1038/nrneurol.2010.91 · Cited by 152 · see citing works
Flexible and scalable diagnostic filtering of genomic variants using G2P with Ensembl VEP
Thormann, A., Halachev, M., McLaren, W., Moore, D. J., Svinti, V., Campbell, A., Kerr, S. M., Tischkowitz, M., Hunt, S. E., Dunlop, M. G., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-10016-3 · Cited by 151 · see citing works
Whole exome and whole genome sequencing
Bick, D. P., & Dimmock, D. (2011) · Current Opinion in Pediatrics · doi:10.1097/mop.0b013e32834b20ec · Cited by 150 · see citing works
Bioinformatics for Clinical Next Generation Sequencing
Oliver, G. R., Hart, S. N., & Klee, E. W. (2014) · Clinical Chemistry · doi:10.1373/clinchem.2014.224360 · Cited by 176 · see citing works
Exome sequencing: a transformative technology
Singleton, A. (2011) · The Lancet Neurology · doi:10.1016/s1474-4422(11)70196-x · Cited by 137 · see citing works
Whole-genome resequencing allows detection of many rare LINE-1 insertion alleles in humans.Preprint
Ewing, A., & Kazazian, H. (2011) · Genome Research · doi:10.1101/gr.114777.110 · Cited by 149 · see citing works
“A number of human genomes have been se- quenced using these next-generation technologies, yielding insights into human variation and the genetic basis of human dis- ease (Lupski et al. 2010).”
BackgroundThe MedSeq Project: a randomized trial of integrating whole genome sequencing into clinical medicine
Vassy, J., Lautenbach, D. M., McLaughlin, H., Kong, S., Christensen, K. D., Krier, J., Kohane, I., Feuerman, L. Z., Blumenthal-Barby, J., Roberts, J., et al. (2014) · Trials · doi:10.1186/1745-6215-15-85 · Cited by 148 · see citing works
“It is already demonstrating clinical utility for the diagnosis and treatment of certain cancers [5,19] and rare diseases [2,3,20-22] and shows promise for use in infectious disease outbreaks [23-25] and fetal diagnosis in prenatal medicine [7,26].”
BackgroundSelf-citationLupski, J., Gonzaga-Jauregui, C., Yang, Y.-P., Bainbridge, M., Jhangiani, S., Buhay, C., Kovar, C., Wang, M., Hawes, A., Reid, J., et al. (2013) · Genome Medicine · doi:10.1186/gm461 · Cited by 148 · see citing works
“M1? variant is novel, since our original report [2] the p.”
BackgroundMethodSelf-citationTabor, H., Berkman, B. E., Hull, S., & Bamshad, M. (2011) · American Journal of Medical Genetics. Part A · doi:10.1002/ajmg.a.34357 · Cited by 148 · see citing works
“, 2010], Charcot-Marie-Tooth (CMT4C [OMIM 601596]) [Lupski et al., 2010], and Kabuki (KMS [OMIM 147920]) [Ng et al.”
Ju, Y. S., Kim, J., Kim, S., Hong, D., Park, H., Shin, J.-Y., Lee, S., Lee, W., Kim, S.-J., Yu, S.-B., et al. (2011) · Nature Genetics · doi:10.1038/ng.872 · Cited by 138 · see citing works
- Authors
- Lupski, J. R., Reid, J. G., Gonzaga-Jauregui, C., Rio Deiros, D., Chen, D. C. Y., Nazareth, L., Bainbridge, M., Dinh, H., Jing, C., Wheeler, D. A., McGuire, A. L., Zhang, F., Stankiewicz, P., Halperin, J. J., Yang, C., Gehman, C., Guo, D., Irikat, R. K., Tom, W., Fantin, N. J., Muzny, D. M., & Gibbs, R. A.
- Affiliations
- Baylor College of Medicine (US)
- Icahn School of Medicine at Mount Sinai (US)
- ORCID
- Venue
- New England Journal of Medicine
- Publisher
- Massachusetts Medical Society
- Published
- 2010-04
- Volume
- 362
- Issue
- 13
- Pages
- 1181-1191
- ISSN
- 0028-4793 (ISSN-L)
- 1533-4406
- PMC
- PMC4036802
- OpenAlex
- W2118246164
- Cited by
- 759
- References
- 40
- Citations by year
- 2026: 4 · 2025: 11 · 2024: 14 · 2023: 10 · 2022: 12 · 2021: 27 · 2020: 20 · 2019: 25 · 2018: 19 · 2017: 23 · 2016: 41 · 2015: 52 · 2014: 76 · 2013: 82 · 2012: 132
- FWCI
- 54.74
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- New England Journal of Medicine (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Human Genome Research Institute (U54HG003273)
- National Institute of Neurological Disorders and Stroke (R01NS058529)
- Topics
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Hereditary Neurological Disorders
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomics and Rare Diseases
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Clinical Biochemistry › Metabolism and Genetic Disorders
- Keywords
- Charcot-Marie-Tooth disease, whole genome sequencing, genetic diagnosis, recessive inheritance, SH3TC2, compound heterozygosity, carpal tunnel syndrome, rare variants
- MeSH terms
- Adult, Aged, Aged, 80 and over, Charcot-Marie-Tooth Disease, Female, Genes, Recessive, Genotype, Humans, Male, Middle Aged, Pedigree, Phenotype, Genome, Human, Sequence Analysis, DNA, Codon, Nonsense, Mutation, Missense, Polymorphism, Single Nucleotide, Genetic Association Studies
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review