What Has the Undiagnosed Diseases Network Taught Us About the Clinical Applications of Genomic Testing?

被引:13
作者
Murdock, David R. [1 ]
Rosenfeld, Jill A. [1 ]
Lee, Brendan [1 ,2 ]
机构
[1] Baylor Coll Med, Dept Mol & Human Genet, Houston, TX 77030 USA
[2] Texas Childrens Hosp, Houston, TX 77030 USA
来源
ANNUAL REVIEW OF MEDICINE | 2022年 / 73卷
基金
美国国家卫生研究院;
关键词
MEDICAL GENETICS; AMERICAN-COLLEGE; EXOME; REANALYSIS; GENES; VARIANTS; RESOURCE; UTILITY; ISSUES; CARE;
D O I
10.1146/annurev-med-042120-014904
中图分类号
R-3 [医学研究方法]; R3 [基础医学];
学科分类号
1001 ;
摘要
Genetic testing has undergone a revolution in the last decade, particularly with the advent of next-generation sequencing and its associated reductions in costs and increases in efficiencies. The Undiagnosed Diseases Network (UDN) has been a leader in the application of such genomic testing for rare disease diagnosis. This review discusses the current state of genomic testing performed within the UDN, with a focus on the strengths and limitations of whole-exome and whole-genome sequencing in clinical diagnostics and the importance of ongoing data reanalysis. The role of emerging technologies such as RNA and long-read sequencing to further improve diagnostic rates in the UDN is also described. This review concludes with a discussion of the challenges faced in insurance coverage of comprehensive genomic testing as well as the opportunities for a larger role of testing in clinical medicine.
引用
收藏
页码:575 / 585
页数:11
相关论文
共 67 条
[51]   Piercing the dark matter: bioinformatics of long-range sequencing and mapping [J].
Sedlazeck, Fritz J. ;
Lee, Hayan ;
Darby, Charlotte A. ;
Schatz, Michael C. .
NATURE REVIEWS GENETICS, 2018, 19 (06) :329-346
[52]   A comprehensive iterative approach is highly effective in diagnosing individuals who are exome negative [J].
Shashi, Vandana ;
Schoch, Kelly ;
Spillmann, Rebecca ;
Cope, Heidi ;
Tan, Queenie K. -G. ;
Walley, Nicole ;
Pena, Loren ;
McConkie-Rosell, Allyn ;
Jiang, Yong-Hui ;
Stong, Nicholas ;
Need, Anna C. ;
Goldstein, David B. ;
Adams, David R. ;
Alejandro, Mercedes E. ;
Allard, Patrick ;
Ashley, Euan A. ;
Azamian, Mahshid S. ;
Bacino, Carlos A. ;
Balasu-bramanyam, Ashok ;
Barseghyan, Hayk ;
Batzli, Gabriel F. ;
Beggs, Alan H. ;
Behnam, Babak ;
Bellen, Hugo J. ;
Bernstein, Jonathan A. ;
Bican, Anna ;
Bick, David P. ;
Birch, Camille L. ;
Bonner, Devon ;
Boone, Braden E. ;
Bostwick, Bret L. ;
Briere, Lauren C. ;
Brown, Donna M. ;
Brush, Matthew ;
Burke, Elizabeth A. ;
Burrage, Lindsay C. ;
Butte, Manish J. ;
Chen, Shan ;
Clark, Gary D. ;
Coakley, Terra R. ;
Cogan, Joy D. ;
Cooper, Cynthia M. ;
Cope, Heidi ;
Craigen, William J. ;
D'Souza, Precilla ;
Davids, Mariska ;
Davidson, Jean M. ;
Dayal, Jyoti G. ;
Dell'Angelica, Esteban C. ;
Dhar, Shweta U. .
GENETICS IN MEDICINE, 2019, 21 (01) :161-172
[53]  
Slatko Barton E, 2018, Curr Protoc Mol Biol, V122, pe59, DOI 10.1002/cpmb.59
[54]   Exome sequencing compared with standard genetic tests for critically ill infants with suspected genetic conditions [J].
Smith, Hadley Stevens ;
Swint, John M. ;
Lalani, Seema R. ;
de Oliveira Otto, Marcia C. ;
Yamal, Jose-Miguel ;
Russell, Heidi V. ;
Lee, Brendan H. .
GENETICS IN MEDICINE, 2020, 22 (08) :1303-1310
[55]   Clinical Application of Genome and Exome Sequencing as a Diagnostic Tool for Pediatric Patients: a Scoping Review of the Literature [J].
Smith, Hadley Stevens ;
Swint, J. Michael ;
Lalani, Seema R. ;
Yamal, Jose-Miguel ;
Otto, Marcia C. de Oliveira ;
Castellanos, Stephan ;
Taylor, Amy ;
Lee, Brendan H. ;
Russell, Heidi V. .
GENETICS IN MEDICINE, 2019, 21 (01) :3-16
[56]   Long-read sequencing identifies GGC repeat expansions in NOTCH2NLC associated with neuronal intranuclear inclusion disease [J].
Sone, Jun ;
Mitsuhashi, Satomi ;
Fujita, Atsushi ;
Mizuguchi, Takeshi ;
Hamanaka, Kohei ;
Mori, Keiko ;
Koike, Haruki ;
Hashiguchi, Akihiro ;
Takashima, Hiroshi ;
Sugiyama, Hiroshi ;
Kohno, Yutaka ;
Takiyama, Yoshihisa ;
Maeda, Kengo ;
Doi, Hiroshi ;
Koyano, Shigeru ;
Takeuchi, Hideyuki ;
Kawamoto, Michi ;
Kohara, Nobuo ;
Ando, Tetsuo ;
Ieda, Toshiaki ;
Kita, Yasushi ;
Kokubun, Norito ;
Tsuboi, Yoshio ;
Katoh, Kazutaka ;
Kino, Yoshihiro ;
Katsuno, Masahisa ;
Iwasaki, Yasushi ;
Yoshida, Mari ;
Tanaka, Fumiaki ;
Suzuki, Ikuo K. ;
Frith, Martin C. ;
Matsumoto, Naomichi ;
Sobue, Gen .
NATURE GENETICS, 2019, 51 (08) :1215-+
[57]   Effect of Genetic Diagnosis on Patients with Previously Undiagnosed Disease [J].
Splinter, K. ;
Adams, D. R. ;
Bacino, C. A. ;
Bellen, H. J. ;
Bernstein, J. A. ;
Cheatle-Jarvela, A. M. ;
Eng, C. M. ;
Esteves, C. ;
Gahl, W. A. ;
Hamid, R. ;
Jacob, H. J. ;
Kikani, B. ;
Koeller, D. M. ;
Kohane, I. S. ;
Lee, B. H. ;
Loscalzo, J. ;
Luo, X. ;
McCray, A. T. ;
Metz, T. O. ;
Mulvihill, J. J. ;
Nelson, S. F. ;
Palmer, C. G. S. ;
Phillips, J. A., III ;
Pick, L. ;
Postlethwait, J. H. ;
Reuter, C. ;
Shashi, V. ;
Sweetser, D. A. ;
Tifft, C. J. ;
Walley, N. M. ;
Wangler, M. F. ;
Westerfield, M. ;
Wheeler, M. T. ;
Wise, A. L. ;
Worthey, E. A. ;
Yamamoto, S. ;
Ashley, E. A. .
NEW ENGLAND JOURNAL OF MEDICINE, 2018, 379 (22) :2131-2139
[58]   Does genomic sequencing early in the diagnostic trajectory make a difference? A follow-up study of clinical outcomes and cost-effectiveness [J].
Stark, Zornitza ;
Schofield, Deborah ;
Martyn, Melissa ;
Rynehart, Luke ;
Shrestha, Rupendra ;
Alam, Khurshid ;
Lunke, Sebastian ;
Tan, Tiong Y. ;
Gaff, Clara L. ;
White, Susan M. .
GENETICS IN MEDICINE, 2019, 21 (01) :173-180
[59]   Prospective comparison of the cost-effectiveness of clinical whole-exome sequencing with that of usual care overwhelmingly supports early use and reimbursement [J].
Stark, Zornitza ;
Schofield, Deborah ;
Alam, Khurshid ;
Wilson, William ;
Mupfeki, Nessie ;
Macciocca, Ivan ;
Shrestha, Rupendra ;
White, Susan M. ;
Gaff, Clara .
GENETICS IN MEDICINE, 2017, 19 (08) :867-874
[60]   Using the Delphi method to identify clinicians' perceived importance of pediatric exome sequencing results [J].
Stevens Smith, Hadley ;
Russell, Heidi V. ;
Lee, Brendan H. ;
Morain, Stephanie R. .
GENETICS IN MEDICINE, 2020, 22 (01) :69-76