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23 items matching your search terms.
Sex-specific splicing of Z- and W-borne nr5a1 alleles suggests sex determination is controlled by chromosome conformation
Zhang, X.; Wagner, S.; Holleley, C. E.; Deakin, J. E.; Matsubara, K.; Deveson, I. W.; O'Meally, D.; Patel, H. R.; Ezaz, T.; Li, Z.; Wang, C.; Edwards, M.; Graves, J. A. M.; Georges, A.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 119 (4) 2022 10.1073/pnas.2116475119
Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology
Deveson, I. W.; Gong, B.; Lai, K.; LoCoco, J. S.; Richmond, T. A.; Schageman, J.; Zhang, Z.; Novoradovskaya, N.; Willey, J. C.; Jones, W.; Kusko, R.; Chen, G.; Madala, B. S.; Blackburn, J.; Stevanovski, I.; Bhandari, A.; Close, D.; Conroy, J.; Hubank, M.; Marella, N.; Mieczkowski, P. A.; Qiu, F.; Sebra, R.; Stetson, D.; Sun, L.; Szankasi, P.; Tan, H.; Tang, L. Y.; Arib, H.; Best, H.; Burgher, B.; Bushel, P. R.; Casey, F.; Cawley, S.; Chang, C. J.; Choi, J.; Dinis, J.; Duncan, D.; Eterovic, A. K.; Feng, L.; Ghosal, A.; Giorda, K.; Glenn, S.; Happe, S.; Haseley, N.; Horvath, K.; Hung, L. Y.; Jarosz, M.; Kushwaha, G.; Li, D.; Li, Q. Z.; Li, Z.; Liu, L. C.; Liu, Z.; Ma, C.; Mason, C. E.; Megherbi, D. B.; Morrison, T.; Pabon-Pena, C.; Pirooznia, M.; Proszek, P. Z.; Raymond, A.; Rindler, P.; Ringler, R.; Scherer, A.; Shaknovich, R.; Shi, T.; Smith, M.; Song, P.; Strahl, M.; Thodima, V. J.; Tom, N.; Verma, S.; Wang, J.; Wu, L.; Xiao, W.; Xu, C.; Yang, M.; Zhang, G.; Zhang, S.; Zhang, Y.; Shi, L.; Tong, W.; Johann, D. J., Jr.; Mercer, T. R.; Xu, J.; Group, Seqc Oncopanel Sequencing Working
NATURE BIOTECHNOLOGY 39 (9) :1115-1128, 2021 10.1038/s41587-021-00857-z
DNA methylation is required to maintain both DNA replication timing precision and 3D genome organization integrity
Du, Q.; Smith, G. C.; Luu, P. L.; Ferguson, J. M.; Armstrong, N. J.; Caldon, C. E.; Campbell, E. M.; Nair, S. S.; Zotenko, E.; Gould, C. M.; Buckley, M.; Chia, K. M.; Portman, N.; Lim, E.; Kaczorowski, D.; Chan, C. L.; Barton, K.; Deveson, I. W.; Smith, M. A.; Powell, J. E.; Skvortsova, K.; Stirzaker, C.; Achinger-Kawecka, J.; Clark, S. J.
Cell Reports 36 (12) :109722, 2021 10.1016/j.celrep.2021.109722
No evidence of human genome integration of SARS-CoV-2 found by long-read DNA sequencing
Smits, N.; Rasmussen, J.; Bodea, G. O.; Amarilla, A. A.; Gerdes, P.; Sanchez-Luque, F. J.; Ajjikuttira, P.; Modhiran, N.; Liang, B.; Faivre, J.; Deveson, I. W.; Khromykh, A. A.; Watterson, D.; Ewing, A. D.; Faulkner, G. J.
Cell Reports 36 (7) :109530, 2021 10.1016/j.celrep.2021.109530
Oncogenic cooperation between TCF7-SPI1 and NRAS(G12D) requires beta-catenin activity to drive T-cell acute lymphoblastic leukemia
Van Thillo, Q.; De Bie, J.; Seneviratne, J. A.; Demeyer, S.; Omari, S.; Balachandran, A.; Zhai, V.; Tam, W. L.; Sweron, B.; Geerdens, E.; Gielen, O.; Provost, S.; Segers, H.; Boeckx, N.; Marshall, G. M.; Cheung, B. B.; Isobe, K.; Kato, I.; Takita, J.; Amos, T. G.; Deveson, I. W.; McCalmont, H.; Lock, R. B.; Oxley, E. P.; Garwood, M. M.; Dickins, R. A.; Uyttebroeck, A.; Carter, D. R.; Cools, J.; de Bock, C. E.
Nature Communications 12 (1) :4164, 2021 10.1038/s41467-021-24442-9
An update on the neurological short tandem repeat expansion disorders and the emergence of long-read sequencing diagnostics
Chintalaphani, S. R.; Pineda, S. S.; Deveson, I. W.; Kumar, K. R.
Acta Neuropathologica Communications 9 (1) :98, 2021 10.1186/s40478-021-01201-x
Chimeric synthetic reference standards enable cross-validation of positive and negative controls in SARS-CoV-2 molecular tests
Madala, B. S.; Reis, A. L. M.; Deveson, I. W.; Rawlinson, W.; Mercer, T. R.
Scientific Reports 11 (1) :2636, 2021 10.1038/s41598-021-81760-0
Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions
Gong, B.; Li, D.; Kusko, R.; Novoradovskaya, N.; Zhang, Y.; Wang, S.; Pabon-Pena, C.; Zhang, Z.; Lai, K.; Cai, W.; LoCoco, J. S.; Lader, E.; Richmond, T. A.; Mittal, V. K.; Liu, L. C.; Johann, D. J., Jr.; Willey, J. C.; Bushel, P. R.; Yu, Y.; Xu, C.; Chen, G.; Burgess, D.; Cawley, S.; Giorda, K.; Haseley, N.; Qiu, F.; Wilkins, K.; Arib, H.; Attwooll, C.; Babson, K.; Bao, L.; Bao, W.; Lucas, A. B.; Best, H.; Bhandari, A.; Bisgin, H.; Blackburn, J.; Blomquist, T. M.; Boardman, L.; Burgher, B.; Butler, D. J.; Chang, C. J.; Chaubey, A.; Chen, T.; Chierici, M.; Chin, C. R.; Close, D.; Conroy, J.; Coleman, J. C.; Craig, D. J.; Crawford, E.; Del Pozo, A.; Deveson, I. W.; Duncan, D.; Eterovic, A. K.; Fan, X.; Foox, J.; Furlanello, C.; Ghosal, A.; Glenn, S.; Guan, M.; Haag, C.; Hang, X.; Happe, S.; Hennigan, B.; Hipp, J.; Hong, H.; Horvath, K.; Hu, J.; Hung, L. Y.; Jarosz, M.; Kerkhof, J.; Kipp, B.; Kreil, D. P.; Labaj, P.; Lapunzina, P.; Li, P.; Li, Q. Z.; Li, W.; Li, Z.; Liang, Y.; Liu, S.; Liu, Z.; Ma, C.; Marella, N.; Martin-Arenas, R.; Megherbi, D. B.; Meng, Q.; Mieczkowski, P. A.; Morrison, T.; Muzny, D.; Ning, B.; Parsons, B. L.; Paweletz, C. P.; Pirooznia, M.; Qu, W.; Raymond, A.; Rindler, P.; Ringler, R.; Sadikovic, B.; Scherer, A.; Schulze, E.; Sebra, R.; Shaknovich, R.; Shi, Q.; Shi, T.; Silla-Castro, J. C.; Smith, M.; Lopez, M. S.; Song, P.; Stetson, D.; Strahl, M.; Stuart, A.; Supplee, J.; Szankasi, P.; Tan, H.; Tang, L. Y.; Tao, Y.; Thakkar, S.; Thierry-Mieg, D.; Thierry-Mieg, J.; Thodima, V. J.; Thomas, D.; Tichy, B.; Tom, N.; Garcia, E. V.; Verma, S.; Walker, K.; Wang, C.; Wang, J.; Wang, Y.; Wen, Z.; Wirta, V.; Wu, L.; Xiao, C.; Xiao, W.; Xu, S.; Yang, M.; Ying, J.; Yip, S. H.; Zhang, G.; Zhang, S.; Zhao, M.; Zheng, Y.; Zhou, X.; Mason, C. E.; Mercer, T.; Tong, W.; Shi, L.; Jones, W.; Xu, J.
GENOME BIOLOGY 22 (1) :109, 2021 10.1186/s13059-021-02315-0
Two transcriptionally distinct pathways drive female development in a reptile with both genetic and temperature dependent sex determination
Whiteley, S. L.; Holleley, C. E.; Wagner, S.; Blackburn, J.; Deveson, I. W.; Marshall Graves, J. A.; Georges, A.
PLOS GENET 17 (4) :e1009465, 2021 10.1371/journal.pgen.1009465
Respiratory viral co-infections among SARS-CoV-2 cases confirmed by virome capture sequencing
Kim, K. W.; Deveson, I. W.; Pang, C. N. I.; Yeang, M.; Naing, Z.; Adikari, T.; Hammond, J. M.; Stevanovski, I.; Beukers, A. G.; Verich, A.; Yin, S.; McFarlane, D.; Wilkins, M. R.; Stelzer-Braid, S.; Bull, R. A.; Craig, M. E.; van Hal, S. J.; Rawlinson, W. D.
Scientific Reports 11 (1) :3934, 2021 10.1038/s41598-021-83642-x
Use of synthetic DNA spike-in controls (sequins) for human genome sequencing
Blackburn, J.; Wong, T.; Madala, B. S.; Barker, C.; Hardwick, S. A.; Reis, A. L. M.; Deveson, I. W.; Mercer, T. R.
Nature Protocols 14 (7) :2119-2151, 2019 10.1038/s41596-019-0175-1
OpenAccess publication Diagnosis of fusion genes using targeted RNA sequencing
Heyer, E. E.; Deveson, I. W.; Wooi, D.; Selinger, C. I.; Lyons, R. J.; Hayes, V. M.; O'Toole, S. A.; Ballinger, M. L.; Gill, D.; Thomas, D. M.; Mercer, T. R.; Blackburn, J.
Nature Communications 10 (1) :1388, 2019 10.1038/s41467-019-09374-9
Chiral DNA sequences as commutable controls for clinical genomics
Deveson, I. W.; Madala, B. S.; Blackburn, J.; Barker, C.; Wong, T.; Barton, K. M.; Smith, M. A.; Watkins, D. N.; Mercer, T. R.
Nature Communications 10 (1) :1342, 2019 10.1038/s41467-019-09272-0
Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis
Hardwick, S. A.; Chen, W. Y.; Wong, T.; Kanakamedala, B. S.; Deveson, I. W.; Ongley, S. E.; Santini, N. S.; Marcellin, E.; Smith, M. A.; Nielsen, L. K.; Lovelock, C. E.; Neilan, B. A.; Mercer, T. R.
Nature Communications 9 (1) :3096, 2018 10.1038/s41467-018-05555-0
OpenAccess publication Universal Alternative Splicing of Noncoding Exons
Deveson, I. W.; Brunck, M. E.; Blackburn, J.; Tseng, E.; Hon, T.; Clark, T. A.; Clark, M. B.; Crawford, J.; Dinger, M. E.; Nielsen, L. K.; Mattick, J. S.; Mercer, T. R.
Cell Systems 6 (2) :p245-255, 2018 10.1016/j.cels.2017.12.005
Reference standards for next-generation sequencing
Hardwick, S. A.; Deveson, I. W.; Mercer, T. R.
NATURE REVIEWS GENETICS 18 (8) :473-484, 2017 10.1038/nrg.2017.44