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Method: Optical mapping reveals a higher level of genomic architecture of chained fusions in cancer
- Eva K.F. Chan,
- Daniel L. Cameron,
- Desiree C. Petersen,
- Ruth J. Lyons,
- Benedetta F. Baldi,
- Anthony T. Papenfuss,
- David M. Thomas,
- and Vanessa M. Hayes
Genome Res. May 2018 28: 726-738; Published in Advance April 4, 2018, doi:10.1101/gr.227975.117
...genetic variation. Nature 526: 6874. Andersson A, Moorman AV, Harrison CJ, Mullighan C. 2016. Acute lymphoblastic leukaemia. In The genetic basis of haematological cancers (ed. Tosi S, Reid AG), pp. 223264. John Wiley, Chichester, UK. Baca SC, Prandi D, Lawrence MS, Mosquera JM, Romanel A, Drier Y ...
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Method: Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities
- John Beaulaurier,
- Elaine Luo,
- John M. Eppley,
- Paul Den Uyl,
- Xiaoguang Dai,
- Andrew Burger,
- Daniel J. Turner,
- Matthew Pendelton,
- Sissel Juul,
- Eoghan Harrington,
- and Edward F. DeLong
Genome Res. March 2020 30: 437-446; Published in Advance February 19, 2020, doi:10.1101/gr.251686.119
..., Boeuf D, Mende DR, Wood-Charlson EM, Vislova A, Eppley JM, Romano AE, DeLong EF. 2017. Diel cycling and long-term persistence of viruses in the ocean's euphotic zone. Proc Natl Acad Sci 114: 1144611451. doi:10.1073/pnas.1714821114 Bolduc B, Youens-Clark K, Roux S, Hurwitz BL, Sullivan MB. 2017. i ...
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Perspective: Unraveling the hidden complexity of cancer through long-read sequencing
- Qiuhui Li,
- Ayse G. Keskus,
- Justin Wagner,
- Michal B. Izydorczyk,
- Winston Timp,
- Fritz J. Sedlazeck,
- Alison P. Klein,
- Justin M. Zook,
- Mikhail Kolmogorov,
- and Michael C. Schatz
Genome Res. April 2025 35: 599-620; Published in Advance March 20, 2025, doi:10.1101/gr.280041.124
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INSIGHT/OUTLOOK: What is Finished, and Why Does it Matter
- Elaine Mardis,
- John McPherson,
- Robert Martienssen,
- Richard K. Wilson,
- and W. Richard McCombie
Genome Res. May 1, 2002 12: 669-671; doi:10.1101/gr.032102
.... The C. elegans Sequencing Consortium ( 1998 ) Science 282 : 2012 2018 . Fleischmann R.D. , Adams M.D. , White O. , Clayton R.A. , Kirkness E.F. , Kerlauage A.R. , Bult C.J. , Tomb J.F. , Dougherty B.A. , Merrick J.M. , et al. ( 1995 ) Science 269 : 496 512 . Gale M.D. , Devos K.M. ( 1998 ...
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Perspective: Genomic approaches for understanding the genetics of complex disease
- William L. Lowe, Jr. and
- Timothy E. Reddy
Genome Res. October 2015 25: 1432-1441; doi:10.1101/gr.190603.115
...loci and enrichment for expression quantitative trait loci in top signals. Diabetologia 54: 20472055. Belton JM, McCord RP, Gibcus JH, Naumova N, Zhan Y, Dekker J. 2012. HiC: a comprehensive technique to capture the conformation of s. Methods 58: 268276. Boyle AP, Hong EL, Hariharan M, Cheng Y ...
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Perspective: Recognition of the polycistronic nature of human genes is critical to understanding the genotype-phenotype relationship
- Marie A. Brunet,
- Sébastien A. Levesque,
- Darel J. Hunting,
- Alan A. Cohen,
- and Xavier Roucou
Genome Res. May 2018 28: 609-624; Published in Advance April 6, 2018, doi:10.1101/gr.230938.117
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Research: Cohesin and CTCF do not assemble TADs in Xenopus sperm and male pronuclei
- Gregor Jessberger,
- Csilla Várnai,
- Roman R. Stocsits,
- Wen Tang,
- Georg Stary,
- and Jan-Michael Peters
Genome Res. December 2023 33: 2094-2107; Published in Advance December 21, 2023, doi:10.1101/gr.277865.123
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Method: Integration of hyperspectral imaging and transcriptomics from individual cells with SpectralSeq
- Yike Xie,
- Abbas Habibalahi,
- Ayad G. Anwer,
- Kanu Wahi,
- Jacqueline Bailey,
- Francis Lin,
- Catherine Gatt,
- Emma M.V. Johansson,
- Tatyana Chtanova,
- Jeff Holst,
- Ewa Goldys,
- and Fabio Zanini
Genome Res. August 2025 35: 1809-1820; Published in Advance July 8, 2025, doi:10.1101/gr.280014.124
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Resource: High-quality assembly of the Chinese white truffle genome and recalibrated divergence time estimate provide insight into the evolutionary dynamics of Tuberaceae
- Jacopo Martelossi,
- Jacopo Vujovic,
- Yue Huang,
- Alessia Tatti,
- Kaiwei Xu,
- Federico Puliga,
- Yuanxue Chen,
- Omar Rota Stabelli,
- Fabrizio Ghiselli,
- Xiaoping Zhang,
- and Alessandra Zambonelli
Genome Res. November 2025 35: 2601-2616; Published in Advance August 21, 2025, doi:10.1101/gr.280368.124
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Perspective: Functional transcriptomics in the post-ENCODE era
- Jonathan M. Mudge,
- Adam Frankish,
- and Jennifer Harrow
Genome Res. December 2013 23: 1961-1973; Published in Advance October 30, 2013, doi:10.1101/gr.161315.113
...complexity and functionality will not be gained in the short term. However, significant steps toward obtaining this knowledge can now be taken by using an integrated strategy, combining all of the experimental resources at our disposal. Footnotes 1 Corresponding author E-mail jm12@sanger ...
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