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Research: Tumor-specific retargeting of an oncogenic transcription factor chimera results in dysregulation of chromatin and transcription
- Mukund Patel,
- Jeremy M. Simon,
- Michael D. Iglesia,
- Sam B. Wu,
- Andrew W. McFadden,
- Jason D. Lieb,
- and Ian J. Davis
Genome Res. February 2012 22: 259-270; Published in Advance November 15, 2011, doi:10.1101/gr.125666.111
...and designed the approach. M.P., J.M.S., M.D.I., S.B.W., and A.W.M. designed methods and performed the experiments. M.P., J.M.S., J.D.L., and I.J.D. interpreted the results and wrote the manuscript. All authors have contributed to, seen, and approved of the manuscript.Footnotes 8 Corresponding author ...
ARTICLE: A guide to the design and use of mismatched and degenerate primers.
- S Kwok,
- S Y Chang,
- J J Sninsky,
- and A Wang
Genome Res. February 1994 3: S39-S47
...and sensitivity to AZT induced by a mutation in HIV-1 reverse transcriptase. Science 253 : 1557 1559 . 6.. Nunberg, J.H., , Schleif, W.A. , Boots, E.J. , O'Brien, J.A. , Quintero, J.C. , Hoffman, J.M. , Emini, E.A. , Goldman. M.E. Nunberg, J.H., Schleif, W.A. Boots, E.J. O'Brien, J.A. Quintero, J.C. Hoffman, J.M ...
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Research: Heritable variation of mRNA decay rates in yeast
- Jennifer M. Andrie,
- Jon Wakefield,
- and Joshua M. Akey
Genome Res. December 2014 24: 2000-2010; Published in Advance September 25, 2014, doi:10.1101/gr.175802.114
...://genome.cshlp.org/site/misc/terms.xhtml ). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/ . Joshua Akey JoshuaM Akey Wakefield, Jon Andrie, Jennifer M Jennifer M, Andrie Jon JM Akey Jon, Wakefield J Andrie Akey ...
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Research: L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis
- Stephanie N. Schauer,
- Patricia E. Carreira,
- Ruchi Shukla,
- Daniel J. Gerhardt,
- Patricia Gerdes,
- Francisco J. Sanchez-Luque,
- Paola Nicoli,
- Michaela Kindlova,
- Serena Ghisletti,
- Alexandre Dos Santos,
- Delphine Rapoud,
- Didier Samuel,
- Jamila Faivre,
- Adam D. Ewing,
- Sandra R. Richardson,
- and Geoffrey J. Faulkner
Genome Res. May 2018 28: 639-653; Published in Advance April 11, 2018, doi:10.1101/gr.226993.117
...are depicted. JM105/L1.3 is a reverse transcriptase-deficient human L1, JM101/L1.3 is a wild-type human L1, TGF21 is a previously-identified active mouse GF subfamily L1, L1spa is a previously identified disease-causing mouse TF subfamily L1, and Donor is the active L1 TF subfamily element identified ...
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Research: Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects
- Jeremy M. Simon,
- Kathryn E. Hacker,
- Darshan Singh,
- A. Rose Brannon,
- Joel S. Parker,
- Matthew Weiser,
- Thai H. Ho,
- Pei-Fen Kuan,
- Eric Jonasch,
- Terrence S. Furey,
- Jan F. Prins,
- Jason D. Lieb,
- W. Kimryn Rathmell,
- and Ian J. Davis
Genome Res. February 2014 24: 241-250; Published in Advance October 24, 2013, doi:10.1101/gr.158253.113
..., Rathmell Rathmell, W Kimryn Jan Prins Simon, Jeremy M Rathmell W. Kimryn J.S. Parker Jonasch Eric Jason Brannon, A Rose Parker, J.S W Kimryn Hacker, K.E Joel S, Parker Ian J Ho, T.H A Brannon Ian J Davis Kathryn E Davis, IJ IanJ Davis Jason D Lieb Kuan Furey Terrence S. Jeremy M, Simon Simon, JM Parker ...
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Letter: The origins of apicomplexan sequence innovation
- James Wasmuth,
- Jennifer Daub,
- José Manuel Peregrín-Alvarez,
- Constance A.M. Finney,
- and John Parkinson
Genome Res. July 2009 19: 1202-1213; Published in Advance April 10, 2009, doi:10.1101/gr.083386.108
....108 . Received July 16, 2008. Accepted March 31, 2009. Copyright 2009 by Cold Spring Harbor Laboratory Press John Parkinson J.M. Peregrn-Alvarez Daub, Jennifer Peregrn-Alvarez, J.M Constance AM Daub Jennifer John J Peregrn-Alvarez Constance AM Finney Daub, J Constance ...
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Research: Chromatin architecture reorganization during neuronal cell differentiation in Drosophila genome
- Keerthi T. Chathoth and
- Nicolae Radu Zabet
Genome Res. April 2019 29: 613-625; Published in Advance February 1, 2019, doi:10.1101/gr.246710.118
...? Mol Cell 49: 825837. doi:10.1016/j.molcel.2013.01.038 Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, Eads BD, Carlson JW, Landolin JM, Kapranov P, Dumais J, et al. 2011. The transcriptional diversity of 25 Drosophila cell lines. Genome Res 21: 301314. doi:10.1101/gr.112961.110 Chiang PW, Kurnit ...
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Method: Selective enrichment of damaged DNA molecules for ancient genome sequencing
- Marie-Theres Gansauge and
- Matthias Meyer
Genome Res. September 2014 24: 1543-1549; Published in Advance July 31, 2014, doi:10.1101/gr.174201.114
...Acad Sci 104: 1461614621. Briggs AW,Good JM, Green RE, Krause J, Maricic T, Stenzel U, Lalueza-Fox C, Rudan P, Brajkovic D, Kucan Z, et al. 2009. Targeted retrieval and analysis of five Neandertal mtDNA s. Science 325: 318321. Briggs AW, Stenzel U, Meyer M, Krause J, Kircher M, Paabo S. 2010 ...
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Method: High-throughput single-molecule telomere characterization
- Jennifer McCaffrey,
- Eleanor Young,
- Katy Lassahn,
- Justin Sibert,
- Steven Pastor,
- Harold Riethman,
- and Ming Xiao
Genome Res. November 2017 27: 1904-1915; Published in Advance October 12, 2017, doi:10.1101/gr.222422.117
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Resource: A physical and genetic map of Cannabis sativa identifies extensive rearrangements at the THC/CBD acid synthase loci
- Kaitlin U. Laverty,
- Jake M. Stout,
- Mitchell J. Sullivan,
- Hardik Shah,
- Navdeep Gill,
- Larry Holbrook,
- Gintaras Deikus,
- Robert Sebra,
- Timothy R. Hughes,
- Jonathan E. Page,
- and Harm van Bakel
Genome Res. January 2019 29: 146-156; Published in Advance November 8, 2018, doi:10.1101/gr.242594.118
...is chief scientific officer. J.E.P. and J.M.S. have filed patent WO2015196275 on the nucleotide sequence encoding the enzyme CBCAS-based reagents, as well as methods for producing cannabinoids and/or altering cannabinoid production.AcknowledgmentsWe thank the Donnelly Sequencing Centre (DSC) for assistance ...
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