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39,778 results

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A somatic reference standard for cancer genome sequencing.
Craig DW, Nasser S, Corbett R, Chan SK, Murray L, Legendre C, Tembe W, Adkins J, Kim N, Wong S, Baker A, Enriquez D, Pond S, Pleasance E, Mungall AJ, Moore RA, McDaniel T, Ma Y, Jones SJ, Marra MA, Carpten JD, Liang WS. Craig DW, et al. Among authors: ma y. Sci Rep. 2016 Apr 20;6:24607. doi: 10.1038/srep24607. Sci Rep. 2016. PMID: 27094764 Free PMC article.
Clinical outcomes after whole-genome sequencing in patients with metastatic non-small-cell lung cancer.
Tsang ES, Shen Y, Chooback N, Ho C, Jones M, Renouf DJ, Lim H, Sun S, Yip S, Pleasance E, Ionescu DN, Mungall K, Kasaian K, Ma Y, Zhao Y, Mungall A, Moore R, Jones SJM, Marra M, Laskin J. Tsang ES, et al. Among authors: ma y. Cold Spring Harb Mol Case Stud. 2019 Feb 1;5(1):a002659. doi: 10.1101/mcs.a002659. Print 2019 Feb. Cold Spring Harb Mol Case Stud. 2019. PMID: 30514790 Free PMC article.
Large-scale profiling of microRNAs for The Cancer Genome Atlas.
Chu A, Robertson G, Brooks D, Mungall AJ, Birol I, Coope R, Ma Y, Jones S, Marra MA. Chu A, et al. Among authors: ma y. Nucleic Acids Res. 2016 Jan 8;44(1):e3. doi: 10.1093/nar/gkv808. Epub 2015 Aug 13. Nucleic Acids Res. 2016. PMID: 26271990 Free PMC article.
JAGuaR: junction alignments to genome for RNA-seq reads.
Butterfield YS, Kreitzman M, Thiessen N, Corbett RD, Li Y, Pang J, Ma YP, Jones SJ, Birol İ. Butterfield YS, et al. Among authors: ma yp. PLoS One. 2014 Jul 25;9(7):e102398. doi: 10.1371/journal.pone.0102398. eCollection 2014. PLoS One. 2014. PMID: 25062255 Free PMC article.
Automated high throughput nucleic acid purification from formalin-fixed paraffin-embedded tissue samples for next generation sequence analysis.
Haile S, Pandoh P, McDonald H, Corbett RD, Tsao P, Kirk H, MacLeod T, Jones M, Bilobram S, Brooks D, Smailus D, Steidl C, Scott DW, Bala M, Hirst M, Miller D, Moore RA, Mungall AJ, Coope RJ, Ma Y, Zhao Y, Holt RA, Jones SJ, Marra MA. Haile S, et al. Among authors: ma y. PLoS One. 2017 Jun 1;12(6):e0178706. doi: 10.1371/journal.pone.0178706. eCollection 2017. PLoS One. 2017. PMID: 28570594 Free PMC article.
Increasing quality, throughput and speed of sample preparation for strand-specific messenger RNA sequencing.
Haile S, Corbett RD, MacLeod T, Bilobram S, Smailus D, Tsao P, Kirk H, McDonald H, Pandoh P, Bala M, Hirst M, Miller D, Moore RA, Mungall AJ, Schein J, Coope RJ, Ma Y, Zhao Y, Holt RA, Jones SJ, Marra MA. Haile S, et al. Among authors: ma y. BMC Genomics. 2017 Jul 5;18(1):515. doi: 10.1186/s12864-017-3900-6. BMC Genomics. 2017. PMID: 28679365 Free PMC article.
Personalized oncogenomic analysis of metastatic adenoid cystic carcinoma: using whole-genome sequencing to inform clinical decision-making.
Chahal M, Pleasance E, Grewal J, Zhao E, Ng T, Chapman E, Jones MR, Shen Y, Mungall KL, Bonakdar M, Taylor GA, Ma Y, Mungall AJ, Moore RA, Lim H, Renouf D, Yip S, Jones SJM, Marra MA, Laskin J. Chahal M, et al. Among authors: ma y. Cold Spring Harb Mol Case Stud. 2018 Apr 2;4(2):a002626. doi: 10.1101/mcs.a002626. Print 2018 Apr. Cold Spring Harb Mol Case Stud. 2018. PMID: 29610392 Free PMC article.
The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma.
Ricketts CJ, De Cubas AA, Fan H, Smith CC, Lang M, Reznik E, Bowlby R, Gibb EA, Akbani R, Beroukhim R, Bottaro DP, Choueiri TK, Gibbs RA, Godwin AK, Haake S, Hakimi AA, Henske EP, Hsieh JJ, Ho TH, Kanchi RS, Krishnan B, Kwiatkowski DJ, Liu W, Merino MJ, Mills GB, Myers J, Nickerson ML, Reuter VE, Schmidt LS, Shelley CS, Shen H, Shuch B, Signoretti S, Srinivasan R, Tamboli P, Thomas G, Vincent BG, Vocke CD, Wheeler DA, Yang L, Kim WY, Robertson AG; Cancer Genome Atlas Research Network; Spellman PT, Rathmell WK, Linehan WM. Ricketts CJ, et al. Cell Rep. 2018 Apr 3;23(1):313-326.e5. doi: 10.1016/j.celrep.2018.03.075. Cell Rep. 2018. PMID: 29617669 Free PMC article.
Sources of erroneous sequences and artifact chimeric reads in next generation sequencing of genomic DNA from formalin-fixed paraffin-embedded samples.
Haile S, Corbett RD, Bilobram S, Bye MH, Kirk H, Pandoh P, Trinh E, MacLeod T, McDonald H, Bala M, Miller D, Novik K, Coope RJ, Moore RA, Zhao Y, Mungall AJ, Ma Y, Holt RA, Jones SJ, Marra MA. Haile S, et al. Among authors: ma y. Nucleic Acids Res. 2019 Jan 25;47(2):e12. doi: 10.1093/nar/gky1142. Nucleic Acids Res. 2019. PMID: 30418619 Free PMC article.
A high-throughput protocol for isolating cell-free circulating tumor DNA from peripheral blood.
Pandoh PK, Corbett RD, McDonald H, Alcaide M, Kirk H, Trinh E, Haile S, MacLeod T, Smailus D, Bilobram S, Mungall AJ, Ma Y, Moore RA, Coope R, Zhao Y, Jones SJ, Holt RA, Karsan A, Morin RD, Marra MA. Pandoh PK, et al. Among authors: ma y. Biotechniques. 2019 Feb;66(2):85-92. doi: 10.2144/btn-2018-0148. Biotechniques. 2019. PMID: 30744412 Free article.
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