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John Douglas Mcpherson

Title(s)Professor, Biochemistry and Molecular Medicine
SchoolUniversity of California, Davis
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Kiuru M, Urban J, Zhu G, Rybak I, Terrell JR, Qi L, McPherson JD, Marghoob AA, Rauen KA. RAS pathway influences the number of melanocytic nevi in Cardio-facio-cutaneous and Costello syndromes. J Am Acad Dermatol. 2020 Jan 27. PMID: 32001297.
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    2. McCombie WR, McPherson JD, Mardis ER. Next-Generation Sequencing Technologies. Cold Spring Harb Perspect Med. 2019 Nov 01; 9(11). PMID: 30478097.
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    3. Houlahan KE, Shiah YJ, Gusev A, Yuan J, Ahmed M, Shetty A, Ramanand SG, Yao CQ, Bell C, O'Connor E, Huang V, Fraser M, Heisler LE, Livingstone J, Yamaguchi TN, Rouette A, Foucal A, Espiritu SMG, Sinha A, Sam M, Timms L, Johns J, Wong A, Murison A, Orain M, Picard V, Hovington H, Bergeron A, Lacombe L, Lupien M, Fradet Y, Têtu B, McPherson JD, Pasaniuc B, Kislinger T, Chua MLK, Pomerantz MM, van der Kwast T, Freedman ML, Mani RS, He HH, Bristow RG, Boutros PC. Genome-wide germline correlates of the epigenetic landscape of prostate cancer. Nat Med. 2019 Oct; 25(10):1615-1626. PMID: 31591588.
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    4. Prokopec SD, Lu A, Lee SCS, Yao CQ, Sun RX, Watson JD, Soliymani R, de Borja R, Wong A, Sam M, Zuzarte P, McPherson JD, Okey AB, Pohjanvirta R, Boutros PC. Comparative toxicoproteogenomics of mouse and rat liver identifies TCDD-resistance genes. Arch Toxicol. 2019 Oct; 93(10):2961-2978. PMID: 31511937.
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    5. McCombie WR, McPherson JD. Future Promises and Concerns of Ubiquitous Next-Generation Sequencing. Cold Spring Harb Perspect Med. 2019 Sep 03; 9(9). PMID: 30478095.
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    6. Kim JC, Zuzarte PC, Murphy T, Chan-Seng-Yue M, Brown AMK, Krzyzanowski PM, Smith AC, Notta F, Minden MD, McPherson JD. Cryptic genomic lesions in adverse-risk acute myeloid leukemia identified by integrated whole genome and transcriptome sequencing. Leukemia. 2020 Jan; 34(1):306-311. PMID: 31435024.
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    7. Ghia EM, Rassenti LZ, Neuberg DS, Blanco A, Yousif F, Smith EN, McPherson JD, Hudson TJ, Harismendy O, Frazer KA, Kipps TJ. Activation of hedgehog signaling associates with early disease progression in chronic lymphocytic leukemia. Blood. 2019 06 20; 133(25):2651-2663. PMID: 30923040.
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    8. Krzyzanowski PM, Sircoulomb F, Yousif F, Normand J, La Rose J, E Francis K, Suarez F, Beck T, McPherson JD, Stein LD, Rottapel RK. Regional perturbation of gene transcription is associated with intrachromosomal rearrangements and gene fusion transcripts in high grade ovarian cancer. Sci Rep. 2019 Mar 05; 9(1):3590. PMID: 30837567.
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    9. Shen SY, Singhania R, Fehringer G, Chakravarthy A, Roehrl MHA, Chadwick D, Zuzarte PC, Borgida A, Wang TT, Li T, Kis O, Zhao Z, Spreafico A, Medina TDS, Wang Y, Roulois D, Ettayebi I, Chen Z, Chow S, Murphy T, Arruda A, O'Kane GM, Liu J, Mansour M, McPherson JD, O'Brien C, Leighl N, Bedard PL, Fleshner N, Liu G, Minden MD, Gallinger S, Goldenberg A, Pugh TJ, Hoffman MM, Bratman SV, Hung RJ, De Carvalho DD. Sensitive tumour detection and classification using plasma cell-free DNA methylomes. Nature. 2018 11; 563(7732):579-583. PMID: 30429608.
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    10. Abelson S, Collord G, Ng SWK, Weissbrod O, Mendelson Cohen N, Niemeyer E, Barda N, Zuzarte PC, Heisler L, Sundaravadanam Y, Luben R, Hayat S, Wang TT, Zhao Z, Cirlan I, Pugh TJ, Soave D, Ng K, Latimer C, Hardy C, Raine K, Jones D, Hoult D, Britten A, McPherson JD, Johansson M, Mbabaali F, Eagles J, Miller JK, Pasternack D, Timms L, Krzyzanowski P, Awadalla P, Costa R, Segal E, Bratman SV, Beer P, Behjati S, Martincorena I, Wang JCY, Bowles KM, Quirós JR, Karakatsani A, La Vecchia C, Trichopoulou A, Salamanca-Fernández E, Huerta JM, Barricarte A, Travis RC, Tumino R, Masala G, Boeing H, Panico S, Kaaks R, Krämer A, Sieri S, Riboli E, Vineis P, Foll M, McKay J, Polidoro S, Sala N, Khaw KT, Vermeulen R, Campbell PJ, Papaemmanuil E, Minden MD, Tanay A, Balicer RD, Wareham NJ, Gerstung M, Dick JE, Brennan P, Vassiliou GS, Shlush LI. Prediction of acute myeloid leukaemia risk in healthy individuals. Nature. 2018 07; 559(7714):400-404. PMID: 29988082.
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    11. Riess JW, Gandara DR, Frampton GM, Madison R, Peled N, Bufill JA, Dy GK, Ou SI, Stephens PJ, McPherson JD, Lara PN, Burich RA, Ross JS, Miller VA, Ali SM, Mack PC, Schrock AB. Diverse EGFR Exon 20 Insertions and Co-Occurring Molecular Alterations Identified by Comprehensive Genomic Profiling of NSCLC. J Thorac Oncol. 2018 10; 13(10):1560-1568. PMID: 29981927.
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    12. Nattestad M, Goodwin S, Ng K, Baslan T, Sedlazeck FJ, Rescheneder P, Garvin T, Fang H, Gurtowski J, Hutton E, Tseng E, Chin CS, Beck T, Sundaravadanam Y, Kramer M, Antoniou E, McPherson JD, Hicks J, McCombie WR, Schatz MC. Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line. Genome Res. 2018 08; 28(8):1126-1135. PMID: 29954844.
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    13. Kiuru M, Tartar DM, Qi L, Chen D, Yu L, Konia T, McPherson JD, Murphy WJ, Fung MA. Improving classification of melanocytic nevi: Association of BRAF V600E expression with distinct histomorphologic features. J Am Acad Dermatol. 2018 Aug; 79(2):221-229. PMID: 29653212.
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    14. Fereidouni F, Harmany ZT, Tian M, Todd A, Kintner JA, McPherson JD, Borowsky AD, Lechpammer M, Bishop J, Demos SG, Levenson R. Microscopy with ultraviolet surface excitation for rapid slide-free histology. Nat Biomed Eng. 2017; 1:957-966. PMID: 30416866.
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    15. Fereidouni F, Harmany ZT, Tian M, Todd A, Kintner JA, McPherson JD, Borowsky AD, Bishop J, Lechpammer M, Demos SG, Levenson R. Microscopy with ultraviolet surface excitation for rapid slide-free histology. Nat Biomed Eng. 2017 12; 1(12):957-966. PMID: 31015706.
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    16. Lara PN, Heilmann AM, Elvin JA, Parikh M, de Vere White R, Gandour-Edwards R, Evans CP, Pan CX, Schrock AB, Erlich R, Ross JS, Stephens PJ, McPherson J, Miller VA, Ali SM. TMPRSS2-ERG fusions unexpectedly identified in men initially diagnosed with nonprostatic malignancies. JCO Precis Oncol. 2017; 2017. PMID: 29629426.
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    17. Hopkins JF, Sabelnykova VY, Weischenfeldt J, Simon R, Aguiar JA, Alkallas R, Heisler LE, Zhang J, Watson JD, Chua MLK, Fraser M, Favero F, Lawerenz C, Plass C, Sauter G, McPherson JD, van der Kwast T, Korbel J, Schlomm T, Bristow RG, Boutros PC. Mitochondrial mutations drive prostate cancer aggression. Nat Commun. 2017 09 22; 8(1):656. PMID: 28939825.
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    18. Kalatskaya I, Trinh QM, Spears M, McPherson JD, Bartlett JMS, Stein L. ISOWN: accurate somatic mutation identification in the absence of normal tissue controls. Genome Med. 2017 06 29; 9(1):59. PMID: 28659176.
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    19. Shlush LI, Mitchell A, Heisler L, Abelson S, Ng SWK, Trotman-Grant A, Medeiros JJF, Rao-Bhatia A, Jaciw-Zurakowsky I, Marke R, McLeod JL, Doedens M, Bader G, Voisin V, Xu C, McPherson JD, Hudson TJ, Wang JCY, Minden MD, Dick JE. Tracing the origins of relapse in acute myeloid leukaemia to stem cells. Nature. 2017 07 06; 547(7661):104-108. PMID: 28658204.
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    20. Connor AA, Denroche RE, Jang GH, Timms L, Kalimuthu SN, Selander I, McPherson T, Wilson GW, Chan-Seng-Yue MA, Borozan I, Ferretti V, Grant RC, Lungu IM, Costello E, Greenhalf W, Palmer D, Ghaneh P, Neoptolemos JP, Buchler M, Petersen G, Thayer S, Hollingsworth MA, Sherker A, Durocher D, Dhani N, Hedley D, Serra S, Pollett A, Roehrl MHA, Bavi P, Bartlett JMS, Cleary S, Wilson JM, Alexandrov LB, Moore M, Wouters BG, McPherson JD, Notta F, Stein LD, Gallinger S. Association of Distinct Mutational Signatures With Correlates of Increased Immune Activity in Pancreatic Ductal Adenocarcinoma. JAMA Oncol. 2017 Jun 01; 3(6):774-783. PMID: 27768182.
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    21. Feigin ME, Garvin T, Bailey P, Waddell N, Chang DK, Kelley DR, Shuai S, Gallinger S, McPherson JD, Grimmond SM, Khurana E, Stein LD, Biankin AV, Schatz MC, Tuveson DA. Recurrent noncoding regulatory mutations in pancreatic ductal adenocarcinoma. Nat Genet. 2017 Jun; 49(6):825-833. PMID: 28481342.
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    22. Medrano M, Communal L, Brown KR, Iwanicki M, Normand J, Paterson J, Sircoulomb F, Krzyzanowski P, Novak M, Doodnauth SA, Saiz FS, Cullis J, Al-Awar R, Neel BG, McPherson J, Drapkin R, Ailles L, Mes-Massons AM, Rottapel R. Interrogation of Functional Cell-Surface Markers Identifies CD151 Dependency in High-Grade Serous Ovarian Cancer. Cell Rep. 2017 03 07; 18(10):2343-2358. PMID: 28273451.
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    23. Taylor RA, Fraser M, Livingstone J, Espiritu SM, Thorne H, Huang V, Lo W, Shiah YJ, Yamaguchi TN, Sliwinski A, Horsburgh S, Meng A, Heisler LE, Yu N, Yousif F, Papargiris M, Lawrence MG, Timms L, Murphy DG, Frydenberg M, Hopkins JF, Bolton D, Clouston D, McPherson JD, van der Kwast T, Boutros PC, Risbridger GP, Bristow RG. Germline BRCA2 mutations drive prostate cancers with distinct evolutionary trajectories. Nat Commun. 2017 01 09; 8:13671. PMID: 28067867.
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    24. Fraser M, Sabelnykova VY, Yamaguchi TN, Heisler LE, Livingstone J, Huang V, Shiah YJ, Yousif F, Lin X, Masella AP, Fox NS, Xie M, Prokopec SD, Berlin A, Lalonde E, Ahmed M, Trudel D, Luo X, Beck TA, Meng A, Zhang J, D'Costa A, Denroche RE, Kong H, Espiritu SM, Chua ML, Wong A, Chong T, Sam M, Johns J, Timms L, Buchner NB, Orain M, Picard V, Hovington H, Murison A, Kron K, Harding NJ, P'ng C, Houlahan KE, Chu KC, Lo B, Nguyen F, Li CH, Sun RX, de Borja R, Cooper CI, Hopkins JF, Govind SK, Fung C, Waggott D, Green J, Haider S, Chan-Seng-Yue MA, Jung E, Wang Z, Bergeron A, Dal Pra A, Lacombe L, Collins CC, Sahinalp C, Lupien M, Fleshner NE, He HH, Fradet Y, Tetu B, van der Kwast T, McPherson JD, Bristow RG, Boutros PC. Genomic hallmarks of localized, non-indolent prostate cancer. Nature. 2017 01 19; 541(7637):359-364. PMID: 28068672.
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    25. Notta F, Chan-Seng-Yue M, Lemire M, Li Y, Wilson GW, Connor AA, Denroche RE, Liang SB, Brown AM, Kim JC, Wang T, Simpson JT, Beck T, Borgida A, Buchner N, Chadwick D, Hafezi-Bakhtiari S, Dick JE, Heisler L, Hollingsworth MA, Ibrahimov E, Jang GH, Johns J, Jorgensen LG, Law C, Ludkovski O, Lungu I, Ng K, Pasternack D, Petersen GM, Shlush LI, Timms L, Tsao MS, Wilson JM, Yung CK, Zogopoulos G, Bartlett JM, Alexandrov LB, Real FX, Cleary SP, Roehrl MH, McPherson JD, Stein LD, Hudson TJ, Campbell PJ, Gallinger S. Erratum: A renewed model of pancreatic cancer evolution based on genomic rearrangement patterns. Nature. 2017 02 02; 542(7639):124. PMID: 27851734.
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    26. Wang D, Pham NA, Tong J, Sakashita S, Allo G, Kim L, Yanagawa N, Raghavan V, Wei Y, To C, Trinh QM, Starmans MH, Chan-Seng-Yue MA, Chadwick D, Li L, Zhu CQ, Liu N, Li M, Lee S, Ignatchenko V, Strumpf D, Taylor P, Moghal N, Liu G, Boutros PC, Kislinger T, Pintilie M, Jurisica I, Shepherd FA, McPherson JD, Muthuswamy L, Moran MF, Tsao MS. Molecular heterogeneity of non-small cell lung carcinoma patient-derived xenografts closely reflect their primary tumors. Int J Cancer. 2017 Feb 01; 140(3):662-673. PMID: 27750381.
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    27. Notta F, Chan-Seng-Yue M, Lemire M, Li Y, Wilson GW, Connor AA, Denroche RE, Liang SB, Brown AM, Kim JC, Wang T, Simpson JT, Beck T, Borgida A, Buchner N, Chadwick D, Hafezi-Bakhtiari S, Dick JE, Heisler L, Hollingsworth MA, Ibrahimov E, Jang GH, Johns J, Jorgensen LG, Law C, Ludkovski O, Lungu I, Ng K, Pasternack D, Petersen GM, Shlush LI, Timms L, Tsao MS, Wilson JM, Yung CK, Zogopoulos G, Bartlett JM, Alexandrov LB, Real FX, Cleary SP, Roehrl MH, McPherson JD, Stein LD, Hudson TJ, Campbell PJ, Gallinger S. A renewed model of pancreatic cancer evolution based on genomic rearrangement patterns. Nature. 2016 Oct 20; 538(7625):378-382. PMID: 27732578.
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    28. Goodwin S, McPherson JD, McCombie WR. Coming of age: ten years of next-generation sequencing technologies. Nat Rev Genet. 2016 05 17; 17(6):333-51. PMID: 27184599.
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    29. Iacobucci I, Li Y, Roberts KG, Dobson SM, Kim JC, Payne-Turner D, Harvey RC, Valentine M, McCastlain K, Easton J, Yergeau D, Janke LJ, Shao Y, Chen IM, Rusch M, Zandi S, Kornblau SM, Konopleva M, Jabbour E, Paietta EM, Rowe JM, Pui CH, Gastier-Foster J, Gu Z, Reshmi S, Loh ML, Racevskis J, Tallman MS, Wiernik PH, Litzow MR, Willman CL, McPherson JD, Downing JR, Zhang J, Dick JE, Hunger SP, Mullighan CG. Truncating Erythropoietin Receptor Rearrangements in Acute Lymphoblastic Leukemia. Cancer Cell. 2016 Feb 08; 29(2):186-200. PMID: 26859458.
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    30. Denroche RE, Mullen L, Timms L, Beck T, Yung CK, Stein L, McPherson JD, Brown AM. A cancer cell-line titration series for evaluating somatic classification. BMC Res Notes. 2015 Dec 26; 8:823. PMID: 26708082.
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    31. Alioto TS, Buchhalter I, Derdak S, Hutter B, Eldridge MD, Hovig E, Heisler LE, Beck TA, Simpson JT, Tonon L, Sertier AS, Patch AM, Jäger N, Ginsbach P, Drews R, Paramasivam N, Kabbe R, Chotewutmontri S, Diessl N, Previti C, Schmidt S, Brors B, Feuerbach L, Heinold M, Gröbner S, Korshunov A, Tarpey PS, Butler AP, Hinton J, Jones D, Menzies A, Raine K, Shepherd R, Stebbings L, Teague JW, Ribeca P, Giner FC, Beltran S, Raineri E, Dabad M, Heath SC, Gut M, Denroche RE, Harding NJ, Yamaguchi TN, Fujimoto A, Nakagawa H, Quesada V, Valdés-Mas R, Nakken S, Vodák D, Bower L, Lynch AG, Anderson CL, Waddell N, Pearson JV, Grimmond SM, Peto M, Spellman P, He M, Kandoth C, Lee S, Zhang J, Létourneau L, Ma S, Seth S, Torrents D, Xi L, Wheeler DA, López-Otín C, Campo E, Campbell PJ, Boutros PC, Puente XS, Gerhard DS, Pfister SM, McPherson JD, Hudson TJ, Schlesner M, Lichter P, Eils R, Jones DT, Gut IG. A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing. Nat Commun. 2015 Dec 09; 6:10001. PMID: 26647970.
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    32. Kachuri L, Amos CI, McKay JD, Johansson M, Vineis P, Bueno-de-Mesquita HB, Boutron-Ruault MC, Johansson M, Quirós JR, Sieri S, Travis RC, Weiderpass E, Le Marchand L, Henderson BE, Wilkens L, Goodman GE, Chen C, Doherty JA, Christiani DC, Wei Y, Su L, Tworoger S, Zhang X, Kraft P, Zaridze D, Field JK, Marcus MW, Davies MPA, Hyde R, Caporaso NE, Landi MT, Severi G, Giles GG, Liu G, McLaughlin JR, Li Y, Xiao X, Fehringer G, Zong X, Denroche RE, Zuzarte PC, McPherson JD, Brennan P, Hung RJ. Fine mapping of chromosome 5p15.33 based on a targeted deep sequencing and high density genotyping identifies novel lung cancer susceptibility loci. Carcinogenesis. 2016 Jan; 37(1):96-105. PMID: 26590902.
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    33. Notta F, Zandi S, Takayama N, Dobson S, Gan OI, Wilson G, Kaufmann KB, McLeod J, Laurenti E, Dunant CF, McPherson JD, Stein LD, Dror Y, Dick JE. Distinct routes of lineage development reshape the human blood hierarchy across ontogeny. Science. 2016 Jan 08; 351(6269):aab2116. PMID: 26541609.
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    34. Smith AL, Alirezaie N, Connor A, Chan-Seng-Yue M, Grant R, Selander I, Bascuñana C, Borgida A, Hall A, Whelan T, Holter S, McPherson T, Cleary S, Petersen GM, Omeroglu A, Saloustros E, McPherson J, Stein LD, Foulkes WD, Majewski J, Gallinger S, Zogopoulos G. Candidate DNA repair susceptibility genes identified by exome sequencing in high-risk pancreatic cancer. Cancer Lett. 2016 Jan 28; 370(2):302-12. PMID: 26546047.
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    35. Boutros PC, Fraser M, Harding NJ, de Borja R, Trudel D, Lalonde E, Meng A, Hennings-Yeomans PH, McPherson A, Sabelnykova VY, Zia A, Fox NS, Livingstone J, Shiah YJ, Wang J, Beck TA, Have CL, Chong T, Sam M, Johns J, Timms L, Buchner N, Wong A, Watson JD, Simmons TT, P'ng C, Zafarana G, Nguyen F, Luo X, Chu KC, Prokopec SD, Sykes J, Dal Pra A, Berlin A, Brown A, Chan-Seng-Yue MA, Yousif F, Denroche RE, Chong LC, Chen GM, Jung E, Fung C, Starmans MH, Chen H, Govind SK, Hawley J, D'Costa A, Pintilie M, Waggott D, Hach F, Lambin P, Muthuswamy LB, Cooper C, Eeles R, Neal D, Tetu B, Sahinalp C, Stein LD, Fleshner N, Shah SP, Collins CC, Hudson TJ, McPherson JD, van der Kwast T, Bristow RG. Spatial genomic heterogeneity within localized, multifocal prostate cancer. Nat Genet. 2015 Jul; 47(7):736-45. PMID: 26005866.
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    36. Tam S, Tsao MS, McPherson JD. Optimization of miRNA-seq data preprocessing. Brief Bioinform. 2015 Nov; 16(6):950-63. PMID: 25888698.
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    37. Sadarangani A, Pineda G, Lennon KM, Chun HJ, Shih A, Schairer AE, Court AC, Goff DJ, Prashad SL, Geron I, Wall R, McPherson JD, Moore RA, Pu M, Bao L, Jackson-Fisher A, Munchhof M, VanArsdale T, Reya T, Morris SR, Minden MD, Messer K, Mikkola HK, Marra MA, Hudson TJ, Jamieson CH. GLI2 inhibition abrogates human leukemia stem cell dormancy. J Transl Med. 2015 Mar 21; 13:98. PMID: 25889765.
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    38. McPherson JD. A defining decade in DNA sequencing. Nat Methods. 2014 Oct; 11(10):1003-5. PMID: 25264775.
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    39. Weinreb I, Piscuoglio S, Martelotto LG, Waggott D, Ng CK, Perez-Ordonez B, Harding NJ, Alfaro J, Chu KC, Viale A, Fusco N, da Cruz Paula A, Marchio C, Sakr RA, Lim R, Thompson LD, Chiosea SI, Seethala RR, Skalova A, Stelow EB, Fonseca I, Assaad A, How C, Wang J, de Borja R, Chan-Seng-Yue M, Howlett CJ, Nichols AC, Wen YH, Katabi N, Buchner N, Mullen L, Kislinger T, Wouters BG, Liu FF, Norton L, McPherson JD, Rubin BP, Clarke BA, Weigelt B, Boutros PC, Reis-Filho JS. Hotspot activating PRKD1 somatic mutations in polymorphous low-grade adenocarcinomas of the salivary glands. Nat Genet. 2014 Nov; 46(11):1166-9. PMID: 25240283.
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    40. Chong LC, Albuquerque MA, Harding NJ, Caloian C, Chan-Seng-Yue M, de Borja R, Fraser M, Denroche RE, Beck TA, van der Kwast T, Bristow RG, McPherson JD, Boutros PC. SeqControl: process control for DNA sequencing. Nat Methods. 2014 Oct; 11(10):1071-5. PMID: 25173705.
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    41. Chen PC, Yin J, Yu HW, Yuan T, Fernandez M, Yung CK, Trinh QM, Peltekova VD, Reid JG, Tworog-Dube E, Morgan MB, Muzny DM, Stein L, McPherson JD, Roberts AE, Gibbs RA, Neel BG, Kucherlapati R. Next-generation sequencing identifies rare variants associated with Noonan syndrome. Proc Natl Acad Sci U S A. 2014 Aug 05; 111(31):11473-8. PMID: 25049390.
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    42. Blanchette PS, Spreafico A, Miller FA, Chan K, Bytautas J, Kang S, Bedard PL, Eisen A, Potanina L, Holland J, Kamel-Reid S, McPherson JD, Razak AR, Siu LL. Genomic testing in cancer: patient knowledge, attitudes, and expectations. Cancer. 2014 Oct 01; 120(19):3066-73. PMID: 24962202.
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    43. Baker AJ, Haddrath O, McPherson JD, Cloutier A. Genomic support for a moa-tinamou clade and adaptive morphological convergence in flightless ratites. Mol Biol Evol. 2014 Jul; 31(7):1686-96. PMID: 24825849.
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    44. Zuzarte PC, Denroche RE, Fehringer G, Katzov-Eckert H, Hung RJ, McPherson JD. A two-dimensional pooling strategy for rare variant detection on next-generation sequencing platforms. PLoS One. 2014; 9(4):e93455. PMID: 24728235.
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    45. Govind SK, Zia A, Hennings-Yeomans PH, Watson JD, Fraser M, Anghel C, Wyatt AW, van der Kwast T, Collins CC, McPherson JD, Bristow RG, Boutros PC. ShatterProof: operational detection and quantification of chromothripsis. BMC Bioinformatics. 2014 Mar 19; 15:78. PMID: 24646301.
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    46. Miller JK, Buchner N, Timms L, Tam S, Luo X, Brown AM, Pasternack D, Bristow RG, Fraser M, Boutros PC, McPherson JD. Use of Sequenom sample ID Plus® SNP genotyping in identification of FFPE tumor samples. PLoS One. 2014; 9(2):e88163. PMID: 24551080.
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    47. Shlush LI, Zandi S, Mitchell A, Chen WC, Brandwein JM, Gupta V, Kennedy JA, Schimmer AD, Schuh AC, Yee KW, McLeod JL, Doedens M, Medeiros JJ, Marke R, Kim HJ, Lee K, McPherson JD, Hudson TJ, Brown AM, Yousif F, Trinh QM, Stein LD, Minden MD, Wang JC, Dick JE. Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia. Nature. 2014 Feb 20; 506(7488):328-33. PMID: 24522528.
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    48. Tam S, de Borja R, Tsao MS, McPherson JD. Robust global microRNA expression profiling using next-generation sequencing technologies. Lab Invest. 2014 Mar; 94(3):350-8. PMID: 24445778.
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    49. Ji J, Sharma V, Qi S, Guarch ME, Zhao P, Luo Z, Fan W, Wang Y, Mbabaali F, Neculai D, Esteban MA, McPherson JD, Batada NN. Antioxidant supplementation reduces genomic aberrations in human induced pluripotent stem cells. Stem Cell Reports. 2014 Jan 14; 2(1):44-51. PMID: 24511469.
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    50. Peltekova VD, Lemire M, Qazi AM, Zaidi SH, Trinh QM, Bielecki R, Rogers M, Hodgson L, Wang M, D'Souza DJ, Zandi S, Chong T, Kwan JY, Kozak K, De Borja R, Timms L, Rangrej J, Volar M, Chan-Seng-Yue M, Beck T, Ash C, Lee S, Wang J, Boutros PC, Stein LD, Dick JE, Gryfe R, McPherson JD, Zanke BW, Pollett A, Gallinger S, Hudson TJ. Identification of genes expressed by immune cells of the colon that are regulated by colorectal cancer-associated variants. Int J Cancer. 2014 May 15; 134(10):2330-41. PMID: 24154973.
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    51. Holt C, Losic B, Pai D, Zhao Z, Trinh Q, Syam S, Arshadi N, Jang GH, Ali J, Beck T, McPherson J, Muthuswamy LB. WaveCNV: allele-specific copy number alterations in primary tumors and xenograft models from next-generation sequencing. Bioinformatics. 2014 Mar 15; 30(6):768-74. PMID: 24192544.
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    52. Watt S, Jiao W, Brown AM, Petrocelli T, Tran B, Zhang T, McPherson JD, Kamel-Reid S, Bedard PL, Onetto N, Hudson TJ, Dancey J, Siu LL, Stein L, Ferretti V. Clinical genomics information management software linking cancer genome sequence and clinical decisions. Genomics. 2013 Sep; 102(3):140-7. PMID: 23603536.
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    53. Grant RC, Al-Sukhni W, Borgida AE, Holter S, Kanji ZS, McPherson T, Whelan E, Serra S, Trinh QM, Peltekova V, Stein LD, McPherson JD, Gallinger S. Exome sequencing identifies nonsegregating nonsense ATM and PALB2 variants in familial pancreatic cancer. Hum Genomics. 2013 Apr 05; 7:11. PMID: 23561644.
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    117. Marra MA, Kucaba TA, Dietrich NL, Green ED, Brownstein B, Wilson RK, McDonald KM, Hillier LW, McPherson JD, Waterston RH. High throughput fingerprint analysis of large-insert clones. Genome Res. 1997 Nov; 7(11):1072-84. PMID: 9371743.
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    118. McPherson JD, Apostol B, Wagner-McPherson CB, Hakim S, Del Mastro RG, Aziz N, Baer E, Gonzales G, Krane MC, Markovich R, Masny P, Ortega M, Vu J, Vujicic M, Church DM, Segal A, Grady DL, Moyzis RK, Spence MA, Lovett M, Wasmuth JJ. A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcript maps. Genome Res. 1997 Sep; 7(9):897-909. PMID: 9314495.
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    119. McPherson JD, Krane MC, Wagner-McPherson CB, Kos CH, Tenenhouse HS. High resolution mapping of the renal sodium-phosphate cotransporter gene (NPT2) confirms its localization to human chromosome 5q35. Pediatr Res. 1997 May; 41(5):632-4. PMID: 9128283.
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    120. Jung D, Duclos F, Apostol B, Straub V, Lee JC, Allamand V, Venzke DP, Sunada Y, Moomaw CR, Leveille CJ, Slaughter CA, Crawford TO, McPherson JD, Campbell KP. Characterization of delta-sarcoglycan, a novel component of the oligomeric sarcoglycan complex involved in limb-girdle muscular dystrophy. J Biol Chem. 1996 Dec 13; 271(50):32321-9. PMID: 8943294.
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    121. Feldblyum TV, Maglott DR, McPherson JD, Adams M, Apostol BL, Durkin AS, Wasmuth JJ, Nierman WC. Regional assignment and tissue expression of twenty-three expressed sequence tags (ESTs) from human chromosome 5. Genomics. 1996 Apr 01; 33(1):128-30. PMID: 8617497.
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    122. Grady DL, Robinson DL, Gersh M, Nickerson E, McPherson J, Wasmuth JJ, Overhauser J, Deaven LL, Moyzis RK. The generation and regional localization of 303 new chromosome 5 sequence-tagged sites. Genomics. 1996 Feb 15; 32(1):91-6. PMID: 8786125.
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    123. Spicer AP, Roller ML, Camper SA, McPherson JD, Wasmuth JJ, Hakim S, Wang C, Turley EA, McDonald JA. The human and mouse receptors for hyaluronan-mediated motility, RHAMM, genes (HMMR) map to human chromosome 5q33.2-qter and mouse chromosome 11. Genomics. 1995 Nov 01; 30(1):115-7. PMID: 8595891.
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    124. Del Mastro RG, Wang L, Simmons AD, Gallardo TD, Clines GA, Ashley JA, Hilliard CJ, Wasmuth JJ, McPherson JD, Lovett M. Human chromosome-specific cDNA libraries: new tools for gene identification and genome annotation. Genome Res. 1995 Sep; 5(2):185-94. PMID: 9132272.
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    125. Abrams WR, Ma RI, Kucich U, Bashir MM, Decker S, Tsipouras P, McPherson JD, Wasmuth JJ, Rosenbloom J. Molecular cloning of the microfibrillar protein MFAP3 and assignment of the gene to human chromosome 5q32-q33.2. Genomics. 1995 Mar 01; 26(1):47-54. PMID: 7782085.
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    126. Vamvakopoulos NC, Sioutopoulou TO, Durkin SA, Nierman WC, Wasmuth JJ, McPherson JD. Mapping the human corticotropin releasing hormone binding protein gene (CRHBP) to the long arm of chromosome 5 (5q11.2-q13.3). Genomics. 1995 Jan 01; 25(1):325-7. PMID: 7774945.
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    127. DiDonato CJ, Morgan K, Carpten JD, Fuerst P, Ingraham SE, Prescott G, McPherson JD, Wirth B, Zerres K, Hurko O. Association between Ag1-CA alleles and severity of autosomal recessive proximal spinal muscular atrophy. Am J Hum Genet. 1994 Dec; 55(6):1218-29. PMID: 7977383.
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    128. Burghes AH, Ingraham SE, McLean M, Thompson TG, McPherson JD, Kote-Jarai Z, Carpten JD, DiDonato CJ, Ikeda JE, Surh L. A multicopy dinucleotide marker that maps close to the spinal muscular atrophy gene. Genomics. 1994 May 15; 21(2):394-402. PMID: 8088834.
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    129. Clermont O, Burlet P, Burglen L, Lefebvre S, Pascal F, McPherson J, Wasmuth JJ, Cohen D, Le Paslier D, Weissenbach J. Use of genetic and physical mapping to locate the spinal muscular atrophy locus between two new highly polymorphic DNA markers. Am J Hum Genet. 1994 Apr; 54(4):687-94. PMID: 8128967.
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    130. McPherson JD, Wasmuth JJ, Kurys G, Pietruszko R. Human aldehyde dehydrogenase: chromosomal assignment of the gene for the isozyme that metabolizes gamma-aminobutyraldehyde. Hum Genet. 1994 Feb; 93(2):211-2. PMID: 8112751.
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    131. McPherson JD, Morton RA, Ewing CM, Wasmuth JJ, Overhauser J, Nagafuchi A, Tsukita S, Isaacs WB. Assignment of the human alpha-catenin gene (CTNNA1) to chromosome 5q21-q22. Genomics. 1994 Jan 01; 19(1):188-90. PMID: 8188230.
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    132. Loftus SK, Shiang R, Warrington JA, Bengtsson U, McPherson JD, Wasmuth JJ. Genes encoding adrenergic receptors are not clustered on the long arm of human chromosome 5. Cytogenet Cell Genet. 1994; 67(2):69-74. PMID: 8039425.
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    133. Clark CC, Cohen I, Eichstetter I, Cannizzaro LA, McPherson JD, Wasmuth JJ, Iozzo RV. Molecular cloning of the human proto-oncogene Wnt-5A and mapping of the gene (WNT5A) to chromosome 3p14-p21. Genomics. 1993 Nov; 18(2):249-60. PMID: 8288227.
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    134. Morrison KE, Daniels RJ, Campbell L, McPherson J, Davies KE. Dinucleotide repeat polymorphism proximal to the spinal muscular atrophy region at D5S681. Hum Mol Genet. 1993 Oct; 2(10):1753. PMID: 8268953.
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    135. Thompson TG, Morrison KE, Kleyn P, Bengtsson U, Gilliam TC, Davies KE, Wasmuth JJ, McPherson JD. High resolution physical map of the region surrounding the spinal muscular atrophy gene. Hum Mol Genet. 1993 Aug; 2(8):1169-76. PMID: 8401498.
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    136. Francis MJ, Morrison KE, Campbell L, Grewal PK, Christodoulou Z, Daniels RJ, Monaco AP, Frischauf AM, McPherson J, Wasmuth J. A contig of non-chimaeric YACs containing the spinal muscular atrophy gene in 5q13. Hum Mol Genet. 1993 Aug; 2(8):1161-7. PMID: 8401497.
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    137. Brant SR, Bernstein M, Wasmuth JJ, Taylor EW, McPherson JD, Li X, Walker S, Pouyssegur J, Donowitz M, Tse CM. Physical and genetic mapping of a human apical epithelial Na+/H+ exchanger (NHE3) isoform to chromosome 5p15.3. Genomics. 1993 Mar; 15(3):668-72. PMID: 8096830.
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    138. Bernard LE, McPherson JD, Wasmuth JJ, Kreklywich CN, Brzustowicz LM, Wood S. Linkage mapping detects two secondary microdeletions in cell hybrid HHW1064, used to isolate DNA probes from within 5q11.2-->q13.3. Cytogenet Cell Genet. 1993; 64(1):46-8. PMID: 8508678.
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    139. Iozzo RV, Naso MF, Cannizzaro LA, Wasmuth JJ, McPherson JD. Mapping of the versican proteoglycan gene (CSPG2) to the long arm of human chromosome 5 (5q12-5q14). Genomics. 1992 Dec; 14(4):845-51. PMID: 1478664.
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    140. Sun W, McPherson JD, Hoang DQ, Wasmuth JJ, Evans GA, Montal M. Mapping of a human brain voltage-gated calcium channel to human chromosome 12p13-pter. Genomics. 1992 Dec; 14(4):1092-4. PMID: 1335957.
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    141. Grissmer S, Ghanshani S, Dethlefs B, McPherson JD, Wasmuth JJ, Gutman GA, Cahalan MD, Chandy KG. The Shaw-related potassium channel gene, Kv3.1, on human chromosome 11, encodes the type l K+ channel in T cells. J Biol Chem. 1992 Oct 15; 267(29):20971-9. PMID: 1400413.
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    142. Ahmed CM, Ware DH, Lee SC, Patten CD, Ferrer-Montiel AV, Schinder AF, McPherson JD, Wagner-McPherson CB, Wasmuth JJ, Evans GA. Primary structure, chromosomal localization, and functional expression of a voltage-gated sodium channel from human brain. Proc Natl Acad Sci U S A. 1992 Sep 01; 89(17):8220-4. PMID: 1325650.
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    143. McNamara JO, Eubanks JH, McPherson JD, Wasmuth JJ, Evans GA, Heinemann SF. Chromosomal localization of human glutamate receptor genes. J Neurosci. 1992 Jul; 12(7):2555-62. PMID: 1319477.
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    144. Liptay S, Schmid RM, Perkins ND, Meltzer P, Altherr MR, McPherson JD, Wasmuth JJ, Nabel GJ. Related subunits of NF-kappa B map to two distinct loci associated with translocations in leukemia, NFKB1 and NFKB2. Genomics. 1992 Jun; 13(2):287-92. PMID: 1612589.
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    145. Scherer LJ, McPherson JD, Wasmuth JJ, Marsh JL. Human dopa decarboxylase: localization to human chromosome 7p11 and characterization of hepatic cDNAs. Genomics. 1992 Jun; 13(2):469-71. PMID: 1612608.
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    146. Eubanks JH, Altherr M, Wagner-McPherson C, McPherson JD, Wasmuth JJ, Evans GA. Localization of the D5 dopamine receptor gene to human chromosome 4p15.1-p15.3, centromeric to the Huntington's disease locus. Genomics. 1992 Mar; 12(3):510-6. PMID: 1532789.
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    147. Ghanshani S, Pak M, McPherson JD, Strong M, Dethlefs B, Wasmuth JJ, Salkoff L, Gutman GA, Chandy KG. Genomic organization, nucleotide sequence, and cellular distribution of a Shaw-related potassium channel gene, Kv3.3, and mapping of Kv3.3 and Kv3.4 to human chromosomes 19 and 1. Genomics. 1992 Feb; 12(2):190-6. PMID: 1740329.
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    148. Peddada LB, McPherson JD, Law R, Wasmuth JJ, Youderian P, Deans RJ. Somatic cell mapping of the human cyclophilin B gene (PPIB) to chromosome 15. Cytogenet Cell Genet. 1992; 60(3-4):219-21. PMID: 1505219.
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    149. Weber JL, Polymeropoulos MH, May PE, Kwitek AE, Xiao H, McPherson JD, Wasmuth JJ. Mapping of human chromosome 5 microsatellite DNA polymorphisms. Genomics. 1991 Nov; 11(3):695-700. PMID: 1774070.
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    150. Groden J, Thliveris A, Samowitz W, Carlson M, Gelbert L, Albertsen H, Joslyn G, Stevens J, Spirio L, Robertson M. Identification and characterization of the familial adenomatous polyposis coli gene. Cell. 1991 Aug 09; 66(3):589-600. PMID: 1651174.
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    151. Joslyn G, Carlson M, Thliveris A, Albertsen H, Gelbert L, Samowitz W, Groden J, Stevens J, Spirio L, Robertson M. Identification of deletion mutations and three new genes at the familial polyposis locus. Cell. 1991 Aug 09; 66(3):601-13. PMID: 1678319.
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    152. Tabas JA, Zasloff M, Wasmuth JJ, Emanuel BS, Altherr MR, McPherson JD, Wozney JM, Kaplan FS. Bone morphogenetic protein: chromosomal localization of human genes for BMP1, BMP2A, and BMP3. Genomics. 1991 Feb; 9(2):283-9. PMID: 2004778.
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    153. Walton DJ, McPherson JD, Shilton BH. Fructose mediated crosslinking of proteins. Prog Clin Biol Res. 1989; 304:163-70. PMID: 2506560.
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    154. McPherson JD, Shilton BH, Walton DJ. Evidence for glycation of horse liver alcohol dehydrogenase in vivo. Biochem Biophys Res Commun. 1988 Apr 29; 152(2):711-6. PMID: 3365248.
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    155. McPherson JD, Shilton BH, Walton DJ. Role of fructose in glycation and cross-linking of proteins. Biochemistry. 1988 Mar 22; 27(6):1901-7. PMID: 3132203.
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    156. Walton DJ, McPherson JD. Analysis of glycated amino acids by high-performance liquid chromatography of phenylthiocarbamyl derivatives. Anal Biochem. 1987 Aug 01; 164(2):547-53. PMID: 3674400.
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    157. Walton DJ, McPherson JD. Non-enzymic glycation of proteins: analysis of N-(1-deoxyhexitol-1-yl)amino acids by high-performance liquid chromatography. Carbohydr Res. 1986 Oct 01; 153(2):285-93. PMID: 3779697.
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