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    Conboy, John

    TitleBiophysicist Staff Sci/Engr
    SchoolLawrence Berkeley National Lab
    DepartmentBiological Systems & Eng
    Address1 Cyclotron Road
    Berkeley CA 94720
    Phone510/486-6973
    vCardDownload vCard

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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. Conboy J. RNA splicing during terminal erythropoiesis. Curr Opin Hematol. 2017 Jan 21. PMID: 28118223.
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      2. Conboy J. Developmental regulation of RNA processing by Rbfox proteins. Wiley Interdiscip Rev RNA. 2016 Oct 17. PMID: 27748060.
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      3. Pimentel H, Parra M, Gee SL, Mohandas N, Pachter L, Conboy J. A dynamic intron retention program enriched in RNA processing genes regulates gene expression during terminal erythropoiesis. Nucleic Acids Res. 2016 Jan 29; 44(2):838-51. PMID: 26531823.
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      4. Pimentel H, Parra M, Gee S, Ghanem D, An X, Li J, Mohandas N, Pachter L, Conboy J. A dynamic alternative splicing program regulates gene expression during terminal erythropoiesis. Nucleic Acids Res. 2014 Apr 1; 42(6):4031-42. PMID: 24442673.
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      5. Lovci MT, Ghanem D, Marr H, Arnold J, Gee S, Parra M, Liang TY, Stark TJ, Gehman LT, Hoon S, Massirer KB, Pratt GA, Black DL, Gray JW, Conboy J, Yeo GW. Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges. Nat Struct Mol Biol. 2013 Dec; 20(12):1434-42. PMID: 24213538.
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      6. Parra MK, Gallagher TL, Amacher SL, Mohandas N, Conboy J. Deep intron elements mediate nested splicing events at consecutive AG dinucleotides to regulate alternative 3' splice site choice in vertebrate 4.1 genes. Mol Cell Biol. 2012 Jun; 32(11):2044-53. PMID: 22473990.
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      7. Gallagher TL, Arribere JA, Geurts PA, Exner CR, McDonald KL, Dill KK, Marr HL, Adkar SS, Garnett AT, Amacher SL, Conboy J. Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions. Dev Biol. 2011 Nov 15; 359(2):251-61. PMID: 21925157.
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      8. Chen L, Hughes RA, Baines AJ, Conboy J, Mohandas N, An X. Protein 4.1R regulates cell adhesion, spreading, migration and motility of mouse keratinocytes by modulating surface expression of beta1 integrin. J Cell Sci. 2011 Jul 15; 124(Pt 14):2478-87. PMID: 21693581.
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      9. Yang S, Weng H, Chen L, Guo X, Parra M, Conboy J, Debnath G, Lambert AJ, Peters LL, Baines AJ, Mohandas N, An X. Lack of protein 4.1G causes altered expression and localization of the cell adhesion molecule nectin-like 4 in testis and can cause male infertility. Mol Cell Biol. 2011 Jun; 31(11):2276-86. PMID: 21482674.
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      10. Smith KA, Conboy J. Using micropatterned lipid bilayer arrays to measure the effect of membrane composition on merocyanine 540 binding. Biochim Biophys Acta. 2011 Jun; 1808(6):1611-7. PMID: 21376014.
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      11. Parra MK, Gee S, Mohandas N, Conboy J. Efficient in vivo manipulation of alternative pre-mRNA splicing events using antisense morpholinos in mice. J Biol Chem. 2011 Feb 25; 286(8):6033-9. PMID: 21156798.
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      12. Wang H, Liu C, Debnath G, Baines AJ, Conboy J, Mohandas N, An X. Comprehensive characterization of expression patterns of protein 4.1 family members in mouse adrenal gland: implications for functions. Histochem Cell Biol. 2010 Oct; 134(4):411-20. PMID: 20890708.
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      13. Lapuk A, Marr H, Jakkula L, Pedro H, Bhattacharya S, Purdom E, Hu Z, Simpson K, Pachter L, Durinck S, Wang N, Parvin B, Fontenay G, Speed T, Garbe J, Stampfer M, Bayandorian H, Dorton S, Clark TA, Schweitzer A, Wyrobek A, Feiler H, Spellman P, Conboy J, Gray JW. Exon-level microarray analyses identify alternative splicing programs in breast cancer. Mol Cancer Res. 2010 Jul; 8(7):961-74. PMID: 20605923.
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      14. Yamamoto ML, Clark TA, Gee SL, Kang JA, Schweitzer AC, Wickrema A, Conboy J. Alternative pre-mRNA splicing switches modulate gene expression in late erythropoiesis. Blood. 2009 Apr 2; 113(14):3363-70. PMID: 19196664.
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      15. Purdom E, Simpson KM, Robinson MD, Conboy J, Lapuk AV, Speed TP. FIRMA: a method for detection of alternative splicing from exon array data. Bioinformatics. 2008 Aug 1; 24(15):1707-14. PMID: 18573797.
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      16. Parra MK, Tan JS, Mohandas N, Conboy J. Intrasplicing coordinates alternative first exons with alternative splicing in the protein 4.1R gene. EMBO J. 2008 Jan 9; 27(1):122-31. PMID: 18079699.
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      17. Das D, Clark TA, Schweitzer A, Yamamoto M, Marr H, Arribere J, Minovitsky S, Poliakov A, Dubchak I, Blume JE, Conboy J. A correlation with exon expression approach to identify cis-regulatory elements for tissue-specific alternative splicing. Nucleic Acids Res. 2007; 35(14):4845-57. PMID: 17626050.
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      18. Ponthier JL, Schluepen C, Chen W, Lersch RA, Gee SL, Hou VC, Lo AJ, Short SA, Chasis JA, Winkelmann JC, Conboy J. Fox-2 splicing factor binds to a conserved intron motif to promote inclusion of protein 4.1R alternative exon 16. J Biol Chem. 2006 May 5; 281(18):12468-74. PMID: 16537540.
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      19. Tan JS, Mohandas N, Conboy J. High frequency of alternative first exons in erythroid genes suggests a critical role in regulating gene function. Blood. 2006 Mar 15; 107(6):2557-61. PMID: 16293607.
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      20. Tan JS, Mohandas N, Conboy J. Evolutionarily conserved coupling of transcription and alternative splicing in the EPB41 (protein 4.1R) and EPB41L3 (protein 4.1B) genes. Genomics. 2005 Dec; 86(6):701-7. PMID: 16242908.
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      21. Minovitsky S, Gee SL, Schokrpur S, Dubchak I, Conboy J. The splicing regulatory element, UGCAUG, is phylogenetically and spatially conserved in introns that flank tissue-specific alternative exons. Nucleic Acids Res. 2005; 33(2):714-24. PMID: 15691898.
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      22. Gascard P, Parra MK, Zhao Z, Calinisan VR, Nunomura W, Rivkees SA, Mohandas N, Conboy J. Putative tumor suppressor protein 4.1B is differentially expressed in kidney and brain via alternative promoters and 5' alternative splicing. Biochim Biophys Acta. 2004 Oct 21; 1680(2):71-82. PMID: 15488987.
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      23. Parra M, Gee S, Chan N, Ryaboy D, Dubchak I, Mohandas N, Gascard PD, Conboy J. Differential domain evolution and complex RNA processing in a family of paralogous EPB41 (protein 4.1) genes facilitate expression of diverse tissue-specific isoforms. Genomics. 2004 Oct; 84(4):637-46. PMID: 15475241.
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      24. Ramez M, Blot-Chabaud M, Cluzeaud F, Chanan S, Patterson M, Walensky LD, Marfatia S, Baines AJ, Chasis JA, Conboy J, Mohandas N, Gascard P. Distinct distribution of specific members of protein 4.1 gene family in the mouse nephron. Kidney Int. 2003 Apr; 63(4):1321-37. PMID: 12631349.
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      25. Parra MK, Gee SL, Koury MJ, Mohandas N, Conboy J. Alternative 5' exons and differential splicing regulate expression of protein 4.1R isoforms with distinct N-termini. Blood. 2003 May 15; 101(10):4164-71. PMID: 12522012.
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      26. Hou VC, Lersch R, Gee SL, Ponthier JL, Lo AJ, Wu M, Turck CW, Koury M, Krainer AR, Mayeda A, Conboy J. Decrease in hnRNP A/B expression during erythropoiesis mediates a pre-mRNA splicing switch. EMBO J. 2002 Nov 15; 21(22):6195-204. PMID: 12426391.
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      27. Brudno M, Gelfand MS, Spengler S, Zorn M, Dubchak I, Conboy J. Computational analysis of candidate intron regulatory elements for tissue-specific alternative pre-mRNA splicing. Nucleic Acids Res. 2001 Jun 1; 29(11):2338-48. PMID: 11376152.
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      28. Hou VC, Conboy J. Regulation of alternative pre-mRNA splicing during erythroid differentiation. Curr Opin Hematol. 2001 Mar; 8(2):74-9. PMID: 11224680.
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      29. Nunomura W, Takakuwa Y, Parra M, Conboy J, Mohandas N. Regulation of protein 4.1R, p55, and glycophorin C ternary complex in human erythrocyte membrane. J Biol Chem. 2000 Aug 11; 275(32):24540-6. PMID: 10831591.
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      30. Nunomura W, Takakuwa Y, Parra M, Conboy J, Mohandas N. Ca(2+)-dependent and Ca(2+)-independent calmodulin binding sites in erythrocyte protein 4.1. Implications for regulation of protein 4.1 interactions with transmembrane proteins. J Biol Chem. 2000 Mar 3; 275(9):6360-7. PMID: 10692436.
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      31. Parra M, Gascard P, Walensky LD, Gimm JA, Blackshaw S, Chan N, Takakuwa Y, Berger T, Lee G, Chasis JA, Snyder SH, Mohandas N, Conboy J. Molecular and functional characterization of protein 4.1B, a novel member of the protein 4.1 family with high level, focal expression in brain. J Biol Chem. 2000 Feb 4; 275(5):3247-55. PMID: 10652311.
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      32. Gee SL, Aoyagi K, Lersch R, Hou V, Wu M, Conboy J. Alternative splicing of protein 4.1R exon 16: ordered excision of flanking introns ensures proper splice site choice. Blood. 2000 Jan 15; 95(2):692-9. PMID: 10627481.
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      33. Walensky LD, Blackshaw S, Liao D, Watkins CC, Weier HU, Parra M, Huganir RL, Conboy J, Mohandas N, Snyder SH. A novel neuron-enriched homolog of the erythrocyte membrane cytoskeletal protein 4.1. J Neurosci. 1999 Aug 1; 19(15):6457-67. PMID: 10414974.
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      34. Gascard P, Nunomura W, Lee G, Walensky LD, Krauss SW, Takakuwa Y, Chasis JA, Mohandas N, Conboy J. Deciphering the nuclear import pathway for the cytoskeletal red cell protein 4.1R. Mol Biol Cell. 1999 Jun; 10(6):1783-98. PMID: 10359596.
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      35. Shi ZT, Afzal V, Coller B, Patel D, Chasis JA, Parra M, Lee G, Paszty C, Stevens M, Walensky L, Peters LL, Mohandas N, Rubin E, Conboy J. Protein 4.1R-deficient mice are viable but have erythroid membrane skeleton abnormalities. J Clin Invest. 1999 Feb; 103(3):331-40. PMID: 9927493.
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      36. Conboy J. The role of alternative pre-mRNA splicing in regulating the structure and function of skeletal protein 4.1. Proc Soc Exp Biol Med. 1999 Feb; 220(2):73-8. PMID: 10049099.
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      37. Peters LL, Weier HU, Walensky LD, Snyder SH, Parra M, Mohandas N, Conboy J. Four paralogous protein 4.1 genes map to distinct chromosomes in mouse and human. Genomics. 1998 Dec 1; 54(2):348-50. PMID: 9828140.
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      38. Gascard P, Lee G, Coulombel L, Auffray I, Lum M, Parra M, Conboy J, Mohandas N, Chasis JA. Characterization of multiple isoforms of protein 4.1R expressed during erythroid terminal differentiation. Blood. 1998 Dec 1; 92(11):4404-14. PMID: 9834247.
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      39. Walensky LD, Shi ZT, Blackshaw S, DeVries AC, Demas GE, Gascard P, Nelson RJ, Conboy J, Rubin EM, Snyder SH, Mohandas N. Neurobehavioral deficits in mice lacking the erythrocyte membrane cytoskeletal protein 4.1. Curr Biol. 1998 Nov 19; 8(23):1269-72. PMID: 9822582.
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      40. Chishti AH, Kim AC, Marfatia SM, Lutchman M, Hanspal M, Jindal H, Liu SC, Low PS, Rouleau GA, Mohandas N, Chasis JA, Conboy J, Gascard P, Takakuwa Y, Huang SC, Benz EJ, Bretscher A, Fehon RG, Gusella JF, Ramesh V, Solomon F, Marchesi VT, Tsukita S, Tsukita S, Hoover KB. The FERM domain: a unique module involved in the linkage of cytoplasmic proteins to the membrane. Trends Biochem Sci. 1998 Aug; 23(8):281-2. PMID: 9757824.
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      41. Parra M, Gascard P, Walensky LD, Snyder SH, Mohandas N, Conboy J. Cloning and characterization of 4.1G (EPB41L2), a new member of the skeletal protein 4.1 (EPB41) gene family. Genomics. 1998 Apr 15; 49(2):298-306. PMID: 9598318.
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      42. Walensky LD, Gascard P, Fields ME, Blackshaw S, Conboy J, Mohandas N, Snyder SH. The 13-kD FK506 binding protein, FKBP13, interacts with a novel homologue of the erythrocyte membrane cytoskeletal protein 4.1. J Cell Biol. 1998 Apr 6; 141(1):143-53. PMID: 9531554.
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      43. Gee S, Krauss SW, Miller E, Aoyagi K, Arenas J, Conboy J. Cloning of mDEAH9, a putative RNA helicase and mammalian homologue of Saccharomyces cerevisiae splicing factor Prp43. Proc Natl Acad Sci U S A. 1997 Oct 28; 94(22):11803-7. PMID: 9342318.
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      44. Schischmanoff PO, Yaswen P, Parra MK, Lee G, Chasis JA, Mohandas N, Conboy J. Cell shape-dependent regulation of protein 4.1 alternative pre-mRNA splicing in mammary epithelial cells. J Biol Chem. 1997 Apr 11; 272(15):10254-9. PMID: 9092575.
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      45. Chasis JA, Coulombel L, McGee S, Lee G, Tchernia G, Conboy J, Mohandas N. Differential use of protein 4.1 translation initiation sites during erythropoiesis: implications for a mutation-induced stage-specific deficiency of protein 4.1 during erythroid development. Blood. 1996 Jun 15; 87(12):5324-31. PMID: 8652848.
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      46. Winardi R, Discher D, Kelley C, Zon L, Mays K, Mohandas N, Conboy J. Evolutionarily conserved alternative pre-mRNA splicing regulates structure and function of the spectrin-actin binding domain of erythroid protein 4.1. Blood. 1995 Dec 1; 86(11):4315-22. PMID: 7492792.
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      47. Schischmanoff PO, Winardi R, Discher DE, Parra MK, Bicknese SE, Witkowska HE, Conboy J, Mohandas N. Defining of the minimal domain of protein 4.1 involved in spectrin-actin binding. J Biol Chem. 1995 Sep 8; 270(36):21243-50. PMID: 7673158.
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      48. Discher DE, Winardi R, Schischmanoff PO, Parra M, Conboy J, Mohandas N. Mechanochemistry of protein 4.1's spectrin-actin-binding domain: ternary complex interactions, membrane binding, network integration, structural strengthening. J Cell Biol. 1995 Aug; 130(4):897-907. PMID: 7642705.
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      49. Gee SL, Conboy J. Mouse erythroid cells express multiple putative RNA helicase genes exhibiting high sequence conservation from yeast to mammals. Gene. 1994 Mar 25; 140(2):171-7. PMID: 8144024.
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      50. Winardi R, Reid M, Conboy J, Mohandas N. Molecular analysis of glycophorin C deficiency in human erythrocytes. Blood. 1993 May 15; 81(10):2799-803. PMID: 7683929.
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      51. Discher D, Parra M, Conboy J, Mohandas N. Mechanochemistry of the alternatively spliced spectrin-actin binding domain in membrane skeletal protein 4.1. J Biol Chem. 1993 Apr 5; 268(10):7186-95. PMID: 8463254.
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      52. Chasis JA, Coulombel L, Conboy J, McGee S, Andrews K, Kan YW, Mohandas N. Differentiation-associated switches in protein 4.1 expression. Synthesis of multiple structural isoforms during normal human erythropoiesis. J Clin Invest. 1993 Jan; 91(1):329-38. PMID: 8423229.
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      53. Conboy J, Chasis JA, Winardi R, Tchernia G, Kan YW, Mohandas N. An isoform-specific mutation in the protein 4.1 gene results in hereditary elliptocytosis and complete deficiency of protein 4.1 in erythrocytes but not in nonerythroid cells. J Clin Invest. 1993 Jan; 91(1):77-82. PMID: 8423235.
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      54. Conboy J. Structure, function, and molecular genetics of erythroid membrane skeletal protein 4.1 in normal and abnormal red blood cells. Semin Hematol. 1993 Jan; 30(1):58-73. PMID: 8434260.
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      55. Conboy J, Cox TC, Bottomley SS, Bawden MJ, May BK. Human erythroid 5-aminolevulinate synthase. Gene structure and species-specific differences in alternative RNA splicing. J Biol Chem. 1992 Sep 15; 267(26):18753-8. PMID: 1527005.
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      56. Mohandas N, Winardi R, Knowles D, Leung A, Parra M, George E, Conboy J, Chasis J. Molecular basis for membrane rigidity of hereditary ovalocytosis. A novel mechanism involving the cytoplasmic domain of band 3. J Clin Invest. 1992 Feb; 89(2):686-92. PMID: 1737855.
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      57. Conboy J, Shitamoto R, Parra M, Winardi R, Kabra A, Smith J, Mohandas N. Hereditary elliptocytosis due to both qualitative and quantitative defects in membrane skeletal protein 4.1. Blood. 1991 Nov 1; 78(9):2438-43. PMID: 1932756.
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      58. Conboy J, Chan JY, Chasis JA, Kan YW, Mohandas N. Tissue- and development-specific alternative RNA splicing regulates expression of multiple isoforms of erythroid membrane protein 4.1. J Biol Chem. 1991 May 5; 266(13):8273-80. PMID: 2022644.
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      59. Chang S, Reid ME, Conboy J, Kan YW, Mohandas N. Molecular characterization of erythrocyte glycophorin C variants. Blood. 1991 Feb 1; 77(3):644-8. PMID: 1991173.
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      60. Marchesi SL, Conboy J, Agre P, Letsinger JT, Marchesi VT, Speicher DW, Mohandas N. Molecular analysis of insertion/deletion mutations in protein 4.1 in elliptocytosis. I. Biochemical identification of rearrangements in the spectrin/actin binding domain and functional characterizations. J Clin Invest. 1990 Aug; 86(2):516-23. PMID: 2384597.
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      61. Conboy J, Marchesi S, Kim R, Agre P, Kan YW, Mohandas N. Molecular analysis of insertion/deletion mutations in protein 4.1 in elliptocytosis. II. Determination of molecular genetic origins of rearrangements. J Clin Invest. 1990 Aug; 86(2):524-30. PMID: 2384598.
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      62. Reid ME, Takakuwa Y, Conboy J, Tchernia G, Mohandas N. Glycophorin C content of human erythrocyte membrane is regulated by protein 4.1. Blood. 1990 Jun 1; 75(11):2229-34. PMID: 2346783.
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      63. Lambert S, Conboy J, Zail S. A molecular study of heterozygous protein 4.1 deficiency in hereditary elliptocytosis. Blood. 1988 Dec; 72(6):1926-9. PMID: 3058231.
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      64. Conboy J, Chan J, Mohandas N, Kan YW. Multiple protein 4.1 isoforms produced by alternative splicing in human erythroid cells. Proc Natl Acad Sci U S A. 1988 Dec; 85(23):9062-5. PMID: 3194408.
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      65. Prchal JT, Morley BJ, Yoon SH, Coetzer TL, Palek J, Conboy J, Kan YW. Isolation and characterization of cDNA clones for human erythrocyte beta-spectrin. Proc Natl Acad Sci U S A. 1987 Nov; 84(21):7468-72. PMID: 3478706.
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      66. Conboy J. Molecular cloning and characterization of the gene coding for red cell membrane skeletal protein 4.1. Biorheology. 1987; 24(6):673-87. PMID: 3332082.
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      67. Conboy J, Kan YW, Shohet SB, Mohandas N. Molecular cloning of protein 4.1, a major structural element of the human erythrocyte membrane skeleton. Proc Natl Acad Sci U S A. 1986 Dec; 83(24):9512-6. PMID: 3467321.
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      68. Conboy J, Mohandas N, Tchernia G, Kan YW. Molecular basis of hereditary elliptocytosis due to protein 4.1 deficiency. N Engl J Med. 1986 Sep 11; 315(11):680-5. PMID: 3755799.
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      69. Kolansky DM, Conboy J, Fenton WA, Rosenberg LE. Energy-dependent translocation of the precursor of ornithine transcarbamylase by isolated rat liver mitochondria. J Biol Chem. 1982 Jul 25; 257(14):8467-71. PMID: 7085676.
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