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Halina Ewa Witkowski, PhD

TitleNON-SENATE ACAD EMERITUS(WOS)
SchoolUCSF School of Medicine
DepartmentOb/Gyn, Reproductive Sciences
Address35 Medical Center Way
San Francisco CA 94143
Phone415-502-4019
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    Collapse Research 
    Collapse Research Activities and Funding
    Structural Characterization of Polypeptides, Protein Complexes, Oligosaccharides
    NIH S10RR029446May 27, 2010 - May 26, 2012
    Role: Principal Investigator

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    Collapse Publications
    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. Walian PJ, Allen S, Shatsky M, Zeng L, Szakal ED, Liu H, Hall SC, Fisher SJ, Lam BR, Singer ME, Geller JT, Brenner SE, Chandonia JM, Hazen TC, Witkowska HE, Biggin MD, Jap BK. High-throughput isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris. J Proteome Res. 2012 Dec 7; 11(12):5720-35. PMID: 23098413; PMCID: PMC3516867.
    2. Drake PM, Schilling B, Niles RK, Prakobphol A, Li B, Jung K, Cho W, Braten M, Inerowicz HD, Williams K, Albertolle M, Held JM, Iacovides D, Sorensen DJ, Griffith OL, Johansen E, Zawadzka AM, Cusack MP, Allen S, Gormley M, Hall SC, Witkowska HE, Gray JW, Regnier F, Gibson BW, Fisher SJ. Lectin chromatography/mass spectrometry discovery workflow identifies putative biomarkers of aggressive breast cancers. J Proteome Res. 2012 Apr 6; 11(4):2508-20. PMID: 22309216; PMCID: PMC3383053.
    3. Huang Y, Goldberg M, Le T, Qiang R, Warner D, Witkowska HE, Liu H, Zhu L, Denbesten P, and Li W. . Cells Tissues Organs. Amelogenin Exons 8 and 9 Encoded Peptide Enhances Leucine Rich Amelogenin Peptide Mediated Dental Pulp Repair. 2012; 198(2):151-60.
    4. Roan NR, Müller JA, Liu H, Chu S, Arnold F, Stürzel CM, Walther P, Dong M, Witkowska HE, Kirchhoff F, Münch J, Greene WC. Peptides released by physiological cleavage of semen coagulum proteins form amyloids that enhance HIV infection. Cell Host Microbe. 2011 Dec 15; 10(6):541-50. PMID: 22177559; PMCID: PMC3257029.
    5. Witkowska HE, Hall SC, Fisher SJ. Breaking the bottleneck in the protein biomarker pipeline. Clin Chem. 2012 Feb; 58(2):321-3. PMID: 22140214.
      View in: PubMed
    6. Price MN, Deutschbauer AM, Kuehl JV, Liu H, Witkowska HE, Arkin AP. Evidence-based annotation of transcripts and proteins in the sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. J Bacteriol. 2011 Oct; 193(20):5716-27. PMID: 21840973; PMCID: PMC3187205.
    7. Liu H, Yang L, Khainovski N, Dong M, Hall SC, Fisher SJ, Biggin MD, Jin J, Witkowska HE. Automated iterative MS/MS acquisition: a tool for improving efficiency of protein identification using a LC-MALDI MS workflow. Anal Chem. 2011 Aug 15; 83(16):6286-93. PMID: 21761829.
      View in: PubMed
    8. Falick AM, Lane WS, Lilley KS, MacCoss MJ, Phinney BS, Sherman NE, Weintraub ST, Witkowska HE, Yates NA. ABRF-PRG07: advanced quantitative proteomics study. J Biomol Tech. 2011 Apr; 22(1):21-6. PMID: 21455478; PMCID: PMC3059538.
    9. Friedman DB, Andacht TM, Bunger MK, Chien AS, Hawke DH, Krijgsveld J, Lane WS, Lilley KS, MacCoss MJ, Moritz RL, Settlage RE, Sherman NE, Weintraub ST, Witkowska HE, Yates NA, Turck CW. The ABRF Proteomics Research Group studies: educational exercises for qualitative and quantitative proteomic analyses. Proteomics. 2011 Apr; 11(8):1371-81. PMID: 21394914.
      View in: PubMed
    10. Denbesten PK, Zhu L, Li W, Tanimoto K, Liu H, and Witkowska HE. Eur J Oral Sci. Fluoride incorporation into apatite crystals delays amelogenin hydrolysis. 2011; 2011(Suppl 1):3-7.
    11. Uskokovic V, Khan F, Liu H, Witkowska HE, Zhu L, Li W, and Habelitz S. . Arch Oral Biol. Hydrolysis of amelogenin by matrix metalloprotease-20 accelerates mineralization in vitro. 2011; 56(12):1548-1559.
    12. Drake PM, Schilling B, Niles RK, Braten M, Johansen E, Liu H, Lerch M, Sorensen DJ, Li B, Allen S, Hall SC, Witkowska HE, Regnier FE, Gibson BW, Fisher SJ. A lectin affinity workflow targeting glycosite-specific, cancer-related carbohydrate structures in trypsin-digested human plasma. Anal Biochem. 2011 Jan 1; 408(1):71-85. PMID: 20705048; PMCID: PMC3205961.
    13. Han BG, Dong M, Liu H, Camp L, Geller J, Singer M, Hazen TC, Choi M, Witkowska HE, Ball DA, Typke D, Downing KH, Shatsky M, Brenner SE, Chandonia JM, Biggin MD, Glaeser RM. Survey of large protein complexes in D. vulgaris reveals great structural diversity. Proc Natl Acad Sci U S A. 2009 Sep 29; 106(39):16580-5. PMID: 19805340; PMCID: PMC2742403.
    14. Meima ME, Webb BA, Witkowska HE, Barber DL. The sodium-hydrogen exchanger NHE1 is an Akt substrate necessary for actin filament reorganization by growth factors. J Biol Chem. 2009 Sep 25; 284(39):26666-75. PMID: 19622752; PMCID: PMC2785354.
    15. Niles R, Witkowska HE, Allen S, Hall SC, Fisher SJ, Hardt M. Acid-catalyzed oxygen-18 labeling of peptides. Anal Chem. 2009 Apr 1; 81(7):2804-9. PMID: 19243188; PMCID: PMC2892872.
    16. Vazquez J, Hall SC, Witkowska HE, Greco MA. Rapid alterations in cortical protein profiles underlie spontaneous sleep and wake bouts. J Cell Biochem. 2008 Dec 15; 105(6):1472-84. PMID: 19003977.
      View in: PubMed
    17. Denny P, Hagen FK, Hardt M, Liao L, Yan W, Arellanno M, Bassilian S, Bedi GS, Boontheung P, Cociorva D, Delahunty CM, Denny T, Dunsmore J, Faull KF, Gilligan J, Gonzalez-Begne M, Halgand F, Hall SC, Han X, Henson B, Hewel J, Hu S, Jeffrey S, Jiang J, Loo JA, Ogorzalek Loo RR, Malamud D, Melvin JE, Miroshnychenko O, Navazesh M, Niles R, Park SK, Prakobphol A, Ramachandran P, Richert M, Robinson S, Sondej M, Souda P, Sullivan MA, Takashima J, Than S, Wang J, Whitelegge JP, Witkowska HE, Wolinsky L, Xie Y, Xu T, Yu W, Ytterberg J, Wong DT, Yates JR, Fisher SJ. The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions. J Proteome Res. 2008 May; 7(5):1994-2006. PMID: 18361515; PMCID: PMC2839126.
    18. Dong M, Yang LL, Williams K, Fisher SJ, Hall SC, Biggin MD, Jin J, Witkowska HE. A "tagless" strategy for identification of stable protein complexes genome-wide by multidimensional orthogonal chromatographic separation and iTRAQ reagent tracking. J Proteome Res. 2008 May; 7(5):1836-49. PMID: 18336004.
      View in: PubMed
    19. Robinson S, Niles RK, Witkowska HE, Rittenbach KJ, Nichols RJ, Sargent JA, Dixon SE, Prakobphol A, Hall SC, Fisher SJ, Hardt M. A mass spectrometry-based strategy for detecting and characterizing endogenous proteinase activities in complex biological samples. Proteomics. 2008 Feb; 8(3):435-45. PMID: 18186022.
      View in: PubMed
    20. Tanimoto K, Le T, Zhu L, Witkowska HE, Robinson S, Hall S, Hwang P, Denbesten P, and Li Wu. J Dent Res. Reduced amelogenin-MMP20 interactions in amelogenesis imperfecta. 2008; 87(5):451-55.
    21. Witkowska HE, Bialy Z, Jurzysta M, and Waller GR. Natural Product Communications. Analysis of saponin mixtures from Alfaalfa (Medicago sativa L.) roots using mass spectrometry with Maldi techniques. 2008; 3(9):1395-1410.
    22. Garczarek F, Dong M, Typke D, Witkowska HE, Hazen TC, Nogales E, Biggin MD, Glaeser RM. Octomeric pyruvate-ferredoxin oxidoreductase from Desulfovibrio vulgaris. J Struct Biol. 2007 Jul; 159(1):9-18. PMID: 17400475.
      View in: PubMed
    23. Peters-Libeu CA, Newhouse Y, Hall SC, Witkowska HE, Weisgraber KH. Apolipoprotein E*dipalmitoylphosphatidylcholine particles are ellipsoidal in solution. J Lipid Res. 2007 May; 48(5):1035-44. PMID: 17308333.
      View in: PubMed
    24. Chiu YL, Witkowska HE, Hall SC, Santiago M, Soros VB, Esnault C, Heidmann T, Greene WC. High-molecular-mass APOBEC3G complexes restrict Alu retrotransposition. Proc Natl Acad Sci U S A. 2006 Oct 17; 103(42):15588-93. PMID: 17030807; PMCID: PMC1592537.
    25. Hardt M, Witkowska HE, Webb S, Thomas LR, Dixon SE, Hall SC, Fisher SJ. Assessing the effects of diurnal variation on the composition of human parotid saliva: quantitative analysis of native peptides using iTRAQ reagents. Anal Chem. 2005 Aug 1; 77(15):4947-54. PMID: 16053308.
      View in: PubMed
    26. Hardt M, Thomas LR, Dixon SE, Newport G, Agabian N, Prakobphol A, Hall SC, Witkowska HE, Fisher SJ. Toward defining the human parotid gland salivary proteome and peptidome: identification and characterization using 2D SDS-PAGE, ultrafiltration, HPLC, and mass spectrometry. Biochemistry. 2005 Mar 1; 44(8):2885-99. PMID: 15723531.
      View in: PubMed
    27. Witkowski H, Ghosal A, Joshi AK, Witkowska HE, Asturias FJ, Smith S. Head-to-head coiled arrangement of the subunits of the animal fatty acid synthase. Chem Biol. 2004 Dec; 11(12):1667-76. PMID: 15610851.
      View in: PubMed
    28. Brownlie A, Hersey C, Oates AC, Paw BH, Falick AM, Witkowska HE, Flint J, Higgs D, Jessen J, Bahary N, Zhu H, Lin S, Zon L. Characterization of embryonic globin genes of the zebrafish. Dev Biol. 2003 Mar 1; 255(1):48-61. PMID: 12618133.
      View in: PubMed
    29. Zhang X, Medzihradszky KF, Cunningham J, Lee PD, Rognerud CL, Ou CN, Harmatz P, and Witkowska HE. J Chromatogr B Biomed Sci Appl. Characterization of glycated hemoglobin in diabetic patients: usefulness of electrospray mass spectrometry in monitoring the extent and distribution of glycation. 2001; 759(1):1-15.
    30. Perkins AC, Peterson KR, Stamatoyannopoulos G, Witkowska HE, and Orkin SH. Blood. Fetal expression of a human Agamma globin transgene rescues globin chain imbalance but not hemolysis in EKLF null mouse embryos. 2000; 95(5):1827-33.
    31. Witkowski H, Joshi AK, Rangan VS, Falick AM, Witkowska HE, and Smith S. . J Biol Chem. Dibromopropanone cross-linking of the phosphopantetheine and active-site cysteine thiols of the animal fatty acid synthase can occur both inter- and intrasubunit. Reevaluation of the side-by-side, antiparallel subunit model. 1999; 247(17):11557-63.
    32. Brownlie A, Donovan A, Pratt SJ, Paw BH, Oates AC, Brugnara C, Witkowska HE, Sassa S, and Zon LI. . Nat Genet. Positional cloning of the zebrafish sauternes gene: a model for congenital sideroblastic anaemia. 1998; 20(3):244-50.
    33. Paszty C, Brion CM, Manci E, Witkowska HE, Stevens ME, Mohandas N, and Rubin EM. . Science. Transgenic knockout mice with exclusively human sickle hemoglobin and sickle cell disease. 1997; 278(5339):876-8.
    34. Witkowska HE, Carlquist M, Engstrom O, Carlsson B, Bonn T, Gustafsson JA, and Shackleton CH. . Steroids. Characterization of bacterially expressed rat estrogen receptor beta ligand binding domain by mass spectrometry: structural comparison with estrogen receptor alpha. 1997; 62(8-9):621-31.
    35. Porcu S, Kitamura M, Witkowska E, Zhang Z, Mutero A, Lin C, Chang J, and Gaensler KM. Blood. The human beta globin locus introduced by YAC transfer exhibits a specific and reproducible pattern of developmental regulation in transgenic mice. 1997; 90(11):4602-9.
    36. Chan FY, Robinson J, Brownlie A, Shivdasani RA, Donovan A, Brugnara C, Kim J, Lau BC, Witkowska HE, and Zon LI. Blood. Characterization of adult alpha- and beta-globin genes in the zebrafish. 1997; 89(2):688-700.
    37. Hirsch RE, Witkowska HE, Shafer F, Lin MJ, Balazs TC, Bookchin RM, and Nagel RL. . Br J Haematol. HbC compound heterozygotes [HbC/Hb Riyadh and HbC/Hb N-Baltimore] with opposing effects upon HbC crystallization. 1997; 97(2):259-65.
    38. Yamaguchi T, Pang J, Reddy KS, Witkowska HE, Surrey S, and Adachi K. . J Biol Chem. Expression of soluble human beta-globin chains in bacteria and assembly in vitro with alpha-globin chains. 1996; 271(43):26677-83.
    39. Shackleton CH, and Witkowska HE. . Anal Chem. Characterizing abnormal hemoglobin by MS. 1996; 68(1):29A-33A.
    40. Witkowska HE,Shackleton CHL, Dahlman-Wright K, Kim JY, Gustaffson JA. (1995) . J Am Chem Soc,. Mass spectrometric analysis of a native zinc finger structure: the glucocorticoid receptor DNA binding domain. 1995; 117:3319-24.
    41. Witkowska HE, Green BN, Morris M, and Shackleton CH. Rapid Commun Mass Spectrom. Intact protein electrospray ionization tandem mass spectrometry can be the sole technique used for confirming the structure of a variant hemoglobin. 1995; (Spec):S111-S115.
    42. Randhawa ZI, Witkowska HE, Cone J, Wilkins JA, Hughes P, Yamanishi K, Yasuda S, Masui Y, Arthur P, Kletke C, and et al. . Biochemistry. Incorporation of norleucine at methionine positions in recombinant human macrophage colony stimulating factor (M-CSF, 4-153) expressed in Escherichia coli: structural analysis. 1994; 34(14):4352-62.
    43. Witkowska HE, Bitsch F, and Shackleton CH. Hemoglobin. Expediting rare variant hemoglobin characterization by combined HPLC/electrospray mass spectrometry. 1993; 17(3):227-42.
    44. Wilkins JA, Cone J, Randhawa ZI, Wood D, Warren MK, and Witkowska HE. Protein Sci. A study of intermediates involved in the folding pathway for recombinant human macrophage colony-stimulating factor (M-CSF): evidence for two distinct folding pathways. 1993; 2(2):244-54.
    45. Perrine SP, Ginder GD, Faller DV, Dover GH, Ikuta T, Witkowska HE, Cai SP, Vichinsky EP, and Olivieri NF. N Engl J Med. A short-term trial of butyrate to stimulate fetal-globin-gene expression in the beta-globin disorders. 1993; 328(2):81-6.
    46. Light-Wahl KJ, Loo JA, Edmonds CG, Smith RD, Witkowska HE, Shackleton CH, and Wu CS. Biol Mass Spectrom. Collisionally activated dissociation and tandem mass spectrometry of intact hemoglobin beta-chain variant proteins with electrospray ionization. 1993; 22(2):112-20.
    47. Rubin EM, Witkowska HE, Spangler E, Curtin P, Lubin BH, Mohandas N, and Clift SM. J Clin Invest. Hypoxia-induced in vivo sickling of transgenic mouse red cells. 1991; 87(2):639-47.
    48. Witkowska HE, Lubin BH, Beuzard Y, Baruchel S, Esseltine DW, Vichinsky EP, Kleman KM, Bardakdjian-Michau J, Pinkoski L, Cahn S, and et al. N Engl J Med. Sickle cell disease in a patient with sickle cell trait and compound heterozygosity for hemoglobin S and hemoglobin Quebec-Chori. 1991; 325(16):1150-4.
    49. Witkowska HE, Green BN, and Smith S. J Biol Chem. The carboxyl-terminal region of thioesterase II participates in the interaction with fatty acid synthase. Use of electrospray ionization mass spectrometry to identify a carboxyl-terminally truncated form of the enzyme. 1990; 265(10):5662-5.
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