Halina Ewa Witkowski, PhD

Title(s)NON-SENATE ACAD EMERITUS(WOS), Ob/Gyn, Reproductive Sciences
SchoolSchool of Medicine
Address35 Medical Center Way
San Francisco CA 94143
Phone415-502-4019
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    Collapse Research 
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    Structural Characterization of Polypeptides, Protein Complexes, Oligosaccharides
    NIH S10RR029446May 27, 2010 - May 26, 2012
    Role: Principal Investigator

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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. to make corrections and additions.
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    1. High-throughput isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris. J Proteome Res. 2012 Dec 07; 11(12):5720-35. 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, 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. PMID: 23098413; PMCID: PMC3516867.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    2. Lectin chromatography/mass spectrometry discovery workflow identifies putative biomarkers of aggressive breast cancers. J Proteome Res. 2012 Apr 06; 11(4):2508-20. 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, 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. PMID: 22309216; PMCID: PMC3383053.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansCells
    3. 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. 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. Roan NR, Müller JA, Liu H, Chu S, Arnold F, Stürzel CM, Walther P, Dong M, Witkowska HE, Kirchhoff F, Münch J, Greene WC, Roan NR, Müller JA, Liu H, Chu S, Arnold F, Stürzel CM, Walther P, Dong M, Witkowska HE, Kirchhoff F, Münch J, Greene WC. PMID: 22177559; PMCID: PMC3257029.
      View in: PubMed   Mentions: 81     Fields:    Translation:HumansCells
    5. Breaking the bottleneck in the protein biomarker pipeline. Clin Chem. 2012 Feb; 58(2):321-3. Witkowska HE, Hall SC, Fisher SJ, Witkowska HE, Hall SC, Fisher SJ. PMID: 22140214.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
    6. Evidence-based annotation of transcripts and proteins in the sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. J Bacteriol. 2011 Oct; 193(20):5716-27. Price MN, Deutschbauer AM, Kuehl JV, Liu H, Witkowska HE, Arkin AP, Price MN, Deutschbauer AM, Kuehl JV, Liu H, Witkowska HE, Arkin AP. PMID: 21840973; PMCID: PMC3187205.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    7. 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. Liu H, Yang L, Khainovski N, Dong M, Hall SC, Fisher SJ, Biggin MD, Jin J, Witkowska HE, Liu H, Yang L, Khainovski N, Dong M, Hall SC, Fisher SJ, Biggin MD, Jin J, Witkowska HE. PMID: 21761829.
      View in: PubMed   Mentions: 6     Fields:    
    8. ABRF-PRG07: advanced quantitative proteomics study. J Biomol Tech. 2011 Apr; 22(1):21-6. Falick AM, Lane WS, Lilley KS, MacCoss MJ, Phinney BS, Sherman NE, Weintraub ST, Witkowska HE, Yates NA, Falick AM, Lane WS, Lilley KS, MacCoss MJ, Phinney BS, Sherman NE, Weintraub ST, Witkowska HE, Yates NA. PMID: 21455478; PMCID: PMC3059538.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    9. The ABRF Proteomics Research Group studies: educational exercises for qualitative and quantitative proteomic analyses. Proteomics. 2011 Apr; 11(8):1371-81. 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, 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. PMID: 21394914.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    10. Arch Oral Biol. Hydrolysis of amelogenin by matrix metalloprotease-20 accelerates mineralization in vitro. 2011; 56(12):1548-1559. .
    11. Eur J Oral Sci. Fluoride incorporation into apatite crystals delays amelogenin hydrolysis. 2011; 2011(Suppl 1):3-7. .
    12. A lectin affinity workflow targeting glycosite-specific, cancer-related carbohydrate structures in trypsin-digested human plasma. Anal Biochem. 2011 Jan 01; 408(1):71-85. 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, 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. PMID: 20705048; PMCID: PMC3205961.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansCells
    13. 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. 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, 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. PMID: 19805340; PMCID: PMC2742403.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    14. 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. Meima ME, Webb BA, Witkowska HE, Barber DL, Meima ME, Webb BA, Witkowska HE, Barber DL. PMID: 19622752; PMCID: PMC2785354.
      View in: PubMed   Mentions: 39     Fields:    Translation:HumansAnimalsCells
    15. Acid-catalyzed oxygen-18 labeling of peptides. Anal Chem. 2009 Apr 01; 81(7):2804-9. Niles R, Witkowska HE, Allen S, Hall SC, Fisher SJ, Hardt M, Niles R, Witkowska HE, Allen S, Hall SC, Fisher SJ, Hardt M. PMID: 19243188; PMCID: PMC2892872.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    16. Rapid alterations in cortical protein profiles underlie spontaneous sleep and wake bouts. J Cell Biochem. 2008 Dec 15; 105(6):1472-84. Vazquez J, Hall SC, Witkowska HE, Greco MA, Vazquez J, Hall SC, Witkowska HE, Greco MA. PMID: 19003977.
      View in: PubMed   Mentions: 7     Fields:    Translation:Animals
    17. The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions. J Proteome Res. 2008 May; 7(5):1994-2006. 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, 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. PMID: 18361515; PMCID: PMC2839126.
      View in: PubMed   Mentions: 126     Fields:    Translation:Humans
    18. 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. Dong M, Yang LL, Williams K, Fisher SJ, Hall SC, Biggin MD, Jin J, Witkowska HE, Dong M, Yang LL, Williams K, Fisher SJ, Hall SC, Biggin MD, Jin J, Witkowska HE. PMID: 18336004.
      View in: PubMed   Mentions: 21     Fields:    
    19. A mass spectrometry-based strategy for detecting and characterizing endogenous proteinase activities in complex biological samples. Proteomics. 2008 Feb; 8(3):435-45. Robinson S, Niles RK, Witkowska HE, Rittenbach KJ, Nichols RJ, Sargent JA, Dixon SE, Prakobphol A, Hall SC, Fisher SJ, Hardt M, Robinson S, Niles RK, Witkowska HE, Rittenbach KJ, Nichols RJ, Sargent JA, Dixon SE, Prakobphol A, Hall SC, Fisher SJ, Hardt M. PMID: 18186022.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    20. Natural Product Communications. Analysis of saponin mixtures from Alfaalfa (Medicago sativa L.) roots using mass spectrometry with Maldi techniques. 2008; 3(9):1395-1410. .
    21. J Dent Res. Reduced amelogenin-MMP20 interactions in amelogenesis imperfecta. 2008; 87(5):451-55. .
    22. Apolipoprotein E*dipalmitoylphosphatidylcholine particles are ellipsoidal in solution. J Lipid Res. 2007 May; 48(5):1035-44. Peters-Libeu CA, Newhouse Y, Hall SC, Witkowska HE, Weisgraber KH, Peters-Libeu CA, Newhouse Y, Hall SC, Witkowska HE, Weisgraber KH. PMID: 17308333.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    23. Octomeric pyruvate-ferredoxin oxidoreductase from Desulfovibrio vulgaris. J Struct Biol. 2007 Jul; 159(1):9-18. Garczarek F, Dong M, Typke D, Witkowska HE, Hazen TC, Nogales E, Biggin MD, Glaeser RM, Garczarek F, Dong M, Typke D, Witkowska HE, Hazen TC, Nogales E, Biggin MD, Glaeser RM. PMID: 17400475.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    24. High-molecular-mass APOBEC3G complexes restrict Alu retrotransposition. Proc Natl Acad Sci U S A. 2006 Oct 17; 103(42):15588-93. Chiu YL, Witkowska HE, Hall SC, Santiago M, Soros VB, Esnault C, Heidmann T, Greene WC, Chiu YL, Witkowska HE, Hall SC, Santiago M, Soros VB, Esnault C, Heidmann T, Greene WC. PMID: 17030807; PMCID: PMC1592537.
      View in: PubMed   Mentions: 147     Fields:    Translation:HumansCells
    25. 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 01; 77(15):4947-54. Hardt M, Witkowska HE, Webb S, Thomas LR, Dixon SE, Hall SC, Fisher SJ, Hardt M, Witkowska HE, Webb S, Thomas LR, Dixon SE, Hall SC, Fisher SJ. PMID: 16053308.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansCells
    26. 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 01; 44(8):2885-99. Hardt M, Thomas LR, Dixon SE, Newport G, Agabian N, Prakobphol A, Hall SC, Witkowska HE, Fisher SJ, Hardt M, Thomas LR, Dixon SE, Newport G, Agabian N, Prakobphol A, Hall SC, Witkowska HE, Fisher SJ. PMID: 15723531.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansCells
    27. Head-to-head coiled arrangement of the subunits of the animal fatty acid synthase. Chem Biol. 2004 Dec; 11(12):1667-76. Witkowski A, Ghosal A, Joshi AK, Witkowska HE, Asturias FJ, Smith S, Witkowski A, Ghosal A, Joshi AK, Witkowska HE, Asturias FJ, Smith S. PMID: 15610851.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    28. Characterization of embryonic globin genes of the zebrafish. Dev Biol. 2003 Mar 01; 255(1):48-61. 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, 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. PMID: 12618133.
      View in: PubMed   Mentions: 59     Fields:    Translation:AnimalsCells
    29. 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. 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. 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. Nat Genet. Positional cloning of the zebrafish sauternes gene: a model for congenital sideroblastic anaemia. 1998; 20(3):244-50. .
    33. 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. .
    34. 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. 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. Blood. Characterization of adult alpha- and beta-globin genes in the zebrafish. 1997; 89(2):688-700.
    37. Science. Transgenic knockout mice with exclusively human sickle hemoglobin and sickle cell disease. 1997; 278(5339):876-8. .
    38. Anal Chem. Characterizing abnormal hemoglobin by MS. 1996; 68(1):29A-33A. .
    39. 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. .
    40. 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. .
    41. J Am Chem Soc,. Mass spectrometric analysis of a native zinc finger structure: the glucocorticoid receptor DNA binding domain. 1995; 117:3319-24. .
    42. 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. Hemoglobin. Expediting rare variant hemoglobin characterization by combined HPLC/electrospray mass spectrometry. 1993; 17(3):227-42. .
    44. 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. .
    45. 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. .
    46. 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. .
    47. 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. .
    48. J Clin Invest. Hypoxia-induced in vivo sickling of transgenic mouse red cells. 1991; 87(2):639-47. .
    49. 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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