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Items: 1 to 100 of 243

1.

Multidomain architecture of estrogen receptor reveals interfacial cross-talk between its DNA-binding and ligand-binding domains.

Huang W, Peng Y, Kiselar J, Zhao X, Albaqami A, Mendez D, Chen Y, Chakravarthy S, Gupta S, Ralston C, Kao HY, Chance MR, Yang S.

Nat Commun. 2018 Aug 30;9(1):3520. doi: 10.1038/s41467-018-06034-2.

3.

High-Resolution Hydroxyl Radical Protein Footprinting: Biophysics Tool for Drug Discovery.

Kiselar J, Chance MR.

Annu Rev Biophys. 2018 Mar 14. doi: 10.1146/annurev-biophys-070317-033123. [Epub ahead of print]

PMID:
29539273
4.

Integrated microRNA and mRNA network analysis of the human myometrial transcriptome in the transition from quiescence to labor.

Ackerman WE 4th, Buhimschi IA, Brubaker D, Maxwell S, Rood KM, Chance MR, Jing H, Mesiano S, Buhimschi CS.

Biol Reprod. 2018 Jun 1;98(6):834-845. doi: 10.1093/biolre/ioy040.

PMID:
29447339
5.

A Practical Guide to iSPOT Modeling: An Integrative Structural Biology Platform.

Hsieh A, Lu L, Chance MR, Yang S.

Adv Exp Med Biol. 2017;1009:229-238. doi: 10.1007/978-981-10-6038-0_14.

PMID:
29218563
6.

Proteomics and Network Analyses Reveal Inhibition of Akt-mTOR Signaling in CD4+ T Cells by Mycobacterium tuberculosis Mannose-Capped Lipoarabinomannan.

Karim AF, Sande OJ, Tomechko SE, Ding X, Li M, Maxwell S, Ewing RM, Harding CV, Rojas RE, Chance MR, Boom WH.

Proteomics. 2017 Nov;17(22). doi: 10.1002/pmic.201700233.

7.

Phosphoproteomics Profiling of Nonsmall Cell Lung Cancer Cells Treated with a Novel Phosphatase Activator.

Wiredja DD, Ayati M, Mazhar S, Sangodkar J, Maxwell S, Schlatzer D, Narla G, Koyutürk M, Chance MR.

Proteomics. 2017 Nov;17(22). doi: 10.1002/pmic.201700214. Epub 2017 Oct 25.

PMID:
28961369
8.

Regulation of endothelial hemoglobin alpha expression by Kruppel-like factors.

Sangwung P, Zhou G, Lu Y, Liao X, Wang B, Mutchler SM, Miller M, Chance MR, Straub AC, Jain MK.

Vasc Med. 2017 Oct;22(5):363-369. doi: 10.1177/1358863X17722211. Epub 2017 Aug 19.

9.

The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics.

Wiredja DD, Koyutürk M, Chance MR.

Bioinformatics. 2017 Jun 26. doi: 10.1093/bioinformatics/btx415. [Epub ahead of print]

10.

Proteomic profiling of the hypothalamus in two mouse models of narcolepsy.

Azzam S, Schlatzer D, Nethery D, Saleh D, Li X, Akladious A, Chance MR, Strohl KP.

Proteomics. 2017 Jul;17(13-14). doi: 10.1002/pmic.201600478. Epub 2017 Jun 26.

PMID:
28544614
11.

Activation of tumor suppressor protein PP2A inhibits KRAS-driven tumor growth.

Sangodkar J, Perl A, Tohme R, Kiselar J, Kastrinsky DB, Zaware N, Izadmehr S, Mazhar S, Wiredja DD, O'Connor CM, Hoon D, Dhawan NS, Schlatzer D, Yao S, Leonard D, Borczuk AC, Gokulrangan G, Wang L, Svenson E, Farrington CC, Yuan E, Avelar RA, Stachnik A, Smith B, Gidwani V, Giannini HM, McQuaid D, McClinch K, Wang Z, Levine AC, Sears RC, Chen EY, Duan Q, Datt M, Haider S, Ma'ayan A, DiFeo A, Sharma N, Galsky MD, Brautigan DL, Ioannou YA, Xu W, Chance MR, Ohlmeyer M, Narla G.

J Clin Invest. 2017 Jun 1;127(6):2081-2090. doi: 10.1172/JCI89548. Epub 2017 May 15.

12.

A Targeted Mass Spectrometry Assay for Detection of HIV Gag Protein Following Induction of Latent Viral Reservoirs.

Schlatzer D, Haqqani AA, Li X, Dobrowolski C, Chance MR, Tilton JC.

Anal Chem. 2017 May 16;89(10):5325-5332. doi: 10.1021/acs.analchem.6b05070. Epub 2017 May 3.

PMID:
28467046
13.

Linearity of network proximity measures: implications for set-based queries and significance testing.

Maxwell S, Chance MR, Koyutürk M.

Bioinformatics. 2017 May 1;33(9):1354-1361. doi: 10.1093/bioinformatics/btw733.

14.

Proteome and Protein Network Analyses of Memory T Cells Find Altered Translation and Cell Stress Signaling in Treated Human Immunodeficiency Virus Patients Exhibiting Poor CD4 Recovery.

Azzam S, Schlatzer D, Maxwell S, Li X, Bazdar D, Chen Y, Asaad R, Barnholtz-Sloan J, Chance MR, Sieg SF.

Open Forum Infect Dis. 2016 Mar 15;3(2):ofw037. doi: 10.1093/ofid/ofw037. eCollection 2016 Mar.

15.

Protein Footprinting Comes of Age: Mass Spectrometry for Biophysical Structure Assessment.

Wang L, Chance MR.

Mol Cell Proteomics. 2017 May;16(5):706-716. doi: 10.1074/mcp.O116.064386. Epub 2017 Mar 8. Review.

16.

Structural basis of ligand interaction with atypical chemokine receptor 3.

Gustavsson M, Wang L, van Gils N, Stephens BS, Zhang P, Schall TJ, Yang S, Abagyan R, Chance MR, Kufareva I, Handel TM.

Nat Commun. 2017 Jan 18;8:14135. doi: 10.1038/ncomms14135.

17.

Finding lost genes in GWAS via integrative-omics analysis reveals novel sub-networks associated with preterm birth.

Brubaker D, Liu Y, Wang J, Tan H, Zhang G, Jacobsson B, Muglia L, Mesiano S, Chance MR.

Hum Mol Genet. 2016 Dec 1;25(23):5254-5264. doi: 10.1093/hmg/ddw325.

18.

During Hepatitis C Virus (HCV) Infection and HCV-HIV Coinfection, an Elevated Plasma Level of Autotaxin Is Associated With Lysophosphatidic Acid and Markers of Immune Activation That Normalize During Interferon-Free HCV Therapy.

Kostadinova L, Shive CL, Judge C, Zebrowski E, Compan A, Rife K, Hirsch A, Falck-Ytter Y, Schlatzer DM, Li X, Chance MR, Rodriguez B, Popkin DL, Anthony DD.

J Infect Dis. 2016 Nov 1;214(9):1438-1448. Epub 2016 Aug 17.

19.

Probing the structure of ribosome assembly intermediates in vivo using DMS and hydroxyl radical footprinting.

Hulscher RM, Bohon J, Rappé MC, Gupta S, D'Mello R, Sullivan M, Ralston CY, Chance MR, Woodson SA.

Methods. 2016 Jul 1;103:49-56. doi: 10.1016/j.ymeth.2016.03.012. Epub 2016 Mar 22.

20.

Apigenin blocks IKKα activation and suppresses prostate cancer progression.

Shukla S, Kanwal R, Shankar E, Datt M, Chance MR, Fu P, MacLennan GT, Gupta S.

Oncotarget. 2015 Oct 13;6(31):31216-32. doi: 10.18632/oncotarget.5157.

21.

Proteomic and bioinformatics profile of paired human alveolar macrophages and peripheral blood monocytes.

Tomechko SE, Lundberg KC, Jarvela J, Bebek G, Chesnokov NG, Schlatzer D, Ewing RM, Boom WH, Chance MR, Silver RF.

Proteomics. 2015 Nov;15(22):3797-805. doi: 10.1002/pmic.201400496.

22.

MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring.

Ayati M, Erten S, Chance MR, Koyutürk M.

EURASIP J Bioinform Syst Biol. 2015 Jun 30;2015:7. doi: 10.1186/s13637-015-0025-6. eCollection 2015 Dec.

23.

Characterizing monoclonal antibody structure by carboxyl group footprinting.

Kaur P, Tomechko SE, Kiselar J, Shi W, Deperalta G, Wecksler AT, Gokulrangan G, Ling V, Chance MR.

MAbs. 2015;7(3):540-52. doi: 10.1080/19420862.2015.1023683.

24.

Phosphorylation of HEXIM1 at Tyr271 and Tyr274 Promotes Release of P-TEFb from the 7SK snRNP Complex and Enhances Proviral HIV Gene Expression.

Mbonye UR, Wang B, Gokulrangan G, Chance MR, Karn J.

Proteomics. 2015 Jun;15(12):2078-86. doi: 10.1002/pmic.201500038. Epub 2015 May 15. Erratum in: Proteomics. 2016 Aug;16(15-16):2302.

25.

Detection of structural waters and their role in structural dynamics of rhodopsin activation.

Wang L, Chance MR.

Methods Mol Biol. 2015;1271:97-111. doi: 10.1007/978-1-4939-2330-4_7.

PMID:
25697519
26.

Quantitative protein topography analysis and high-resolution structure prediction using hydroxyl radical labeling and tandem-ion mass spectrometry (MS).

Kaur P, Kiselar J, Yang S, Chance MR.

Mol Cell Proteomics. 2015 Apr;14(4):1159-68. doi: 10.1074/mcp.O114.044362. Epub 2015 Feb 16.

27.

Acetyl-L-carnitine increases mitochondrial protein acetylation in the aged rat heart.

Kerner J, Yohannes E, Lee K, Virmani A, Koverech A, Cavazza C, Chance MR, Hoppel C.

Mech Ageing Dev. 2015 Jan;145:39-50. doi: 10.1016/j.mad.2015.01.003. Epub 2015 Feb 7.

28.

Tissue specific dysregulated protein subnetworks in type 2 diabetic bladder urothelium and detrusor muscle.

Tomechko SE, Liu G, Tao M, Schlatzer D, Powell CT, Gupta S, Chance MR, Daneshgari F.

Mol Cell Proteomics. 2015 Mar;14(3):635-45. doi: 10.1074/mcp.M114.041863. Epub 2015 Jan 8.

29.

Quantitative mapping of protein structure by hydroxyl radical footprinting-mediated structural mass spectrometry: a protection factor analysis.

Huang W, Ravikumar KM, Chance MR, Yang S.

Biophys J. 2015 Jan 6;108(1):107-15. doi: 10.1016/j.bpj.2014.11.013. Erratum in: Biophys J. 2015 Feb 3;108(3):780.

30.

Characterizing monoclonal antibody structure by carbodiimide/GEE footprinting.

Kaur P, Tomechko S, Kiselar J, Shi W, Deperalta G, Wecksler AT, Gokulrangan G, Ling V, Chance MR.

MAbs. 2014;6(6):1486-99. doi: 10.4161/19420862.2014.975096. Retraction in: MAbs. 2015;7(3):651.

31.

A synchrotron-based hydroxyl radical footprinting analysis of amyloid fibrils and prefibrillar intermediates with residue-specific resolution.

Klinger AL, Kiselar J, Ilchenko S, Komatsu H, Chance MR, Axelsen PH.

Biochemistry. 2014 Dec 16;53(49):7724-34. doi: 10.1021/bi5010409. Epub 2014 Dec 3.

32.

Proteomics of skin proteins in psoriasis: from discovery and verification in a mouse model to confirmation in humans.

Lundberg KC, Fritz Y, Johnston A, Foster AM, Baliwag J, Gudjonsson JE, Schlatzer D, Gokulrangan G, McCormick TS, Chance MR, Ward NL.

Mol Cell Proteomics. 2015 Jan;14(1):109-19. doi: 10.1074/mcp.M114.042242. Epub 2014 Oct 28.

33.

Integrating phosphoproteomics in systems biology.

Liu Y, Chance MR.

Comput Struct Biotechnol J. 2014 Aug 1;10(17):90-7. doi: 10.1016/j.csbj.2014.07.003. eCollection 2014 Jul. Review.

34.

Electron microscopic and proteomic comparison of terminal branches of the trigeminal nerve in patients with and without migraine headaches.

Guyuron B, Yohannes E, Miller R, Chim H, Reed D, Chance MR.

Plast Reconstr Surg. 2014 Nov;134(5):796e-805e. doi: 10.1097/PRS.0000000000000696.

35.

Crystal structure of Clostridium acetobutylicum Aspartate kinase (CaAK): An important allosteric enzyme for amino acids production.

Manjasetty BA, Chance MR, Burley SK, Panjikar S, Almo SC.

Biotechnol Rep (Amst). 2014 Sep 1;3:73-85.

36.

Discovery of common sequences absent in the human reference genome using pooled samples from next generation sequencing.

Liu Y, Koyutürk M, Maxwell S, Xiang M, Veigl M, Cooper RS, Tayo BO, Li L, LaFramboise T, Wang Z, Zhu X, Chance MR.

BMC Genomics. 2014 Aug 16;15:685. doi: 10.1186/1471-2164-15-685.

37.

Visualizing the kinetic power stroke that drives proton-coupled zinc(II) transport.

Gupta S, Chai J, Cheng J, D'Mello R, Chance MR, Fu D.

Nature. 2014 Aug 7;512(7512):101-4. doi: 10.1038/nature13382. Epub 2014 Jun 22.

38.

Development of a microsecond X-ray protein footprinting facility at the Advanced Light Source.

Gupta S, Celestre R, Petzold CJ, Chance MR, Ralston C.

J Synchrotron Radiat. 2014 Jul;21(Pt 4):690-9. doi: 10.1107/S1600577514007000. Epub 2014 May 16.

39.

Multiple glycosaminoglycan-binding epitopes of monocyte chemoattractant protein-3/CCL7 enable it to function as a non-oligomerizing chemokine.

Salanga CL, Dyer DP, Kiselar JG, Gupta S, Chance MR, Handel TM.

J Biol Chem. 2014 May 23;289(21):14896-912. doi: 10.1074/jbc.M114.547737. Epub 2014 Apr 11.

40.

Reliable determination of site-specific in vivo protein N-glycosylation based on collision-induced MS/MS and chromatographic retention time.

Wang B, Tsybovsky Y, Palczewski K, Chance MR.

J Am Soc Mass Spectrom. 2014 May;25(5):729-41. doi: 10.1007/s13361-013-0823-6. Epub 2014 Feb 19.

41.

Synchrotron X-ray footprinting on tour.

Bohon J, D'Mello R, Ralston C, Gupta S, Chance MR.

J Synchrotron Radiat. 2014 Jan;21(Pt 1):24-31. doi: 10.1107/S1600577513024715. Epub 2013 Nov 2.

42.

Pathway analyses and understanding disease associations.

Liu Y, Chance MR.

Curr Genet Med Rep. 2013 Dec 1;1(4). doi: 10.1007/s40142-013-0025-3.

43.

SAHA enhances Proteostasis of epilepsy-associated α1(A322D)β2γ2 GABA(A) receptors.

Di XJ, Han DY, Wang YJ, Chance MR, Mu TW.

Chem Biol. 2013 Dec 19;20(12):1456-68. doi: 10.1016/j.chembiol.2013.09.020. Epub 2013 Nov 7.

44.

Network signatures of survival in glioblastoma multiforme.

Patel VN, Gokulrangan G, Chowdhury SA, Chen Y, Sloan AE, Koyutürk M, Barnholtz-Sloan J, Chance MR.

PLoS Comput Biol. 2013;9(9):e1003237. doi: 10.1371/journal.pcbi.1003237. Epub 2013 Sep 19.

45.

Human β-defensin 3 induces STAT1 phosphorylation, tyrosine phosphatase activity, and cytokine synthesis in T cells.

Meisch JP, Vogel RM, Schlatzer DM, Li X, Chance MR, Levine AD.

J Leukoc Biol. 2013 Sep;94(3):459-71. doi: 10.1189/jlb.0612300. Epub 2013 Jun 26.

46.

Comparison of epigenetic profiles of human oral epithelial cells from HIV-positive (on HAART) and HIV-negative subjects.

Ghosh SK, McCormick TS, Eapen BL, Yohannes E, Chance MR, Weinberg A.

Epigenetics. 2013 Jul;8(7):703-9. doi: 10.4161/epi.25028. Epub 2013 May 17.

47.

Structural basis for the oligomerization-state switch from a dimer to a trimer of an engineered cortexillin-1 coiled-coil variant.

Bjelić S, Wieser M, Frey D, Stirnimann CU, Chance MR, Jaussi R, Steinmetz MO, Kammerer RA.

PLoS One. 2013 May 14;8(5):e63370. doi: 10.1371/journal.pone.0063370. Print 2013.

48.

Phosphorylation of CDK9 at Ser175 enhances HIV transcription and is a marker of activated P-TEFb in CD4(+) T lymphocytes.

Mbonye UR, Gokulrangan G, Datt M, Dobrowolski C, Cooper M, Chance MR, Karn J.

PLoS Pathog. 2013;9(5):e1003338. doi: 10.1371/journal.ppat.1003338. Epub 2013 May 2.

49.

Plasma proteome analysis reveals overlapping, yet distinct mechanisms of immune activation in chronic HCV and HIV infections.

Schlatzer DM, Sugalski JM, Chen Y, Barnholtz-Sloan J, Davitkov P, Hazlett FE, Funderburg N, Rodriguez B, Lederman MM, Sieg SF, Chance MR, Anthony DD.

J Acquir Immune Defic Syndr. 2013 Aug 15;63(5):563-71. doi: 10.1097/QAI.0b013e3182909847.

50.

A hybrid structural approach to analyze ligand binding by the serotonin type 4 receptor (5-HT4).

Padayatti PS, Wang L, Gupta S, Orban T, Sun W, Salom D, Jordan SR, Palczewski K, Chance MR.

Mol Cell Proteomics. 2013 May;12(5):1259-71. doi: 10.1074/mcp.M112.025536. Epub 2013 Feb 1.

51.

Gene, pathway and network frameworks to identify epistatic interactions of single nucleotide polymorphisms derived from GWAS data.

Liu Y, Maxwell S, Feng T, Zhu X, Elston RC, Koyutürk M, Chance MR.

BMC Syst Biol. 2012;6 Suppl 3:S15. doi: 10.1186/1752-0509-6-S3-S15. Epub 2012 Dec 17.

52.

Identifying stage-specific protein subnetworks for colorectal cancer.

Erten S, Chowdhury SA, Guan X, Nibbe RK, Barnholtz-Sloan JS, Chance MR, Koyutürk M.

BMC Proc. 2012 Nov 13;6 Suppl 7:S1. doi: 10.1186/1753-6561-6-S7-S1. Epub 2012 Nov 13.

53.

Proteomic and bioinformatic profile of primary human oral epithelial cells.

Ghosh SK, Yohannes E, Bebek G, Weinberg A, Jiang B, Willard B, Chance MR, Kinter MT, McCormick TS.

J Proteome Res. 2012 Nov 2;11(11):5492-502. doi: 10.1021/pr3007254. Epub 2012 Oct 16.

54.

Structure of RPE65 isomerase in a lipidic matrix reveals roles for phospholipids and iron in catalysis.

Kiser PD, Farquhar ER, Shi W, Sui X, Chance MR, Palczewski K.

Proc Natl Acad Sci U S A. 2012 Oct 9;109(41):E2747-56. doi: 10.1073/pnas.1212025109. Epub 2012 Sep 24.

55.

Structure and dynamics of protein waters revealed by radiolysis and mass spectrometry.

Gupta S, D'Mello R, Chance MR.

Proc Natl Acad Sci U S A. 2012 Sep 11;109(37):14882-7. doi: 10.1073/pnas.1209060109. Epub 2012 Aug 27.

56.

Pairwise protein expression classifier for candidate biomarker discovery for early detection of human disease prognosis.

Kaur P, Schlatzer D, Cooke K, Chance MR.

BMC Bioinformatics. 2012 Aug 7;13:191. doi: 10.1186/1471-2105-13-191.

57.

Integrative analysis of common neurodegenerative diseases using gene association, interaction networks and mRNA expression data.

Liu Y, Koyutürk M, Maxwell S, Zhao Z, Chance MR.

AMIA Jt Summits Transl Sci Proc. 2012;2012:62-71. Epub 2012 Mar 19.

58.

Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases.

Liu Y, Koyutürk M, Barnholtz-Sloan JS, Chance MR.

BMC Syst Biol. 2012 Jun 13;6:65. doi: 10.1186/1752-0509-6-65.

59.

MAGNET: MicroArray Gene expression and Network Evaluation Toolkit.

Linderman GC, Chance MR, Bebek G.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W152-6. doi: 10.1093/nar/gks526. Epub 2012 Jun 4.

60.

Splitting random forest (SRF) for determining compact sets of genes that distinguish between cancer subtypes.

Guan X, Chance MR, Barnholtz-Sloan JS.

J Clin Bioinforma. 2012 May 22;2(1):13. doi: 10.1186/2043-9113-2-13.

61.

Structural basis for modification of flavonol and naphthol glucoconjugates by Nicotiana tabacum malonyltransferase (NtMaT1).

Manjasetty BA, Yu XH, Panjikar S, Taguchi G, Chance MR, Liu CJ.

Planta. 2012 Sep;236(3):781-93. doi: 10.1007/s00425-012-1660-8. Epub 2012 May 19.

PMID:
22610270
62.

Conformational dynamics of activation for the pentameric complex of dimeric G protein-coupled receptor and heterotrimeric G protein.

Orban T, Jastrzebska B, Gupta S, Wang B, Miyagi M, Chance MR, Palczewski K.

Structure. 2012 May 9;20(5):826-40. doi: 10.1016/j.str.2012.03.017.

63.

Network biology methods integrating biological data for translational science.

Bebek G, Koyutürk M, Price ND, Chance MR.

Brief Bioinform. 2012 Jul;13(4):446-59. doi: 10.1093/bib/bbr075. Epub 2012 Mar 5. Review.

64.

Insights into substrate specificity and metal activation of mammalian tetrahedral aspartyl aminopeptidase.

Chen Y, Farquhar ER, Chance MR, Palczewski K, Kiser PD.

J Biol Chem. 2012 Apr 13;287(16):13356-70. doi: 10.1074/jbc.M112.347518. Epub 2012 Feb 22.

65.

Human biomarker discovery and predictive models for disease progression for idiopathic pneumonia syndrome following allogeneic stem cell transplantation.

Schlatzer DM, Dazard JE, Ewing RM, Ilchenko S, Tomcheko SE, Eid S, Ho V, Yanik G, Chance MR, Cooke KR.

Mol Cell Proteomics. 2012 Jun;11(6):M111.015479. doi: 10.1074/mcp.M111.015479. Epub 2012 Feb 15.

66.

Novel urinary protein biomarkers predicting the development of microalbuminuria and renal function decline in type 1 diabetes.

Schlatzer D, Maahs DM, Chance MR, Dazard JE, Li X, Hazlett F, Rewers M, Snell-Bergeon JK.

Diabetes Care. 2012 Mar;35(3):549-55. doi: 10.2337/dc11-1491. Epub 2012 Jan 11.

67.

Identification of in vivo disulfide conformation of TRPA1 ion channel.

Wang L, Cvetkov TL, Chance MR, Moiseenkova-Bell VY.

J Biol Chem. 2012 Feb 24;287(9):6169-76. doi: 10.1074/jbc.M111.329748. Epub 2011 Dec 29.

68.

Proteomic signatures of human oral epithelial cells in HIV-infected subjects.

Yohannes E, Ghosh SK, Jiang B, McCormick TS, Weinberg A, Hill E, Faddoul F, Chance MR.

PLoS One. 2011;6(11):e27816. doi: 10.1371/journal.pone.0027816. Epub 2011 Nov 16.

69.

Structural analysis of proinsulin hexamer assembly by hydroxyl radical footprinting and computational modeling.

Kiselar JG, Datt M, Chance MR, Weiss MA.

J Biol Chem. 2011 Dec 23;286(51):43710-6. doi: 10.1074/jbc.M111.297853. Epub 2011 Oct 26.

70.

Myosin binding surface on actin probed by hydroxyl radical footprinting and site-directed labels.

Oztug Durer ZA, Kamal JK, Benchaar S, Chance MR, Reisler E.

J Mol Biol. 2011 Nov 25;414(2):204-16. doi: 10.1016/j.jmb.2011.09.035. Epub 2011 Oct 1.

71.

A quantitative proteomic approach for detecting protein profiles of activated human myeloid dendritic cells.

Schlatzer DM, Sugalski J, Dazard JE, Chance MR, Anthony DD.

J Immunol Methods. 2012 Jan 31;375(1-2):39-45. doi: 10.1016/j.jim.2011.09.004. Epub 2011 Sep 16.

72.

Frontiers of oncology: biobanking resources for the 21st century.

Barnholtz-Sloan J, Chance MR.

J Clin Bioinforma. 2011 May 8;1(1):13. doi: 10.1186/2043-9113-1-13. No abstract available.

73.

Optics Concept for a Pair of Undulator Beamlines for MX.

Berman LE, Allaire M, Chance MR, Hendrickson WA, Héroux A, Jakoncic J, Liu Q, Orville AM, Robinson HH, Schneider DK, Shi W, Soares AS, Stojanoff V, Stoner-Ma D, Sweet RM.

Nucl Instrum Methods Phys Res A. 2011 Sep 1;649(1):131-135.

74.

The inducible kinase IKKi is required for IL-17-dependent signaling associated with neutrophilia and pulmonary inflammation.

Bulek K, Liu C, Swaidani S, Wang L, Page RC, Gulen MF, Herjan T, Abbadi A, Qian W, Sun D, Lauer M, Hascall V, Misra S, Chance MR, Aronica M, Hamilton T, Li X.

Nat Immunol. 2011 Aug 7;12(9):844-52. doi: 10.1038/ni.2080.

75.

Structural mass spectrometry of proteins using hydroxyl radical based protein footprinting.

Wang L, Chance MR.

Anal Chem. 2011 Oct 1;83(19):7234-41. doi: 10.1021/ac200567u. Epub 2011 Aug 1.

76.

Characterization of metalloproteins by high-throughput X-ray absorption spectroscopy.

Shi W, Punta M, Bohon J, Sauder JM, D'Mello R, Sullivan M, Toomey J, Abel D, Lippi M, Passerini A, Frasconi P, Burley SK, Rost B, Chance MR.

Genome Res. 2011 Jun;21(6):898-907. doi: 10.1101/gr.115097.110. Epub 2011 Apr 11.

77.

Subnetwork state functions define dysregulated subnetworks in cancer.

Chowdhury SA, Nibbe RK, Chance MR, Koyutürk M.

J Comput Biol. 2011 Mar;18(3):263-81. doi: 10.1089/cmb.2010.0269.

78.

BiC: a web server for calculating bimodality of coexpression between gene and protein networks.

Linderman GC, Patel VN, Chance MR, Bebek G.

Bioinformatics. 2011 Apr 15;27(8):1174-5. doi: 10.1093/bioinformatics/btr086. Epub 2011 Feb 23.

79.

A proteomic study of myosin II motor proteins during tumor cell migration.

Betapudi V, Gokulrangan G, Chance MR, Egelhoff TT.

J Mol Biol. 2011 Apr 15;407(5):673-86. doi: 10.1016/j.jmb.2011.02.010. Epub 2011 Feb 18.

80.

PETALS: Proteomic Evaluation and Topological Analysis of a mutated Locus' Signaling.

Bebek G, Patel V, Chance MR.

BMC Bioinformatics. 2010 Dec 13;11:596. doi: 10.1186/1471-2105-11-596.

81.

A combined global and local approach to elucidate spatial organization of the Mycobacterial ParB-parS partition assembly.

Chaudhuri BN, Gupta S, Urban VS, Chance MR, D'Mello R, Smith L, Lyons K, Gee J.

Biochemistry. 2011 Mar 22;50(11):1799-807. doi: 10.1021/bi1016759.

82.

Metalloproteomics: forward and reverse approaches in metalloprotein structural and functional characterization.

Shi W, Chance MR.

Curr Opin Chem Biol. 2011 Feb;15(1):144-8. doi: 10.1016/j.cbpa.2010.11.004. Epub 2010 Dec 2. Review.

83.

Systems biology analyses of gene expression and genome wide association study data in obstructive sleep apnea.

Liu Y, Patel S, Nibbe R, Maxwell S, Chowdhury SA, Koyuturk M, Zhu X, Larkin EK, Buxbaum SG, Punjabi NM, Gharib SA, Redline S, Chance MR.

Pac Symp Biocomput. 2011:14-25.

84.

Reversible methylation of promoter-bound STAT3 by histone-modifying enzymes.

Yang J, Huang J, Dasgupta M, Sears N, Miyagi M, Wang B, Chance MR, Chen X, Du Y, Wang Y, An L, Wang Q, Lu T, Zhang X, Wang Z, Stark GR.

Proc Natl Acad Sci U S A. 2010 Dec 14;107(50):21499-504. doi: 10.1073/pnas.1016147107. Epub 2010 Nov 23.

85.

Circulating human CD4 and CD8 T cells do not have large intracellular pools of CCR5.

Pilch-Cooper HA, Sieg SF, Hope TJ, Koons A, Escola JM, Offord R, Veazey RS, Mosier DE, Clagett B, Medvik K, Jadlowsky JK, Chance MR, Kiselar JG, Hoxie JA, Collman RG, Riddick NE, Mercanti V, Hartley O, Lederman MM.

Blood. 2011 Jul 28;118(4):1015-9. doi: 10.1182/blood-2010-05-282509. Epub 2010 Nov 10.

86.

Preliminary crystallography confirms that the archaeal DNA-binding and tryptophan-sensing regulator TrpY is a dimer.

Cafasso J, Manjasetty BA, Karr EA, Sandman K, Chance MR, Reeve JN.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Nov 1;66(Pt 11):1493-5. doi: 10.1107/S1744309110036031. Epub 2010 Oct 28.

87.

Cyclin-dependent kinase 5 activity is required for T cell activation and induction of experimental autoimmune encephalomyelitis.

Pareek TK, Lam E, Zheng X, Askew D, Kulkarni AB, Chance MR, Huang AY, Cooke KR, Letterio JJ.

J Exp Med. 2010 Oct 25;207(11):2507-19. doi: 10.1084/jem.20100876. Epub 2010 Oct 11.

88.

Protein-protein interaction networks and subnetworks in the biology of disease.

Nibbe RK, Chowdhury SA, Koyutürk M, Ewing R, Chance MR.

Wiley Interdiscip Rev Syst Biol Med. 2011 May-Jun;3(3):357-67. doi: 10.1002/wsbm.121. Epub 2010 Sep 23. Review.

PMID:
20865778
89.

Structural analysis of a highly glycosylated and unliganded gp120-based antigen using mass spectrometry.

Wang L, Qin Y, Ilchenko S, Bohon J, Shi W, Cho MW, Takamoto K, Chance MR.

Biochemistry. 2010 Oct 26;49(42):9032-45. doi: 10.1021/bi1011332.

90.

Prediction and testing of biological networks underlying intestinal cancer.

Patel VN, Bebek G, Mariadason JM, Wang D, Augenlicht LH, Chance MR.

PLoS One. 2010 Sep 1;5(9). pii: e12497. doi: 10.1371/journal.pone.0012497.

91.

Future directions of structural mass spectrometry using hydroxyl radical footprinting.

Kiselar JG, Chance MR.

J Mass Spectrom. 2010 Dec;45(12):1373-82. doi: 10.1002/jms.1808. Review.

92.

Structure of a putative BenF-like porin from Pseudomonas fluorescens Pf-5 at 2.6 A resolution.

Sampathkumar P, Lu F, Zhao X, Li Z, Gilmore J, Bain K, Rutter ME, Gheyi T, Schwinn KD, Bonanno JB, Pieper U, Fajardo JE, Fiser A, Almo SC, Swaminathan S, Chance MR, Baker D, Atwell S, Thompson DA, Emtage JS, Wasserman SR, Sali A, Sauder JM, Burley SK.

Proteins. 2010 Nov 1;78(14):3056-62. doi: 10.1002/prot.22829. No abstract available.

93.

Conformational changes during the gating of a potassium channel revealed by structural mass spectrometry.

Gupta S, Bavro VN, D'Mello R, Tucker SJ, Vénien-Bryan C, Chance MR.

Structure. 2010 Jul 14;18(7):839-46. doi: 10.1016/j.str.2010.04.012.

94.

Structural characterization of HIV gp41 with the membrane-proximal external region.

Shi W, Bohon J, Han DP, Habte H, Qin Y, Cho MW, Chance MR.

J Biol Chem. 2010 Jul 30;285(31):24290-8. doi: 10.1074/jbc.M110.111351. Epub 2010 Jun 4.

95.
96.

Conformational changes in guanylate cyclase-activating protein 1 induced by Ca2+ and N-terminal fatty acid acylation.

Orban T, Bereta G, Miyagi M, Wang B, Chance MR, Sousa MC, Palczewski K.

Structure. 2010 Jan 13;18(1):116-26. doi: 10.1016/j.str.2009.11.008.

97.

Proteomics, bioinformatics and targeted gene expression analysis reveals up-regulation of cochlin and identifies other potential biomarkers in the mouse model for deafness in Usher syndrome type 1F.

Chance MR, Chang J, Liu S, Gokulrangan G, Chen DH, Lindsay A, Geng R, Zheng QY, Alagramam K.

Hum Mol Genet. 2010 Apr 15;19(8):1515-27. doi: 10.1093/hmg/ddq025. Epub 2010 Jan 22.

98.

An integrative -omics approach to identify functional sub-networks in human colorectal cancer.

Nibbe RK, Koyutürk M, Chance MR.

PLoS Comput Biol. 2010 Jan 15;6(1):e1000639. doi: 10.1371/journal.pcbi.1000639.

99.

Regulation of NF-kappaB by NSD1/FBXL11-dependent reversible lysine methylation of p65.

Lu T, Jackson MW, Wang B, Yang M, Chance MR, Miyagi M, Gudkov AV, Stark GR.

Proc Natl Acad Sci U S A. 2010 Jan 5;107(1):46-51. doi: 10.1073/pnas.0912493107. Epub 2009 Dec 22.

100.

Visualizing water molecules in transmembrane proteins using radiolytic labeling methods.

Orban T, Gupta S, Palczewski K, Chance MR.

Biochemistry. 2010 Feb 9;49(5):827-34. doi: 10.1021/bi901889t. Review.

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