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Items: 38

1.

ABRF Proteome Informatics Research Group (iPRG) 2016 Study: Inferring Proteoforms from Bottom-up Proteomics Data.

Lee JY, Choi H, Colangelo CM, Davis D, Hoopmann MR, Käll L, Lam H, Payne SH, Perez-Riverol Y, The M, Wilson R, Weintraub ST, Palmblad M.

J Biomol Tech. 2018 Jul;29(2):39-45. doi: 10.7171/jbt.18-2902-003. Epub 2018 Jun 21.

2.

Quantification of Urinary Protein Biomarkers of Autosomal Dominant Polycystic Kidney Disease by Parallel Reaction Monitoring.

Rauniyar N, Yu X, Cantley J, Voss EZ, Belcher J, Colangelo CM, Stone KL, Dahl N, Parikh C, Lam TT, Cantley LG.

Proteomics Clin Appl. 2018 Sep;12(5):e1700157. doi: 10.1002/prca.201700157. Epub 2018 May 2.

3.

Reciprocal regulation of ARPP-16 by PKA and MAST3 kinases provides a cAMP-regulated switch in protein phosphatase 2A inhibition.

Musante V, Li L, Kanyo J, Lam TT, Colangelo CM, Cheng SK, Brody AH, Greengard P, Le Novère N, Nairn AC.

Elife. 2017 Jun 14;6. pii: e24998. doi: 10.7554/eLife.24998.

4.

Use of a Targeted Urine Proteome Assay (TUPA) to identify protein biomarkers of delayed recovery after kidney transplant.

Williams KR, Colangelo CM, Hou L, Chung L, Belcher JM, Abbott T, Hall IE, Zhao H, Cantley LG, Parikh CR.

Proteomics Clin Appl. 2017 Jul;11(7-8). doi: 10.1002/prca.201600132. Epub 2017 Mar 31.

5.

Evaluation of the Nicotinic Acetylcholine Receptor-Associated Proteome at Baseline and Following Nicotine Exposure in Human and Mouse Cortex.

McClure-Begley TD, Esterlis I, Stone KL, Lam TT, Grady SR, Colangelo CM, Lindstrom JM, Marks MJ, Picciotto MR.

eNeuro. 2016 Aug 16;3(4). pii: ENEURO.0166-16.2016. doi: 10.1523/ENEURO.0166-16.2016. eCollection 2016 Jul-Aug.

6.

Phosphoproteomic Analysis Reveals a Novel Mechanism of CaMKIIα Regulation Inversely Induced by Cocaine Memory Extinction versus Reconsolidation.

Rich MT, Abbott TB, Chung L, Gulcicek EE, Stone KL, Colangelo CM, Lam TT, Nairn AC, Taylor JR, Torregrossa MM.

J Neurosci. 2016 Jul 20;36(29):7613-27. doi: 10.1523/JNEUROSCI.1108-16.2016.

7.

Development of a Targeted Urine Proteome Assay for kidney diseases.

Cantley LG, Colangelo CM, Stone KL, Chung L, Belcher J, Abbott T, Cantley JL, Williams KR, Parikh CR.

Proteomics Clin Appl. 2016 Jan;10(1):58-74. doi: 10.1002/prca.201500020. Epub 2015 Oct 6.

8.

Early-Life Stress Perturbs Key Cellular Programs in the Developing Mouse Hippocampus.

Wei L, Hao J, Lacher RK, Abbott T, Chung L, Colangelo CM, Kaffman A.

Dev Neurosci. 2015;37(6):476-88. doi: 10.1159/000430861. Epub 2015 Jun 11.

9.

Proteomic analysis of host brain components that bind to infectious particles in Creutzfeldt-Jakob disease.

Kipkorir T, Colangelo CM, Manuelidis L.

Proteomics. 2015 Sep;15(17):2983-98. doi: 10.1002/pmic.201500059. Epub 2015 Jun 9.

10.

Haptoglobin enhances cardiac transplant rejection.

Shen H, Heuzey E, Mori DN, Wong CK, Colangelo CM, Chung LM, Bruce C, Slizovskiy IB, Booth CJ, Kreisel D, Goldstein DR.

Circ Res. 2015 May 8;116(10):1670-9. doi: 10.1161/CIRCRESAHA.116.305406. Epub 2015 Mar 23.

11.

YPED: an integrated bioinformatics suite and database for mass spectrometry-based proteomics research.

Colangelo CM, Shifman M, Cheung KH, Stone KL, Carriero NJ, Gulcicek EE, Lam TT, Wu T, Bjornson RD, Bruce C, Nairn AC, Rinehart J, Miller PL, Williams KR.

Genomics Proteomics Bioinformatics. 2015 Feb;13(1):25-35. doi: 10.1016/j.gpb.2014.11.002. Epub 2015 Feb 21.

12.

Glutathione reaction products with a chemical allergen, methylene-diphenyl diisocyanate, stimulate alternative macrophage activation and eosinophilic airway inflammation.

Wisnewski AV, Liu J, Colangelo CM.

Chem Res Toxicol. 2015 Apr 20;28(4):729-37. doi: 10.1021/tx5005002. Epub 2015 Feb 18.

13.

Development of a highly automated and multiplexed targeted proteome pipeline and assay for 112 rat brain synaptic proteins.

Colangelo CM, Ivosev G, Chung L, Abbott T, Shifman M, Sakaue F, Cox D, Kitchen RR, Burton L, Tate SA, Gulcicek E, Bonner R, Rinehart J, Nairn AC, Williams KR.

Proteomics. 2015 Apr;15(7):1202-14. doi: 10.1002/pmic.201400353. Epub 2015 Feb 12.

14.

Panorama: a targeted proteomics knowledge base.

Sharma V, Eckels J, Taylor GK, Shulman NJ, Stergachis AB, Joyner SA, Yan P, Whiteaker JR, Halusa GN, Schilling B, Gibson BW, Colangelo CM, Paulovich AG, Carr SA, Jaffe JD, MacCoss MJ, MacLean B.

J Proteome Res. 2014 Sep 5;13(9):4205-10. doi: 10.1021/pr5006636. Epub 2014 Aug 18.

15.

Data Pre-Processing for Label-Free Multiple Reaction Monitoring (MRM) Experiments.

Chung LM, Colangelo CM, Zhao H.

Biology (Basel). 2014 Jun 5;3(2):383-402. doi: 10.3390/biology3020383.

16.

Exploring the nicotinic acetylcholine receptor-associated proteome with iTRAQ and transgenic mice.

McClure-Begley TD, Stone KL, Marks MJ, Grady SR, Colangelo CM, Lindstrom JM, Picciotto MR.

Genomics Proteomics Bioinformatics. 2013 Aug;11(4):207-18. doi: 10.1016/j.gpb.2013.05.005. Epub 2013 Jul 25.

17.

Review of software tools for design and analysis of large scale MRM proteomic datasets.

Colangelo CM, Chung L, Bruce C, Cheung KH.

Methods. 2013 Jun 15;61(3):287-98. doi: 10.1016/j.ymeth.2013.05.004. Epub 2013 May 21. Review.

18.

Interlaboratory studies and initiatives developing standards for proteomics.

Ivanov AR, Colangelo CM, Dufresne CP, Friedman DB, Lilley KS, Mechtler K, Phinney BS, Rose KL, Rudnick PA, Searle BC, Shaffer SA, Weintraub ST.

Proteomics. 2013 Mar;13(6):904-9. doi: 10.1002/pmic.201200532. Epub 2013 Feb 19.

19.

Identification of CSPα clients reveals a role in dynamin 1 regulation.

Zhang YQ, Henderson MX, Colangelo CM, Ginsberg SD, Bruce C, Wu T, Chandra SS.

Neuron. 2012 Apr 12;74(1):136-50. doi: 10.1016/j.neuron.2012.01.029.

20.

Haptoglobin activates innate immunity to enhance acute transplant rejection in mice.

Shen H, Song Y, Colangelo CM, Wu T, Bruce C, Scabia G, Galan A, Maffei M, Goldstein DR.

J Clin Invest. 2012 Jan;122(1):383-7. doi: 10.1172/JCI58344. Epub 2011 Dec 12.

21.

Functional genomic and proteomic analysis reveals disruption of myelin-related genes and translation in a mouse model of early life neglect.

Bordner KA, George ED, Carlyle BC, Duque A, Kitchen RR, Lam TT, Colangelo CM, Stone KL, Abbott TB, Mane SM, Nairn AC, Simen AA.

Front Psychiatry. 2011 Apr 25;2:18. doi: 10.3389/fpsyt.2011.00018. eCollection 2011.

22.

Identification of kalirin-7 as a potential post-synaptic density signaling hub.

Kiraly DD, Stone KL, Colangelo CM, Abbott T, Wang Y, Mains RE, Eipper BA.

J Proteome Res. 2011 Jun 3;10(6):2828-41. doi: 10.1021/pr200088w. Epub 2011 Apr 25.

23.

L-histidine decarboxylase and Tourette's syndrome.

Ercan-Sencicek AG, Stillman AA, Ghosh AK, Bilguvar K, O'Roak BJ, Mason CE, Abbott T, Gupta A, King RA, Pauls DL, Tischfield JA, Heiman GA, Singer HS, Gilbert DL, Hoekstra PJ, Morgan TM, Loring E, Yasuno K, Fernandez T, Sanders S, Louvi A, Cho JH, Mane S, Colangelo CM, Biederer T, Lifton RP, Gunel M, State MW.

N Engl J Med. 2010 May 20;362(20):1901-8. doi: 10.1056/NEJMoa0907006. Epub 2010 May 5.

24.
25.

Sites of regulated phosphorylation that control K-Cl cotransporter activity.

Rinehart J, Maksimova YD, Tanis JE, Stone KL, Hodson CA, Zhang J, Risinger M, Pan W, Wu D, Colangelo CM, Forbush B, Joiner CH, Gulcicek EE, Gallagher PG, Lifton RP.

Cell. 2009 Aug 7;138(3):525-36. doi: 10.1016/j.cell.2009.05.031.

26.

Amelioration of human allograft arterial injury by atorvastatin or simvastatin correlates with reduction of interferon-gamma production by infiltrating T cells.

Yi T, Rao DA, Tang PC, Wang Y, Cuchara LA, Bothwell AL, Colangelo CM, Tellides G, Pober JS, Lorber MI.

Transplantation. 2008 Sep 15;86(5):719-27. doi: 10.1097/TP.0b013e318183eefa.

27.

Cellular proteins in influenza virus particles.

Shaw ML, Stone KL, Colangelo CM, Gulcicek EE, Palese P.

PLoS Pathog. 2008 Jun 6;4(6):e1000085. doi: 10.1371/journal.ppat.1000085.

28.

Keck Foundation Biotechnology Resource Laboratory, Yale University.

Stone KL, Bjornson RD, Blasko GG, Bruce C, Cofrancesco R, Carriero NJ, Colangelo CM, Crawford JK, Crawford JM, daSilva NC, Deluca JD, Elliott JI, Elliott MM, Flory PJ, Folta-Stogniew EJ, Gulcicek E, Kong Y, Lam TT, Lee JY, Lin A, LoPresti MB, Mane SM, McMurray WJ, Tikhonova IR, Westman S, Williams NA, Wu TL, Hongyu Z, Williams KR.

Yale J Biol Med. 2007 Dec;80(4):195-211. Review. No abstract available.

29.

Proteomics and the analysis of proteomic data: an overview of current protein-profiling technologies.

Gulcicek EE, Colangelo CM, McMurray W, Stone K, Williams K, Wu T, Zhao H, Spratt H, Kurosky A, Wu B.

Curr Protoc Bioinformatics. 2005 Jul;Chapter 13:Unit 13.1. doi: 10.1002/0471250953.bi1301s10. Review.

30.

YPED: a web-accessible database system for protein expression analysis.

Shifman MA, Li Y, Colangelo CM, Stone KL, Wu TL, Cheung KH, Miller PL, Williams KR.

J Proteome Res. 2007 Oct;6(10):4019-24. Epub 2007 Sep 15.

31.

Isotope-coded affinity tags for protein quantification.

Colangelo CM, Williams KR.

Methods Mol Biol. 2006;328:151-8.

PMID:
16785647
32.

YPED: a proteomics database for protein expression analysis.

Shifman MA, Sun K, Colangelo CM, Cheung KH, Miller P, Williams K.

AMIA Annu Symp Proc. 2005:1111.

33.

A simple solid phase mass tagging approach for quantitative proteomics.

Shi Y, Xiang R, Crawford JK, Colangelo CM, Horváth C, Wilkins JA.

J Proteome Res. 2004 Jan-Feb;3(1):104-11.

PMID:
14998170
34.

Structural evidence for a common zinc binding domain in archaeal and eukaryal transcription factor IIB proteins.

Colangelo CM, Lewis LM, Cosper NJ, Scott RA.

J Biol Inorg Chem. 2000 Apr;5(2):276-83.

PMID:
10819473
35.

Kinetic and spectroscopic characterization of the gamma-carbonic anhydrase from the methanoarchaeon Methanosarcina thermophila.

Alber BE, Colangelo CM, Dong J, Stålhandske CM, Baird TT, Tu C, Fierke CA, Silverman DN, Scott RA, Ferry JG.

Biochemistry. 1999 Oct 5;38(40):13119-28.

PMID:
10529183
36.

Monitoring protein expression in whole bacterial cells with MALDI time-of-flight mass spectrometry.

Easterling ML, Colangelo CM, Scott RA, Amster IJ.

Anal Chem. 1998 Jul 1;70(13):2704-9.

PMID:
9666734
37.

Assembly of a [2Fe-2S]2+ cluster in a molecular variant of Clostridium pasteurianum rubredoxin.

Meyer J, Gagnon J, Gaillard J, Lutz M, Achim C, Münck E, Pétillot Y, Colangelo CM, Scott RA.

Biochemistry. 1997 Oct 28;36(43):13374-80.

PMID:
9341230
38.

The N-terminal domain of TFIIB from Pyrococcus furiosus forms a zinc ribbon.

Zhu W, Zeng Q, Colangelo CM, Lewis M, Summers MF, Scott RA.

Nat Struct Biol. 1996 Feb;3(2):122-4.

PMID:
8564536

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