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Selected Proteomics Publications Using Applied Biomics 2D DIGE/ Mass Spectrometry Services
(Over 200 Publications in Recent 5 Years)

 

 

 


No.


Selected Proteomics Publications


Sample Type

324


Mengxiong Pan, Peng Wang, Chengcai Zheng, Hongxia Zhang, Siyang Lin, Bei Shao, Qichuan Zhuge, Kunlin Jin (2017) Aging Systemic Milieu Impairs Outcome after Ischemic Stroke in Rats. Aging and Disease 8:519-530. doi: 10.14336/AD.2017.0710.

Rat serum

323


Acevedo FE, Stanley BA, Stanley A, Peiffer M, Luthe DS, Felton GW (2017) Quantitative proteomic analysis of the fall armyworm saliva. Insect Biochem Mol Biol. 86:81-92. doi: 10.1016/j.ibmb.2017.06.001.

Insect saliva

322


Oseroff C, Christensen LH, Westernberg L, Pham J, Lane J, Paul S, Greenbaum J, Stranzl T, Lund G, Hoof I, Holm J, Würtzen PA, Meno KH, Frazier A, Schulten V, Andersen PS, Peters B, Sette A. (2017) Immunoproteomic analysis of house dust mite antigens reveals distinct classes of dominant T cell antigens according to function and serological reactivity. Clin Exp Allergy. 47:577-592. doi: 10.1111/cea.12829.

House dust mite

321


Panagiota Papanagnou,Theodora Stivarou,Ioannis Papageorgiou,Georgios E Papadopoulos, Anastasios Pappas (2017) Marketed drugs used for the management of hypercholesterolemia as anticancer armament. Onco Targets Ther. 10:4393-4411. doi: 10.2147/OTT.S140483. eCollection 2017.

Human cell line

320


Nancy F. Tojais, Aiqin Cao, Ying-Ju Lai, Lingli Wang, Pin-I Chen, Miguel A. Alejandre Alcazar, Vinicio de Jesus Perez, Rachel K. Hopper, Christopher J. Rhodes, Matthew A. Bill, Lynn Y. Sakai, Marlene Rabinovitch (2017) Codependence of Bone Morphogenetic Protein Receptor 2 and Transforming Growth Factor-β in Elastic Fiber Assembly and Its Perturbation in Pulmonary Arterial Hypertension. Arteriosclerosis, Thrombosis, and Vascular Biology. 2017, ATVBAHA.117.309696. https://doi.org/10.1161/ATVBAHA.117.309696.

Mouse tissue

319


Gill TA, Chu C, Pelz-Stelinski KS (2017) Comparative proteomic analysis of hemolymph from uninfected and Candidatus Liberibacter asiaticus-infected Diaphorina citri. Amino Acids. 49(2):389-406. doi: 10.1007/s00726-016-2373-2.

Insect

318


Garcia V, Gilani A, Shkolnik B, Pandey V, Zhang FF, Dakarapu R, Gandham SK, Reddy NR, Graves JP, Gruzdev A, Zeldin DC, Capdevila JH, Falck JR, Schwartzman ML. (2017) 20- HETE Signals Through G Protein-Coupled Receptor GPR75 (Gq) to Affect Vascular Function and Trigger Hypertension. Circ Res. 120(11):1776-1788. doi: 10.1161/CIRCRESAHA.116.310525. Epub 2017 Mar 21.

Human cell line

317


Morgan MS, Rider SD Jr, Arlian LG (2017) Identification of antigenic Sarcoptes scabiei proteins for use in a diagnostic test and of non-antigenic proteins that may be immunomodulatory. PLoS Negl Trop Dis 11(6): e0005669. https://doi.org/10.1371/journal.pntd.0005669.

Insects

316


Ramzi Lakhdar, Ellen M. Drost, William MacNee, Ricardo Bastos and Roberto A. Rabinovich (2017) 2D-DIGE proteomic analysis of vastus lateralis from COPD patients with low and normal fat free mass index and healthy controls. Respiratory Research (2017) 18:81 DOI 10.1186/s12931-017-0525-x.

Human biopsy

315


Die, Jose V., Arora, Rajeev, Rowland, Lisa J. (2017) Proteome dynamics of cold-acclimating Rhododendron species contrasting in their freezing tolerance and thermonasty behavior. PLoS One 12(5):e0177389. doi: 10.1371/journal.pone.0177389. eCollection 2017.

Plant tissue

314


Qingqing Gu, Uzmee Mendsaikhan, Zaza Khuchua, Byron C Jones, Lu Lu, Jeffrey A Towbin, Biao Xu, Enkhsaikhan Purevjav (2017) Dissection of Z-disc myopalladin gene network involved in the development of restrictive cardiomyopathy using system genetics approach. World J Cardiol. 9: 320-331. Published online Apr 26, 2017. doi: 10.4330/wjc.v9.i4.320.

Mouse tissue

313


Singh RK, Mallela RK, Hayes A, Dunham NR, Hedden ME, Enke RA, Fariss RN, Sternberg H, West MD, Nasonkin IO. (2017) Dnmt1, Dnmt3a and Dnmt3b cooperate in photoreceptor and outer plexiform layer development in the mammalian retina. Exp Eye Res. 159:132-146. https://doi.org/10.1016/j.exer.2016.11.014.

Mouse retina

312


Ramzi Lakhdar, Ellen M. Drost, William MacNee, Ricardo Bastos† and Roberto A. Rabinovich (2017) 2D-DIGE proteomic analysis of vastus lateralis from COPD patients with low and normal fat free mass index and healthy controls. Respir Res. 2017 May 3;18(1):81. doi: 10.1186/s12931-017-0525-x.

Human muscle tissue

311


Thornton KJ, Chapalamadugu KC, Eldredge EM, Murdoch GK. (2017) Analysis of Longissimus thoracis Protein Expression Associated with Variation in Carcass Quality Grade and Marbling of Beef Cattle Raised in the Pacific Northwestern United States. J Agric Food Chem. 65:1434-1442. doi: 10.1021/acs.jafc.6b02795.

Cattle tissue

310


Victor Garcia, Ankit Gilani, Brian Shkolnik, Varunkumar Pandey, Frank F Zhang, Rambabu Dakarapu, Shyam K Gandham, N R Reddy, Joan P Graves, Artiom Gruzdev, Darryl C Zeldin, Jorge H Capdevila, John R Falck, Michal L Schwartzman (2017) 20-HETE Signals Through G Protein-Coupled Receptor GPR75 (Gq) to Affect Vascular Function and Trigger Hypertension. Circ Res. 2017 Mar 21. pii: CIRCRESAHA.116.310525. doi: 10.1161/CIRCRESAHA.116.310525. [Epub ahead of print]

Human cell line

309


Drigeard Desgarnier M-C, Fournier F, Droit A, Rochette PJ (2017) Influence of a pre-stimulation with chronic low-dose UVB on stress response mechanisms in human skin fibroblasts. PLoS ONE 12(3): e0173740. doi:10.1371/journal.pone.0173740.

Human skin biopsies

308


Jacques Deguine, Jessica Wei, Roman Barbalat, Karsten Gronert and Gregory M. Barton (2017) Local TNFR1 Signaling Licenses Murine Neutrophils for Increased TLR-Dependent Cytokine and Eicosanoid Production. J Immunol 198:2865-2875; DOI: https://doi.org/10.4049/jimmunol.1601465.

Mouse cell line

307


Wendell C. Johnson, Naomi S. Taus, Kathryn E. Reif, Gamila A. R. Bohaliga, Lowell S. Kappmeyer, and Massaro W. Ueti (2017) Analysis of stage specific protein expression during Babesia bovis development within female Rhipicephalus microplus. J Proteome Res. 16(3):1327-1338. doi: 10.1021/acs.jproteome.6b00947.

Parasite

306


Koirala P, Huang J, Ho TT, Wu F, Ding X, Mo YY (2017) LncRNA AK023948 is a positive regulator of AKT. Nat Commun. 8:14422. doi: 10.1038/ncomms14422.

Mouse tissue

305


Lopez IA, Acuna D, Edmond J (2017) Modulatory effects of mild carbon monoxide exposure in the developing mouse cochlea. Neurochem Res. 42:151-165. doi: 10.1007/s11064-016-1882-4.

Mouse tissue

304


Norton RL, Fredericks GJ, Huang Z, Fay JD, Hoffmann FW, Hoffmann PR (2017) Selenoprotein K regulation of palmitoylation and calpain cleavage of ASAP2 is required for efficient FcγR-mediated phagocytosis. J Leukoc Biol. 101(2):439-448. doi: 10.1189/jlb.2A0316-156RR.

Mouse tissue

303


MacPherson CW, Shastri P, Mathieu O, Tompkins TA, Burguière P (2017) Genome-Wide Immune Modulation of TLR3-Mediated Inflammation in Intestinal Epithelial Cells Differs between Single and Multi-Strain Probiotic Combination. PLoS ONE : e0169847. doi:10.1371/journal.pone.0169847.

Human cell line

302


Grazyna Nowak, Diana Takacsova-Bakajsova, Judit Megyesi (2017) Deletion of protein kinase C-ε attenuates mitochondrial dysfunction and ameliorates ischemic renal injury. Am J Physiol Renal Physiol. 312(1):F109-F120. doi: 10.1152/ajprenal.00115.2016.

Mouse tissue

301


Cho KI, Yoon D, Qiu S, Danziger Z, Grill WM, Wetsel WC, Ferreira PA (2017) Loss of Ranbp2 in motor neurons causes the disruption of nucleocytoplasmic and chemokine signaling and proteostasis of hnRNPH3 and Mmp28, and the development of amyotrophic lateral sclerosis (ALS)-like syndromes. Dis Model Mech. 2017 Jan 18. pii: dmm.027730. doi: 10.1242/dmm.027730.

Mouse tissue

300


Baris Akinci, Shireesha Sankella, Christopher Gilpin, Keiichi Ozono, Abhimanyu Garg, and Anil K. Agarwal (2017) Progeroid syndrome patients with ZMPSTE24 deficiency could benefit when treated with rapamycin and dimethylsulfoxide. Cold Spring Harb Mol Case Stud. 2017 Jan; 3(1): a001339. doi: 10.1101/mcs.a001339

Human cell line

299


Iyer S, Park MJ, Moons D, Kwan R, Liao J, Liu L, Omary MB (2017) Clusterin and Pycr1 alterations associate with strain and model differences in susceptibility to experimental pancreatitis. Biochem Biophys Res Commun. 482:1346-1352. doi: 10.1016/j.bbrc.2016.12.039.

Mouse tissue

298


Aayudh Das, Moustafa Eldakak, Bimal Paudel, Dea-Wook Kim, Homa Hemmati, Chhandak Basu, and Jai S. Rohila (2016) Leaf Proteome Analysis Reveals Prospective Drought and Heat Stress Response Mechanisms in Soybean. BioMed Research International: Stress Signaling Responses in Plants. Article ID 6021047, 23 pages

Plant tissue

297


İ. İpek Boşgelmez, Gülin Güvendik, Nesrin Dilbaz, Tülay Saraçbaşı, Metin Esen (2016) A Combinatorial Approach in Discrimination of Alcohol Use Disorders: Inclusion of Differentially Expressed Plasma Proteins. http://www.tip.hacettepe.edu.tr/actamedica/2016/MN-96.pdf

N/A

296


Evans H., Flynn A.F. and Mitre E. (2016) Endothelial cells release soluble factors that support the long-term survival of filarial worms in vitro. Experimental Parasitology 170: 50-58. doi: 10.1016/j.exppara.2016.08.004.

Parasite

295


Zheng X, Krakowiak J, Patel N, Beyzavi A, Ezike J, Khalil AS, Pincus D (2016) Dynamic control of Hsf1 during heat shock by a chaperone switch and phosphorylation. Elife. 2016 Nov 10;5. pii: e18638. doi: 10.7554/eLife.18638.

N/A

294


Arishma Rajkarnikar Singh, Andrew Strankman, Ruzan Orkusyan, Endang Purwantini, Mamta Rawat (2016) Lack of mycothiol and ergothioneine induces different protective mechanisms in Mycobacterium smegmatis. Biochemistry and Biophysics Reports. 8: 100–106.

Bacteria

293


Douglas D. Taylor, Cicek Gercel-Taylor (2016) Methods of predicting and decreasing the risk of pre-term birth. United States Patent US9417249 B2

N/A

292


Renault, D., Puzin, C., Foucreau, N., Bouchereau, A. & Petillon, J. (2016) Chronic exposure to soil salinity in terrestrial species: Does plasticity and underlying physiology differ among specialized ground-dwelling spiders? Journal of insect physiology Volume 90:49–58. DOI:10.1016/j.jinsphys.2016.05.005

Insect

291


Jinghua Yang, Yuan Zhou, Luxia Zhang, Nehal Shah, Cheng Jin, Robert J. Palmer, Jr., John O. Cisar (2016) Cell Surface Glycoside Hydrolases of Streptococcus gordonii Promote Growth in Saliva. Applied and Environmental Microbiology 82: 5278-5286. doi: 10.1128/AEM.01291-16.

Bacteria

290


Abdelaal Shamseldin, Wafaa M. Abd El-Rahim, Hassan Moawad, and Michael J. Sadowsky (2016) Use of Proteomic Tools to Analyze Genes Involved in Thermal- and AlkalineTolerance Rhizobium Strains Nodulating Egyptian Clover. Research Journal of Pharmaceutical, Biological and Chemical Sciences. 7: 2994-3004.

Bacteria

289


Mary Sourial and Laurie C. Doering (2016) Astrocyte-Secreted Factors Selectively Alter Neural Stem and Progenitor Cell Proliferation in the Fragile X Mouse. Front Cell Neurosci. 2016; 10: 126. . doi: 10.3389/fncel.2016.00126

Mouse tissue

288


Genevieve Beauvais, Nicole M. Bode, Jaime L. Watson, Hsiang Wen, Kevin A. Glenn, Hiroyuki Kawano, N. Charles Harata, Michelle E. Ehrlich and Pedro Gonzalez-Alegre (2016) Disruption of protein processing in the endoplasmic reticulum of DYT1 knock-in mice implicates novel pathways in dystonia pathogenesis. Journal of Neuroscience 36: 10245-10256

Mouse tissue

287


Tsui-Ting Ho, Jianguo Huang, Nanjiang Zhou, Ziqiang Zhang, Pratirodh Koirala, Xinchun Zhou, Fangting Wu, Xianfeng Ding & Yin-Yuan Mo (2016) Regulation of PCGEM1 by p54/nrb in prostate cancer. Scientific Reports 6, Article number: 34529, doi:10.1038/srep34529

Human biopsy

286


Gupta, N, Thakker S and Verma SC. (2016) KSHV encoded LANA recruits Nucleosome Assembly Protein NAP1L1 for regulating viral DNA replication and transcription. Sci. Rep. 6, 32633; doi: 10.1038/srep32633.

Virus

285


Bermudez JY, Webber HC, Patel GC, Yan LY, Clark AF, Mao WM (2016) Two-Dimensional Differential In-Gel Electrophoresis (2D-DIGE) Reveals Proteins Associated with Cross-Linked Actin Networks in Human Trabecular Meshwork Cells. J Clin Exp Ophthalmol 7:584. doi:10.4172/2155-9570.1000584

Human cell line

284


Jpek Boşgelmez, Gülin Guvendik, Nesrin Dilbaz, Tulay Saracbasi, Metin Esen (2016) A Combinatorial Approach in Discrimination of Alcohol Use Disorders: Inclusion of Differentially Expressed Plasma Proteins. Acta Medica 5: 99–108. www.tip.hacettepe.edu.tr/actamedica/2017/Acta16(18)%20.pdf

Human fluid

283


Douglas B. Kuhns et al. (2016) Cytoskeletal abnormalities and neutrophil dysfunction in WDR1 deficiency. Blood 2016 128:2135-2143

Human biopsy

282


Sukrutha Chettimada, Sachindra Raj Joshi, Vidhi Dhagia, Alessandro Aiezza II, Thomas M. Lincoln, Rakhee Gupte, Joseph M. Miano, Sachin A Gupte (2016) Vascular smooth muscle cell contractile protein expression is increased through PKG-dependent and -independent pathways by G6PD inhibition and deficiency. Am J Physiol Heart Circ Physiol. Vol. 311 no. 4, H904-H912 DOI: 10.1152/ajpheart.00335.2016

Mouse tissue

281


Yasuda, Ryohei and Szatmari, Erzsebet (2016) Memory Performance and Prevention and Treatment of Neurodegenerative Diseases. United States Patent Application 20160213632.

N/A

280


Michael C. Salling, Sara P. Faccidomo, Chia Li, Kelly Psilos, Christina Galunas, Marina Spanos, Abigail E. Agoglia, Thomas L. Kash, Clyde W. Hodge. (2016) Moderate Alcohol Drinking and the Amygdala Proteome: Identification and Validation of Calcium/Calmodulin Dependent Kinase II and AMPA Receptor Activity as Novel Molecular Mechanisms of the Positive Reinforcing Effects of Alcohol. Biological Psychiatry. 79: 430–442.

Mouse brain

279


Cheng S, Liang X, Wang Y, Jiang Z, Liu Y, Hou W, Li S, Zhang J, Wang Z. (2016) The circadian Clock gene regulates acrosin activity of sperm through serine protease inhibitor A3K. Exp Biol Med (Maywood). 241(2):205-15. doi: 10.1177/1535370215597199.

Mouse sperm

278


Die JV, Arora R, Rowland LJ (2016) Global patterns of protein abundance during the development of cold hardiness in blueberry. Environmental and Experimental Botany 124:11-21.

Plant

277


Aayudh Das, Moustafa Eldakak, Bimal Paudel, Dea-Wook Kim, Homa Hemmati, Chhandak Basu, and Jai S. Rohila. (2016) Leaf Proteome Analysis Reveals Prospective Drought and Heat Stress Response Mechanisms in Soybean. BioMed Research International. Volume 2016 (2016), Article ID 6021047, 23 pages.

Plant leaf

276


Bimal Paudel, Aayudh Das, Michaellong Tran1, Arvid Boe, Nathan A. Palmer, Gautam Sarath, Jose L. Gonzalez-Hernandez, Paul J. Rushton and Jai S. Rohila (2016) Proteomic Responses of Switchgrass and Prairie Cordgrass to Senescence. Front. Plant Sci., 14 March 2016

Plant leaf

275


Taruna Khurana, Shoshana Newman-Lindsay, Philip R. Young, Jay E. Slater (2016) The NPC2 protein: A novel dog allergen. Annals of Allergy, Asthma & Immunology. May 2016 Volume 116, Issue 5, Pages 440–446.e2

Dog

274


Fischer CL, Dawson DV, Blanchette DR, Drake DR, Wertz PW, Brogden KA. (2016) Protein analysis of sapienic acid-treated Porphyromonas gingivalis suggests differential regulation of multiple metabolic pathways. J Bacteriol 198:157–167. doi:10.1128/JB.00665-15.

Bacteria

273


Merched AJ, Daret D,Li L,Franzl N,Sauvage-Merched M (2016) Specific autoantigens in experimental autoimmunity-associated atherosclerosis. FASEB J. 30:2123-2134. doi: 10.1096/fj.201500131.

Mouse tissue

272


Grieger JC, Soltys SM, Samulski RJ. (2016) Production of recombinant adeno-associated virus vectors using suspension HEK293 cells and continuous harvest of vector from the culture media for GMP FIX and FLT1 clinical vector. Mol Ther. 24:287-297. doi: 10.1038/mt.2015.187.

Human cell line

271


Li, Ying-Ying, (2016) ;BRAF Inhibitor (Vemurafenib) Resistance Confers Sensitivity to Arginine Deprivation in Melanoma. Open Access Dissertations. Paper 1603.

N/A

270


Kanekura K, Yagi T, Cammack AJ, Mahadevan J, Kuroda M, Harms MB, Miller TM, Urano F. (2016) Poly-dipeptides encoded by the C9ORF72 repeats block global protein translation. Hum Mol Genet. 25:1803-1813. doi: 10.1093/hmg/ddw052.

Human biopsy

269


Mamai, W, Simard, F, Couret, D, Ouedraogo, G A, Renault, D, Dabiré, K R, Mouline, K (2016) Monitoring Dry Season Persistence of Anopheles gambiae s.l. Populations in a Contained Semi-Field System in Southwestern Burkina Faso, West Africa. Journal of Medical Entomology 53: 130–138.

Insect

268


Stefano Rossetti, Wiam Bshara, Johanna A. Reiners, Francesca Corlazzoli, Austin Miller, Nicoletta SacchI (2016) Harnessing 3D models of mammary epithelial morphogenesis: An off the beaten path approach to identify candidate biomarkers of early stage breast cancer. Cancer Letter 380: 375–383.

Cell line

267


Mary Sourial and Laurie C. Doering (2016) Astrocyte-secreted factors selectively alter neural stem and progenitor cell proliferation in the fragile X mouse. Front Cell Neurosci. 2016; 10: 126. doi: 10.3389/fncel.2016.00126

Mouse tissue

266


McCracken ML, Gorini G, McCracken LM, Mayfield RD, Harris RA, Trudell JR (2016) Inter- and intra-subunit butanol/Isoflurane sites of action in the human glycine receptor. Front Mol Neurosci. 2016 Jun 14;9:45. doi: 10.3389/fnmol.2016.00045. eCollection 2016.

Cell line

265


Yang J, Zhou Y, Zhang L, Shah N, Jin C, Palmer RJ Jr, Cisar JO. (2016) Cell-surface glycoside hydrolases of Streptococcus gordonii promote growth in saliva. Appl Environ Microbiol. 82: 5278-5286. doi: 10.1128/AEM.01291-16

Bacteria

264


Gonzalez-Carrillo C, Saucedo-Millan C, Garza-Lozano HG, Ortiz-Lopez R, Elizondo-Gonzalez R, Welsh O, Ocampo-Candiani J, Vera-Cabrera L. (2016). Genomic changes associated with the loss of nocardia brasiliensis virulence virulence toward mice after two-hundred in vitro passages. Infect Immun. 84:2595-2606. doi: 10.1128/IAI.00329-16.

Mouse tissue

263


Mendonça M, Moreira GMSG, Conceição FR, Hust M, Mendonça KS, Moreira ÂN, et al. (2016) Fructose 1,6-Bisphosphate Aldolase, a Novel Immunogenic Surface Protein on Listeria Species. PLoS ONE 11(8): e0160544. doi:10.1371/journal.pone.0160544

Bacteria

262


K. Kotlo, A. M. Samarel, H. Y. Chen, J. Aldstadt, and R. S. Danziger (2016). Global comparison of phosphoproteins in human and rodent hearts: implications for translational studies of myosin light chain and troponin phosphorylations. Springerplus. 2016; 5(1): 808. Published online 2016 Jun 21. doi: 10.1186/s40064-016-2469-x

Human and Rat tissue

261


Yan Huang, Corey Powers, Satish K. Madala, Kenneth D. Greis, Wendy D. Haffey, Jeffrey A. Towbin, Enkhsaikhan Purevjav, Sabzali Javadov, Arnold W. Strauss, and Zaza Khuchua (2015) Cardiac Metabolic Pathways Affected in the Mouse Model of Barth Syndrome. PLoS One. 2015; 10(6): e0128561. doi: 10.1371/journal.pone.0128561.

Mouse tissue

260


Bajsa J, Pan Z, Duke SO (2015) Cantharidin, a protein phosphatase inhibitor, strongly upregulates detoxification enzymes in the Arabidopsis proteome. J Plant Physiol. 173: 33-40. doi: 10.1016/j.jplph.2014.09.002

Plant tissue

259


Venkatesh HS, Johung TB, Caretti V, Noll A, Tang Y, Nagaraja S, Gibson EM, Mount CW, Polepalli J, Mitra SS, Woo PJ, Malenka RC, Vogel H, Bredel M, Mallick P, Monje M. (2015) Neuronal Activity Promotes Glioma Growth through Neuroligin-3 Secretion. Cell 161(4):803-16. doi: 10.1016 j.cell.2015.04.012. Epub 2015 Apr 23.

Human biopsy tissue

258


Das JK1, Felty Q. (2015) Microvascular Lesions by Estrogen-Induced ID3: Its Implications in Cerebral and Cardiorenal Vascular Disease. J Mol Neurosci. 55: 618-631.

Cell line

257


Ramani, K., Donoyan, S., Tomasi, M. L. and Park, S. (2015) Role of Methionine Adenosyltransferase α2 and β Phosphorylation and Stabilization in Human Hepatic Stellate Cell Trans-Differentiation. Journal of Cellular Physiology 230: 1075-1085.

Cell line

256


Grazyna Nowak and Diana Bakajsova (2015) Protein Kinase C-a Interaction with F0F1-ATPase Promotes F0F1-ATPase Activity and Reduces Energy Deficits in Injured Renal Cells. J Biol Chem. 290: 7054-7066. doi:10.1074/jbc.M114.588244.

Mitochondria

255


Davis AL, Qiao S, Lesson JL, Rojo de la Vega M, Park SL, Seanez CM, Gokhale V, Cabello CM, Wondrak GT. (2015) The Quinone Methide Aurin Is a Heat Shock Response Inducer That Causes Proteotoxic Stress and Noxa-dependent Apoptosis in Malignant Melanoma Cells. J. Biol. Chem. 290: 1623-1638.

Human cell line

254


Kalinowska M, Castillo C, Francesconi A (2015) Quantitative Profiling of Brain Lipid Raft Proteome in a Mouse Model of Fragile X Syndrome. PLoS ONE 10(4): e0121464. doi:10.1371/journal.pone.0121464

Mouse tissue

253


Micanovic R, Khan S, El-Achkar TM (2015) Immunofluorescence laser micro-dissection of specific nephron segments in the mouse kidney allows targeted downstream proteomic analysis. Physiol Rep. 2015 Feb 12;3(2). pii: e12306. doi: 10.14814/phy2.12306.

Mouse kidney

252


Sukrutha Chettimada , Rakhee Gupte , Dhwajbahadur Rawat , Sarah A. Gebb , Ivan F. McMurtry , Sachin A. Gupte (2015) Hypoxia-induced glucose-6-phosphate dehydrogenase overexpression and -activation in pulmonary arterysmooth muscle cells: implication in pulmonary hypertension. Am J Physiol Lung Cell Mol Physiol. 2015 Feb 1;308(3):L287-300. doi: 10.1152/ajplung.00229.2014

Rat tissue

251


Rabadi MM, Xavier S, Vasko R, Kaur K, Goligorksy MS, Ratliff BB (2015) High-mobility group box 1 is a novel deacetylation target of Sirtuin1.Kidney International 87: 95–108.

Mammalian cell line

250


Yi-Chinn Weng, Guona Wang, Robert O Messing, Wen-Hai Chou (2015) Identification of lipocalin-2 as a PKC¦Ä phosphorylation substrate in neutrophils. Journal of Biomedical Science 22:21 doi:10.1186/s12929-015-0129-z

N/A

249


Park SL, Justiniano R, Williams JD, Cabello CM, Qiao S, Wondrak GT. (2015) The Tryptophan-Derived Endogenous Aryl Hydrocarbon Receptor Ligand 6-Formylindolo[3,2-b]Carbazole Is a Nanomolar UVA Photosensitizer in Epidermal Keratinocytes. J Invest Dermatol. 135:1649-1658. doi: 10.1038/jid.2014.503.

Cell line

248


Poon E, Keung W, Liang Y, Ramalingam R, Yan B, Zhang S, Chopra A, Moore J, Herren A, Lieu DK, Wong HS, Weng Z, Wong OT, Lam YW, Tomaselli GF, Chen C, Boheler KR, Li RA. (2015) Proteomic Analysis of Human Pluripotent Stem Cell-Derived, Fetal, and Adult Ventricular Cardiomyocytes Reveals Pathways Crucial for Cardiac Metabolism and Maturation. Circ Cardiovasc Genet. 8:427-436. doi:10.1161/CIRCGENETICS.114.000918. Epub 2015 Mar 10.

Human stem cells

247


Huang Y, Powers C, Madala SK, Greis KD, Haffey WD, Towbin JA, et al. (2015) Cardiac Metabolic Pathways Affected in the Mouse Model of Barth Syndrome. PLoS ONE 10(6): e0128561. doi:10.1371/journal.pone.0128561

Mouse tissue

246


Helenius TO, Misiorek JO, Nyström JH, Fortelius LE, Habtezion A, Liao J, Asghar MN, Zhang H, Azhar S, Omary MB, Toivola DM. (2015) Keratin 8 absence down-regulates colonocyte HMGCS2 and modulates colonic ketogenesis and energy metabolism. Mol Biol Cell. 26(12):2298-2310. doi: 10.1091/mbc.E14-02-0736. Epub 2015 Apr 22. PMID: 25904331

Mouse tissue

245


Yan Huang, Corey Powers, Satish K. Madala, Kenneth D. Greis, Wendy D. Haffey, Jeffrey A. Towbin, Enkhsaikhan Purevjav, Sabzali Javadov, Arnold W. Strauss, Zaza Khuchua. (2015) Cardiac Metabolic Pathways Affected in the Mouse Model of Barth Syndrome, PLOS ONE,10(6):e0128561. doi: 10.1371/journal.pone.0128561.

Mouse tissue

244


Qing Zhou, Huiqing Hu, Cynthia Y. He, and Ziyin Li (2015) Assembly and maintenance of the flagellum attachment zone filament in Trypanosoma brucei. J Cell Sci. 128: 2361-2372.

Trypanosoma brucei

243


Winkler CW, Race B, Phillips K, Peterson KE. (2015) Capillaries in the olfactory bulb but not the cortex are highly susceptible to virus-induced vascular leak and promote viral neuroinvasion. Acta Neuropathol. 130(2):233-245. doi: 10.1007/s00401-015-1433-0.

Mouse cell line

242


Hato T, Winfree S, Kalakeche R, Dube S, Kumar R, Yoshimoto M, Plotkin Z, Dagher PC (2015) The Macrophage Mediates the Renoprotective Effects of Endotoxin Preconditioning. J Am Soc Nephrol. 26(6):1347-1362. doi: 10.1681/ASN.2014060561.

Mouse tissue

241


Forde N, Bazer FW, Spencer TE, Lonergan P. (2015) Conceptualizing’ the Endometrium: Identification of Conceptus-Derived Proteins During Early Pregnancy in Cattle. Biol Reprod. 92(6):156. doi: 10.1095/biolreprod.115.129296.

Cattle body fluid

240


Maureen F. Peterson, Nicole Otoc, Jasmine K. Sethi, Archana Gupta, Travis J. Antes (2015) Methods, Volume 87, 1 October 2015, Pages 31–45

N/A

239


Sol-Rim Jeon, Jae-Wook Lee, Pil-Sang Jang, Nack-Gyun Chung, Bin Cho, and Dae-Chul Jeong (2015) Anti-leukemic properties of deferasirox via apoptosis in murine leukemia cell lines. Blood Res. 50:33–39.

Cell line

238


Douglas D. Taylor (Louisville, KY, US) Douglas D. Taylor (Louisville, KY, US) Cicek Gercel-Taylor (Louisville, KY, US) (2015) METHODS OF PREDICTING AND DECREASING THE RISK OF PRE-TERM BIRTH. US Patent Patent application number: 20150160230

N/A

237


Fisher DJ, Adams NE, Maurelli AT. (2015) Phosphoproteomic analysis of the Chlamydia caviae elementary body and reticulate body forms. Microbiology. 161:1648-1658. doi: 10.1099/mic.0.000116. Epub 2015 May 21.

Bacteria

236


Stephan JS, Fioriti L, Lamba N, Colnaghi L, Karl K, Derkatch IL, Kandel ER (2015) The CPEB3 Protein Is a Functional Prion that Interacts with the Actin Cytoskeleton. Cell Rep. 11:1772-1785. doi: 10.1016/j.celrep.2015.04.060. Epub 2015 Jun 11.

Yeast

235


K. Hidalgo, K. Mouline, W. Mamai, N. Foucreau, K.R. Dabiré, A. Bouchereau, F. Simard, D. Renault. (2015) Combining two-dimensional gel electrophoresis and metabolomic data in support of dry-season survival in the two main species of the malarial mosquito Anopheles gambiae. Data in Brief, Volume 5: 255–268

Insect

234


PSingh AK, Drolia R, Bai X, Bhunia AK (2015) Streptomycin Induced Stress Response in Salmonella enterica Serovar Typhimurium Shows Distinct Colony Scatter Signature. PLoS ONE. 10(8):e0135035. doi:10.1371/journal.pone.0135035.

Bacteria

233


Johnson-Kerner BL, Garcia Diaz A, Ekins S, Wichterle H (2015) Kelch Domain of Gigaxonin Interacts with Intermediate Filament Proteins Affected in Giant Axonal Neuropathy. PLoS ONE 10(10): e0140157. doi:10.1371/journal.pone.0140157

Human cell line

232


Somnath Pandey, Glenn E. Simmons Jr., Svitlana Malyarchuk, Tara N. Calhoun, and Kevin Pruitt. (2015) A novel MeCP2 acetylation site regulates interaction with ATRX and HDAC1. Genes & Cancer, Vol. 6 (9-10), 408-421.

Human cell line

231


Ooi TE, Yeap WC, Daim LD, Ng BZ, Lee FC, Othman AM, Appleton DR, Chew FT, Kulaveerasingam H. (2015) Differential abundance analysis of mesocarp protein from high- and low yielding oil palms associates non-oil biosynthetic enzymes to lipid biosynthesis.  Proteome Science 13:28 DOI 10.1186/s12953-015-0085-2

Plant

230


Gohei Hayashi et al. (2015) 2D-DIGE-based proteome expression changes in leaves of rice seedlings exposed to low-level gamma radiation at Iitate village, Fukushima. Plant Signaling & Behavior. DOI: 10.1080/15592324.2015.1103406

Plant

229


Tanya Brown & Mauricio Rodriguez-Lanetty (2015) Defending against pathogens – immunological priming and its molecular basis in a sea anemone, cnidarians. Scientific Reports 5:17425. DOI: 10.1038/srep17425.

Sea anemone

228


Shi J, Wang Y, Zeng L, Wu Y, Deng J, Zhang Q, Lin Y, Li J, Kang T, Tao M, Rusinova E, Zhang G, Wang C, Zhu H, Yao J, Zeng YX, Evers BM, Zhou MM, Zhou BP (2014) Disrupting the interaction of BRD4 with diacetylated Twist suppresses tumorigenesis in basal-like breast cancer. Cancer Cell 25: 210-225. doi: 10.1016/j.ccr.2014.01.028.

N/A

227


Patil H, Saha A, Senda E, Cho KI, Haque M, Yu M, Qiu S, Yoon D, Hao Y, Peachey NS, Ferreira PA. (2014) Selective impairment of a subset of Ran-GTP-binding domains of ran-binding protein 2 (Ranbp2) suffices to recapitulate the degeneration of the retinal pigment epithelium (RPE) triggered by Ranbp2 ablation. J Biol Chem. 289:29767-29789. doi: 10.1074/jbc.M114.586834.

Mouse tissue

226


Leiphrakpam PD, Rajput A, Mathiesen M, Agarwal E, Lazenby AJ, Are C, Brattain MG, Chowdhury S. (2014) Ezrin expression and cell survival regulation in colorectal cancer. Cellular Signalling. 26:868-879. doi: 10.1016/j.cellsig.2014.01.014.

Human tissue

225


Alexis Jones, Danielle Kainz, Faatima Khan, Cara Lee and Michael D. Carrithers (2014) Human macrophage SCN5A activates an innate immune signaling pathway for anti-viral host defense. J Biol Chem. 289: 35236-35240.

Human macrophage

224


Bowman J, Ghosh P. (2014) A complex regulatory network controlling intrinsic multidrug resistance in Mycobacterium smegmatis. Mol Microbiol. 91(1):121-134.

Bacteria

223


Cho KI, Patil H, Senda E, Wang J, Yi H, Qiu S, Yoon D, Yu M, Orry A, Peachey NS, Ferreira PA. (2014) Differential Loss of Prolyl-Isomerase or Chaperone Activity of Ran-binding protein 2 (Ranbp2) Unveils Distinct Physiological Roles of Its Cyclophilin Domain in Proteostasis. J Biol Chem. 289: 4600-4625.

Mouse tissue

222


Sang Y, Brichalli W, Rowland RRR, Blecha F (2014) Genome-Wide Analysis of Antiviral Signature Genes in Porcine Macrophages at Different Activation Statuses. PLoS ONE 9(2): e87613. doi:10.1371/journal.pone.0087613

Macrophages

221


Wu Z, Sahin O, Wang F, Zhang Q. (2014) Proteomic identification of immunodominant membrane-related antigens in Campylobacter jejuni associated with sheep abortion. J Proteomics. 99C:111-122. doi:10.1016/j.jprot.2014.01.018.

Bacteria

220


Das A, Durrant D, Koka S, Salloum FN, Xi L, Kukreja RC. (2014) Mammalian Target of Rapamycin (mTOR) Inhibition with Rapamycin Improves Cardiac Function in Type 2 Diabetic Mice: POTENTIAL ROLE OF ATTENUATED OXIDATIVE STRESS AND ALTERED CONTRACTILE PROTEIN EXPRESSION.  J Biol Chem. 289: 4145-4160.

Mouse tissue

219


Le TT, Urasaki Y, Pizzorno G (2014) Uridine Prevents Fenofibrate-Induced Fatty Liver. PLoS ONE 9(1): e87179. doi:10.1371/journal.pone.0087179

Mouse tissue

218


Chinmay Munje, Leroy Shervington, Zarine Khan, and Amal Shervington (2014) Could Upregulated Hsp70 Protein Compensate for the Hsp90-Silence-Induced Cell Death in Glioma Cells? International Journal of Brain Science Volume 2014, Article ID 652643, 9 pages.

Cell line

217


Ranjana Mitra, Oscar B Goodman and Thuc T Le (2014) Enhanced detection of metastatic prostate cancer cells in human plasma with lipid bodies staining. BMC Cancer, 14:91. doi: 10.1186/1471-2407-14-91.

Human plasma

216


Michael P. Lisanti, Sotgia Federica (2014) Biomarkers and their uses in cancer detection and therapy. US Patent: US 20140026234 A1.

Human tissue

215


Anuradha Subramanian, Joseph Turner (2014) Methods of using ultrasound in tissue culture and tissue engineering. US Patent: US 20140038257 A1.

Tissue

214


Presley GN, Payea MJ, Hurst LR, Egan AE, Martin BS, Periyannan GR. (2014) Extracellular gluco-oligosaccharide degradation by Caulobacter crescentus. Microbiology. 160: 635-645.

Cell line

213


Hiroaki Ishikawa, Takahiro Ide, Toshiki Yagi, Xue Jiang, Masafumi Hirono, Hiroyuki Sasaki, Haruaki Yanagisawa, Kimberly A Wemmer, Didier YR Stainier, Hongmin Qin, Ritsu Kamiya, Wallace F Marshall (2014) TTC26/DYF13 is an intraflagellar transport protein required for transport of motility-related proteins into flagella. eLife. 3:e01566. DOI: 10.7554/eLife.01566

Flagellar

212


Baomin Li, Juan Manuel Iglesias-Pedraz, Leng-Ying Chen, Fei Yin, Enrique Cadenas, Sita Reddy and Lucio Comai (2014) Downregulation of the Werner syndrome protein induces a metabolic shift that compromises redox homeostasis and limits proliferation of cancer cells. Aging Cell 13: 367-378.

Cell line

211


Helaine M. Alessio, Hayden Ansinelli, Caitlyn Threadgill, and Ann E. Hagerman (2014) Comparison of Gene and Protein Expressions in Rats Residing in Standard Cages with Those Having Access to an Exercise Wheel. BioMed Research International. Volume 2014, Article ID 950516, 9 Pages

Rat tissue

210


Burns G1, Brooks K, Wildung M, Navakanitworakul R, Christenson LK, Spencer TE. (2014) Extracellular vesicles in luminal fluid of the ovine uterus. PLoS One. 9: e90913. doi: 10.1371/journal.pone.0090913. 

Sheep tissue

209


Banerjee HN, Hyman G, Evans S, Manglik V, Gwebu E, Banerjee A, Vaughan D,  Medley J, Krauss C, Wilkins J, Smith V, Banerji A and Rousch J (2014) Identification of the Transmembrane Glucose Regulated Protein 78 as a Biomarker for the Brain Cancer Glioblastoma Multiforme by Gene Expression and Proteomic Studies. J Membra Sci Technol 4: 126. doi:10.4172/2155-9589.1000126

Human tissue

208


Jairo Amortegui,  Alexander Rodríguez-López, Deicy Rodríguez, Ana K. Carrascal, Carlos J. Alméciga-Díaz, Adelina del P. Melendez, Oscar F. Sánchez (2014) Characterization of a New Bacteriocin from Lactobacillus plantarum LE5 and LE27 Isolated from Ensiled Corn. Applied Biochemistry and Biotechnology 172:3374-3389. doi: 10.1007/s12010-014-0757-x.

Cell line

207


Forde N, McGettigan PA, Mehta JP, O'Hara L, Mamo S, Bazer FW, Spencer T, Lonergan P. (2014) Proteomic analysis of uterine fluid during the pre-implantation period of pregnancy in cattle. Reproduction 147:575-587. doi: 10.1530/REP-13-0010.

Cell line

206


Liu XF, Yu JQ, Dalan R, Liu AQ, Luo KQ. (2014) Biological factors in plasma from diabetes mellitus patients enhance hyperglycaemia and pulsatile shear stress-induced endothelial cell apoptosis. Integr Biol (Camb). 6(5):511-522. doi: 10.1039/c3ib40265g.

Human cell line

205


Mustafi SB, Grose JH, Zhang H, Pratt GW, Sadoshima J, Christians E, Benjamin I. (2014) Aggregate-prone R120GCRYAB triggers multifaceted modifications of the Thioredoxin System. Antioxid Redox Signal. 20:2891-2906. doi:10.1089/ars.2013.5340.

Mouse tissue

204


Sridharan V, Aykin-Burns N, Tripathi P, Krager KJ, Sharma SK, Moros EG, Corry PM, Nowak G, Hauer-Jensen M, Boerma M. (2014) Radiation-induced alterations in mitochondria of the rat heart. Radiat Res. 181:324-334.

Rat tissue

203


Abdi K, Singh NJ, Spooner E, Kessler BM, Radaev S, Lantz L, Xiao TS, Matzinger P, Sun PD, Ploegh HL. (2014) Free IL-12p40 Monomer Is a Polyfunctional Adaptor for Generating Novel IL-12-like Heterodimers Extracellularly. J Immunol. 192:6028-6036. doi: 10.4049/jimmunol.1400159.

Cell line

202


Das JK, Felty Q (2014) PCB153-Induced Overexpression of ID3 Contributes to the Development of Microvascular Lesions. PLoS ONE 9(8): e104159. doi:10.1371/journal.pone.0104159

Cell line

201


Banerjee HN, Hyman G, Evans S, Manglik V, Gwebu E, et al. (2014) Identification of the Transmembrane Glucose Regulated Protein 78 as a Biomarker for the Brain Cancer Glioblastoma Multiforme by Gene Expression and Proteomic Studies. J Membra Sci Technol 4: 126. doi:10.4172/2155-9589.1000126

Human tissue

200


Yavuz S, Kasap M, Akpinar G, Ozbudak E, Ural D4, Berki T. (2014) Analysis of pericardial effusion from idiopathic pericarditis patients by two-dimensional gel electrophoresis. BioMed Research International Volume 2014 (2014), Article ID 942718, 7 pages.

Human body fluid

199


Jiang X, Ye X, Guo W, Lu H, Gao Z. (2014) Inhibition of HDAC3 promotes ligand-independent PPARã activation by protein acetylation. J Mol Endocrinol. 53:191-200. doi: 10.1530/JME-14-0066.

Human tissue

198


Schneider JL, Suh Y, Cuervo AM. (2014) Deficient Chaperone-Mediated Autophagy in Liver Leads to Metabolic Dysregulation. Cell Metab. 20:417-432. doi: 10.1016/j.cmet.2014.06.009.

Human body fluid

197


Nothnick WB, Graham A, Holbert J, Weiss MJ (2014) miR-451 Deficiency Is Associated with Altered Endometrial Fibrinogen Alpha Chain Expression and Reduced Endometriotic Implant Establishment in an Experimental Mouse Model. PLoS ONE 9(6): e100336. doi:10.1371/journal.pone.0100336

Mouse tissue

196


Williams JD, Bermudez Y, Park SL, Stratton SP, Uchida K, Hurst CA, Wondrak GT. (2014) Malondialdehyde-derived epitopes in human skin result from acute exposure to solar UV and occur in nonmelanoma skin cancer tissue. J Photochem Photobiol B. 132:56-65. doi: 10.1016/j.jphotobiol.2014.01.019.

Human cell line

195


Jing-Hung Wang, Rachna Singh, Michael Benoit, Mimi Keyhan, Matthew Sylvester, Michael Hsieh, Anuradha Thathireddy, Yi-Ju Hsieh, A. C. Matina (2014) Sigma S-Dependent Antioxidant Defense Protects Stationary-Phase Escherichia coli against the Bactericidal Antibiotic Gentamicin. Antimicrob Agents Chemother. 58(10):5964-5975. doi: 10.1128/AAC.03683-14.

Bacteria

194


Maddi A, Haase EM, Scannapieco FA (2014) Mass Spectrometric Analysis of Whole Secretome and Amylase-precipitated Secretome Proteins from Streptococcus gordonii. J Proteomics Bioinform 7: 287-295. doi:10.4172/jpb.1000331

Bacteria

193


Yasuyo Urasaki, Giuseppe Pizzorno, and Thuc T. Le (2014) Uridine Affects Liver Protein Glycosylation, Insulin Signaling, and Heme Biosynthesis. PLoS One 9(6): e99728.

Mouse tissue

192


Maddi A, Haase EM and Scannapieco FA (2014) Mass Spectrometric Analysis of Whole Secretome and Amylase-precipitated Secretome Proteins from Streptococcus gordonii. J Proteomics Bioinform 7:9.

Bacteria

191


Hidalgo K, Mouline K, Mamai W, Foucreau N, Dabiré KR, Bouchereau A, Simard F, Renault D (2014) Novel insights into the metabolic and biochemical underpinnings assisting dry-season survival in female malaria mosquitoes of the Anopheles gambiae complex. Journal of Insect Physiology. 70:102-116.

Insect

190


Michael C. Salling, Sara P. Faccidomo, Chia Li, Kelly Psilos, Christina Galunas, Marina Spanos, Abigail E. Agoglia, Thomas L. Kash, Clyde W. Hodge (2014) Moderate Alcohol Drinking and the Amygdala Proteome: Identification and Validation of CaMKII and AMPAR Activity as Novel Molecular Mechanisms of the Positive Reinforcing Effects of Alcohol. Biological Psychiatry. DOI:10.1016/j.biopsych.2014.10.020

Mouse tissue

189


Douglas D. Taylor, Cicek Gercel-Taylor (2014) Methods of predicting and decreasing the risk of pre-term birth. European Patent: EP 2756302 A1

N/A

188


Gupta D, Eldakak M, Rohila JS, Basu C. (2014) Biochemical analysis of 'kerosene tree' Hymenaea courbaril L. under heat stress. Plant Signal Behav. 9:e972851. doi: 10.4161/15592316.2014.972851.

Plant leaf

187


Pflughoeft KJ1, Swick MC, Engler DA, Yeo HJ, Koehler TM. (2014) Modulation of the Bacillus anthracis secretome by the immune inhibitor A1 protease. J Bacteriol. 196: 424-435.

Bacteria

186


Marman HE, Mey AR, Payne SM. (2014) Elongation factor P and modifying enzyme PoxA are necessary for virulence of Shigella flexneri. Infect Immun. 82:3612-3621. doi: 10.1128/IAI.01532-13.

Bacteria

185


Alessandro Sette, Veronique Schulten, Howard Grey, Bjoern Peters, Jason Greenbaum (2013) Timothy grass allergens and methods and uses for immune response modulation. Patent: WO 2013119863 A1

Mouse tissue

184


Robbins ML, Roy A, Wang PH, Gaffoor I, Sekhon RS, de O Buanafina MM, Rohila JS, Chopra S. (2013) Comparative proteomics analysis by DIGE and iTRAQ provides insight into the regulation of phenylpropanoids in maize. J Proteomics. 93:254-75. doi: 10.1016/j.jprot.2013.06.018.

Maize

183


Hickman SE, Kingery ND, Ohsumi TK, Borowsky ML, Wang LC, Means TK, Khoury JE. (2013) The microglial sensome revealed by direct RNA sequencing. Nature Neurosciences. 16:1896-1905.

Human tissue

182


Schulten V, Greenbaum JA, Hauser M, McKinney DM, Sidney J, Kolla R, Lindestam Arlehamn CS, Oseroff C, Alam R, Broide DH, Ferreira-Briza F, Grey HM, Sette A, Peters B. (2013) Previously undescribed grass pollen antigens are the major inducers of T helper 2 cytokine-producing T cells in allergic individuals. PNAS USA 110:3459-3464.

Human cell line

181


Gupta P, Sothiselvam S, Vázquez-Laslop N, Mankin AS. (2013) Deregulation of translation due to post-transcriptional modification of rRNA explains why erm genes are inducible. Nature Communication 4:1984. doi: 10.1038/ncomms2984.

Bacteria

180


Nelson CM, Ackerman KM, O'Hayer P, Bailey TJ, Gorsuch RA, Hyde DR. (2013) Tumor Necrosis Factor-Alpha Is Produced by Dying Retinal Neurons and Is Required for Muller Glia Proliferation during Zebrafish Retinal Regeneration. J. Neurosci. 33: 6524-6539.

Zebrafish

179


Corena-McLeod M, Walss-Bass C, Oliveros A, Gordillo Villegas A, Ceballos C, et al. (2013) New Model of Action for Mood Stabilizers: Phosphoproteome from Rat Pre-Frontal Cortex Synaptoneurosomal Preparations. PLoS ONE 8(5): e52147.

Rat brain

178


Cai W, Wannemuehler Y, Dell'anna G, Nicholson B, Barbieri NL, Kariyawasam S, Feng Y, Logue CM, Nolan LK, Li G. (2013) A Novel Two-Component Signaling System Facilitates Uropathogenic Escherichia coli's Ability to Exploit Abundant Host Metabolites. PLoS Pathog 9(6): e1003428.

Bacteria

177


Chapman KM, Powell HM, Chaudhary J, Shelton JM, Richardson JA, Richardson TE, Hamra FK. (2013) Linking spermatid RNA binding protein and retrogene diversity to reproductive success. Mol Cell Proteomics. 12: 3221-3236.

Rat tissue

176


Wu H, Sun H, Liang X, Lima WF, Crooke ST. (2013) Human RNase H1 is associated with protein P32 and is involved in mitochondrial pre-rRNA processing. PLoS One 8(8):e71006. doi: 10.1371/journal.pone.0071006.

Immuno-precipitation

175


Rajkarnikar A, Strankman A, Duran S, Vargas D, Roberts AA, Barretto K, Upton H, Hamilton CJ, Rawat M. (2013) Analysis of mutants disrupted in bacillithiol metabolism in Staphylococcus aureus. Biochem Biophys Res Commun. 436:128-133.

Bacteria

174


Mee-Ngan F. Yap. and Harris D. Bernstein (2013) Mutations in the ribosomal protein L22 selectively suppress the expression of a secreted bacterial virulence factor. J. Bacteriol. 195: 2991-2999.

Bacteria

173


Balestrieri ML, Gasparrini B, Neglia G, Vecchio D, Strazzullo M, Giovane A, Servillo L, Zicarelli L, D'Occhio MJ, Campanile G. (2013) Proteomic Profiles of the Embryonic Chorioamnion and Uterine Caruncles in Buffaloes (Bubalus bubalis) with Normal and Retarded Embryonic Development. Biol Reprod.88: 119-133.

Buffalo embryos

172


Zhou ZH, Kumari N, Nekhai S, Clouse KA, Wahl LM, Yamada KM, Dhawan S. (2013) Heme oxygenase-1 induction alters chemokine regulation and ameliorates human immunodeficiency virus-type-1 infection in lipopolysaccharide-stimulated macrophages. Biochem Biophys Res Commun. 435: 373-377.

Human cell

171


Zhang A, Zhou NJ, Huang JG, Liu Q, Fukuda K, Ma D, Lu ZH, Bai CX, Watabe K and Mo YY (2013) The human long non-coding RNA-RoR is a p53 repressor in response to DNA damage. Cell Res. 23: 340-350.

Human cell line

170


Le TT, Ziemba A, Urasaki Y, Hayes E, Brotman S, Pizzorno G. (2013) Disruption of Uridine Homeostasis Links Liver Pyrimidine Metabolism to Lipid Accumulation. J Lipid Res. 54:1044-1057.

Mouse liver

169


Hu LY, Kontrogianni-Konstantopoulos, A. (2013) The kinase domains of obscurin interact with intercellular adhesion proteins. FASEB J. 27:2001-2012.

Human cell line

168


Anuradha Subramanian, Joseph A. Turner, Gaurav Budhiraja, Sanjukta Guha Thakurta, Nicholas P. Whitney, and Sai Siddhartha Nudurupati. (2013) Ultrasonic Bioreactor as a Platform for Studying Cellular Response. Tissue Engineering Part C: Methods. 19(3): 244-255.

N/A

167


Nowak G, Bakajsova D. (2013) Assessment of mitochondrial functions and cell viability in renal cells overexpressing protein kinase C isozymes. J. Vis. Exp. (71), e4301

Mammalian cells

166


Shanks RM, Stella NA, Arena KE, Fender JE. (2013) Mutation of crp mediates Serratia marcescens serralysin and global secreted protein production. Res Microbiol. 164(1):38-45.

Bacteria

165


Zhou H, Zhao Q, Das Singla L, Min J, He S, Cong H, Li Y, Su C. (2013) Differential proteomic profiles from distinct Toxoplasma gondii strains revealed by 2D-difference gel electrophoresis. Exp Parasitol. 133:376-382.

Parasite

164


Bodnar A. (2013) Proteomic profiles reveal age-related changes in coelomic fluid of sea urchin species with different life spans. Experimental Gerontology 48:525-530.

Sea urchin

163


Forde N, Mehta JP, McGettigan PA, Mamo S, Bazer FW, Spencer TE, Lonergan P. (2013) Alterations in expression of endometrial genes coding for proteins secreted into the uterine lumen during conceptus elongation in cattle. BMC Genomics 14: 321-334.   doi: 10.1186/1471-2164-14-321

Bovine tissue

162


Cristiane Fortes Gris and Alexana Baldoni (2013). Proteomics and Its Use in Obtaining Superior Soybean Genotypes. Agricultural and Biological Sciences. Chapter 25:  531-552. 

Plant

161


Zhou X, Gewurz BE, Ritchie JM, Takasaki K, Greenfeld H, Kieff E, Davis BM, Waldor MK. (2013) A Vibrio parahaemolyticus T3SS Effector Mediates Pathogenesis by Independently Enabling Intestinal Colonization and Inhibiting TAK1 Activation. Cell Rep. 3:1690-1702

Bacteria

160


Hecht KA, Wytiaz VA, Ast T, Schuldiner M, Brodsky JL. (2013) Characterization of an M28 metalloprotease family member residing in the yeast vacuole. FEMS Yeast Res. 13:471-484. 

Yeast

159


Romano A, Trimble L, Hobusch AR, Schroeder KJ, Amin SA, Hartnett AD, Barker RA, Crumbliss AL, Carrano CJ. (2013) Regulation of iron transport related genes by boron in the marine bacterium Marinobacter algicola DG893. Metallomics 5:1025-1030.

Bacteria

158


Iván Aurelio Páez-Gutiérrez, Luis Fernando Cadavid (2013) Identification of Differently Expresed Proteins Related to Drillings Fluids Exposure in Hydractinia Symbiolongicarpus by Mass Spectrometry. Advances in Computational Biology Volume 232: pp 345-353.

Marine hydra magnipapillata

157


Streckfus CF, Romaguera J, Guajardo-Streckfus C. (2013) The use of salivary protein secretions as an in vivo model to study mantel cell lymphoma progression and treatment. Cancer Invest. 31: 494-499.

Human saliva

156


Hahm ER, Lee J, Kim SH, Sehrawat A, Arlotti JA, Shiva SS, Bhargava R, Singh SV. (2013) Metabolic Alterations in Mammary Cancer Prevention by Withaferin A in a Clinically Relevant Mouse Model.  J Natl Cancer Inst 105: 1111-1122.

Mouse tissue

155


Khan Z, Shervington A, Munje C, Shervington L. (2013) The Complexity of Identifying Cancer Stem Cell Biomarkers. Cancer Investigation, 31: 404-411.

Stem cells   

154


Charles F. Streckfus (2013) Salivary proteome as an in vivo model to study breast cancer progression. Proc. SPIE 8723, Sensing Technologies for Global Health, Military Medicine, and Environmental Monitoring III, 87230D; doi:10.1117/12.2020016

Human saliva

153


Ma H, Qazi S, Ozer Z, Zhang J, Ishkhanian R, Uckun FM. (2013) Regulatory Phosphorylation of Ikaros by Bruton's Tyrosine Kinase. PLoS ONE 8(8): e71302. doi:10.1371/journal.pone.0071302

Human cells

152


Sanchez-Alvarez R, Martinez-Outschoorn UE, Lin Z, Lamb R, Hulit J, Howell A, Sotgia F, Rubin E, Lisanti MP. (2013) Ethanol exposure induces the cancer-associated fibroblast phenotype and lethal tumor metabolism: implications for breast cancer prevention. Cell Cycle. 2:289-301.

Human cell line

151


Nowak G, Soundararajan S, Mestril R. (2013) Protein kinase C-α interaction with iHSP70 in mitochondria promotes recovery of mitochondrial function after injury in renal proximal tubular cells. Am J Physiol Renal Physiol. 305: 764-776.


Mammalian cells

150


Fischer CL, Walters KS, Drake DR, Dawson DV, Blanchette DR, Brogden KA, Wertz PW (2013) Oral mucosal lipids are antibacterial against Porphyromonas gingivalis, induce ultrastructural damage, and alter bacterial lipid and protein compositions. Int J Oral Sci.5:130-140.

Bacteria

149


Whitman JK, Alviar AF, Fleschner CR, Stuart MK. (2013) Monoclonal antibody 10A5 recognizes an antigen unique to the water-insoluble 25/45 membrane fraction of the rat ocular lens. Springerplus.  2:500. doi:10.1186/2193-1801-2-500

Rat lenses

148


Vyas AR, Hahm ER, Arlotti JA, Watkins S, Beer-Stolz D, Desai D, Amin S, Singh SV. (2013) Chemoprevention of Prostate Cancer by D,L-Sulforaphane Is Augmented by Pharmacological Inhibition of Autophagy. Cancer Res. 73:5985-5995.

Human tissue

147


Sony Tuteja, Richard Dunbar, Liming Qu, Mingyao Li, Megan Mucksavage, Stephanie DerOhannessian, Muredach Reilly, Daniel Rader (2013) Perilipin 1 (plin1) Genotype and Not Gpr109a Associated with Free Fatty Acid Rebound Following Niacin Administration.  Arterioscler Thromb Vasc Biol. 33 (5): A390

Human tissue

146


Imad Al Ghouleh, Andrés Rodríguez, Patrick J. Pagano and Gábor Csányi (2013) Proteomic Analysis Identifies an NADPH Oxidase 1 (Nox1)-Mediated Role for Actin-Related Protein 2/3 Complex Subunit 2 (ARPC2) in Promoting Smooth Muscle Cell Migration. Int. J. Mol. Sci. 14: 20220-20235.

Rat cells

145


Xueli Gao, Satyabrata Sinha, Marycharmain Belcastro, Catherine Woodard, Visvanathan Ramamurthy, Peter Stoilov and Maxim Sokolov (2013) Splice Isoforms of Phosducin-like Protein Control the Expression of Heterotrimeric G proteins. JBC 288:25760-25768.

Rat cells

144


Gorini G, Roberts AJ, Mayfield RD (2013) Neurobiological Signatures of Alcohol Dependence Revealed by Protein Profiling. PLoS ONE 8(12): e82656. doi:10.1371/journal.pone.0082656

Mouse brain

143


Poon E, Yan B, Zhang S, Rushing S, Keung W, Ren L, Lieu DK, Geng L, Kong CW, Wang J, Wong HS, Boheler KR, Li RA. (2013) Transcriptome-guided functional analyses reveal novel biological properties and regulatory hierarchy of human embryonic stem cell-derived ventricular cardiomyocytes crucial for maturation. PLoS One. 8(10):e77784. doi: 10.1371/journal.pone.0077784.

Stem cells

142


Wu Z, Sahin O, Shen Z, Liu P, Miller WG, Zhang Q. (2013) Multi-omics approaches to deciphering a hypervirulent strain of Campylobacter jejuni. Genome Biol Evol. 5: 2217-2230.

Bacteria

141


Clement CC, Aphkhazava D, Nieves E, Callaway M, Olszewski W, Rotzschke O, Santambrogio L. (2013) Protein expression profiles of human lymph and plasma mapped by 2D-DIGE and 1D SDS-PAGE coupled with nanoLC-ESI-MS/MS bottom-up proteomics.  J Proteomics.  78:172-187.

Human tissue

140


Gonzalez JC, Medina SC, Rodriguez A, Osma JF, Alméciga-Díaz CJ, et al. (2013) Production of Trametes pubescens Laccase under Submerged and Semi-Solid Culture Conditions on Agro-Industrial Wastes. PLoS ONE 8(9): e73721. doi:10.1371/journal.pone.0073721.

Cell line

139


Bi F, Huang C, Tong J, Qiu G, Huang B, Wu Q, Li F, Xu Z, Bowser R, Xia XG, Zhou H. (2013) Reactive astrocytes secrete lcn2 to promote neuron death. PNAS USA 110: 4069-4074.

Rat brain

138


Douglas D. Taylor, Cicek Gercel-Taylor (2013) Methods of predicting and decreasing the risk of pre-term birth. WO 2013040211 A1. U.S. Provisional Patent Application No. 61/535,778

N/A

137


Caro, P. Kishan AU, Norberg E, Stanley IA, Chapuy B, Ficarro SB, Polak K, Tondera D, Gounarides J, Yin H, Zhou F, Green MR, Chen L, Monti S, Marto JA,Shipp MA, Danial NN. (2012) Metabolic Signatures Uncover Distinct Targets in Molecular Subsets of Diffuse large B cell lymphoma. Cancer Cell. 22:: 547–560. doi: 10.1016/j.ccr.2012.08.014.

N/A

136


Vaishampayan PA, Rabbow E, Horneck G, Venkateswaran KJ. (2012) Survival of Bacillus pumilus spores for a prolonged period of time in real space conditions. Astrobiology 12:487-497.

Bacteria

135


Engel BD, Ishikawa H, Wemmer KA, Geimer S, Wakabayashi K, Hirono M, Craige B, Pazour GJ, Witman GB, Kamiya R, Marshall WF. (2012) The role of retrograde intraflagellar transport in flagellar assembly, maintenance, and function J Cell Biol. 199:151-167.

Human biopsy

134


Kalupahana, N.S., Massiera, F., Quignard-Boulange, A., Ailhaud, G., Voy, B.H., Wasserman, D.H. and Moustaid-Moussa, N. (2012) Overproduction of Angiotensinogen From Adipose Tissue Induces Adipose Inflammation, Glucose Intolerance, and Insulin Resistance. Obesity. 20: 48-56.

Mouse tissue

133


de Castro RO, Zhang J, Groves JR, Barbu EA, Siraganian RP. (2012) Tyrosines in the Carboxy-terminus of Syk once Phosphorylated Interact with Signaling Proteins including TULA-2, a Negative Regulator of Mast Cell Degranulation. JBC 287: 8194-8204.

Human cells

132


McCoy, KB, Derecho, I, Wong, T, Tran, TM, Huynh, TD, La Duc, MT, Venkateswaran, K and Mogul, R (2012) Insights into the Extremotolerance of Acinetobacter radioresistens 50v1, a Gram-Negative Bacterium Isolated from the Mars Odyssey Spacecraft. Astrobiology 12(9): 854-862.

Bacteria

131


Hu, Y., Matkovich, S.J., Hecker, P.A., Zhang, Y., Edwards, J.R. and Dorn, G.W. (2012) Epitranscriptional orchestration of genetic reprogramming is an emergent property of stress-regulated cardiac microRNAs. PNAS USA 109:19864-19869.

Rat heart tissue

130


Yang Y, Primrose DA, Leung AC, Fitzsimmons RB, McDermand MC, Missellbrook A, Haskins J, Smylie AS, Hughes SC. (2012) The PP1 phosphatase Flapwing regulates the activity of Merlin and Moesin in Drosophila. Developmental Biology 361: 412-426.

Drosophila

129


Zhang, H.H., Feng, L., Wang, W., Magness, R.R. and Chen, D.B. (2012) Estrogen-responsive nitroso-proteome in uterine artery endothelial cells: Role of endothelial nitric oxide synthase and estrogen receptor-ß . Journal of Cellular Physiology. 227: 146-159.

Human cell line

128


Kohlgraf KG, Ackermann AR, Burnell KK, Srikantha RN, Joly SA, Bartlett JA, Gakhar L, Johnson GK, McCray PB Jr, Guthmiller JM, Brogden KA (2012) Quantitation of SPLUNC1 in saliva with an xMAP particle-based antibody capture and detection immunoassay. Archives of Oral Biology 57: 197-204.

Human saliva

127


Koka, S., Xi, L. and Kukreja, R.C. (2012) Chronic treatment with long acting phosphodiesterase-5 inhibitor tadalafil alters proteomic changes associated with cytoskeletal rearrangement and redox regulation in Type 2 diabetic hearts. Basic Research Cardiology 107: 249-265.

Mouse heart tissue

126


Lau, C.S. and Wong, D.T.W. (2012) Breast Cancer Exosome-like Microvesicles and Salivary Gland Cells Interplay Alters Salivary Gland Cell-Derived Exosome-like Microvesicles In Vitro. PLoS ONE 7(3): e33037.

Human cells

125


Zhu, S.G., Xi, L. and Kukreja, R.C. (2012) Type 2 diabetic obese db/db mice are refractory to myocardial ischaemic post-conditioning in vivo: potential role for Hsp20, F1-ATPase and Echs1. J. Cell. Mol. Med. 16: 950-958

Mouse heart tissue

124


Streckfus, C.F., Arreola, D., Edwards, C. and Bigler, L. (2012) Salivary Protein Profiles Among Her2/neu Receptor Positive and Negative Breast Cancer Patients: Support for Using Salivary Protein Profiles for Modeling Breast Cancer Progression. J. Oncology 2012: Article ID 413256

Human salivary

123


Dorn II, GW, Matkovich, SJ, Eschenbacher, WH, Zhang, Y. (2012) A Human 3' miR-499 Mutation Alters Cardiac mRNA Targeting and Function. Circulation Research 110: 958-967.

Mouse tissue

122


Ho NK, Ossa JC, Silphaduang U, Johnson R, Johnson-Henry KC, Sherman PM. (2012) Enterohemorrhagic Escherichia coli O157:H7 Shiga Toxins Inhibit Interferon-gamma Mediated Cellular Activation. Infection and Immunity 80: 2307-2315.

Bacteria

121


Wang, X, Mandal, AK, Saito, H, Pulliam, JF, Lee, EY, Ke, ZJ, Lu, J, Ding, SZ, Li, L, Shelton, BJ, Tucker, T, Evers, BM, Zhang, Z, Shi, XL (2012) Arsenic and chromium in drinking water promote tumorigenesis in a mouse colitis-associated colorectal cancer model and the potential mechanism is ROS-mediated Wnt/â-catenin signaling pathway. Toxicology and Applied Pharmacology. 262: 11-21.

Mouse tissue

120


Lakshmanan J, Seelan RS, Thangavel M, Vadnal RE, Janckila AJ, Casanova MF, Parthasarathy LK and Parthasarathy RN (2012) Proteomic Analysis of Rat Prefrontal Cortex after Chronic Lithium Treatment. J. Proteomics Bioinform. 5: 140-146.

Rat tissue

119


Hirendra Nath Banerjee, Kelly Mahaffey, Eilena Riddick, Arnold Banerjee, Niladri Bhowmik and Manomita Patra (2012) Search for a diagnostic/prognostic biomarker for the brain cancer glioblastoma multiforme by 2D-DIGE-MS technique. Molecular and Cellular Biochemistry. 367: 59-63.

Human biopsy

118


Kuzembayeva M, Chiu Y-F, Sugden B (2012) Comparing Proteomics and RISC Immunoprecipitations to Identify Targets of Epstein-Barr Viral miRNAs. PLoS ONE 7(10): e47409.

Virus

117


Singh, S.V., Kim, S.H., Sehrawat, A., Arlotti, J.A., Hahm,E.R., Sakao, K., Beumer, J.H., Jankowitz, R.C., Chandra-Kuntal, K., Lee, J., Powolny, A.A. and Dhir, R. (2012) Biomarkers of Phenethyl Isothiocyanate-Mediated Mammary Cancer Chemoprevention in a Clinically Relevant Mouse Model. JNCI 104: 1228-1239.

Mouse plasma

116


Ahmed A, Gaadhe K, Sharma GP, Kumar N, Neculai M, Hui R, Mohanty D, Sharma P. (2012) Novel insights into the regulation of malarial calcium-dependent protein kinase 1. FASEB J. 26:3212-3221.

Parasite

115


Nowak G and Bakajsova D. (2012) Protein kinase C- alpha activation promotes recovery of mitochondrial function and cell survival following oxidant injury in renal cells. Am J Physiol Renal Physiol. 303(4):F515-526.

Rabbit tissue

114


Matkovich SJ, Hu Y, Eschenbacher WH, Dorn LE, Dorn GW 2nd. (2012) Direct and Indirect Involvement of MicroRNA-499 in Clinical and Experimental Cardiomyopathy. Circ Res. 111:521-531.

Mouse heart tissue

113


Xiao D, Ohlendorf J, Chen Y, Taylor DD, Rai SN, Waigel S, Zacharias W, Hao H, McMasters KM. (2012) Identifying mRNA, microRNA and protein profiles of melanoma exosomes. PLoS One 7(10):e46874.

Human cell line

112


Hesabi B, Danziger RS, Kotlo KU. (2012) Heterogeneous nuclear ribonucleoprotein A1 is a novel cellular target of atrial natriuretic peptide signaling in renal epithelial cells. Cell Signal 24(5): 1100-1108.

Human cell line

111


Ubaldo E. Martinez-Outschoorn, Zhao Lin, Diana Whitaker-Menezes, Anthony Howell, Federica Sotgia and Michael P. Lisanti (2012) Ketone body utilization drives tumor growth and metastasis. Cell Cycle 11(21): 3364-3971.

Mouse tissue

110


Grillon JM, Johnson KR, Kotlo K, Danziger RS. (2012) Non-histone lysine acetylated proteins in heart failure. Biochim Biophys Acta. 1822(4): 607-614.

Rat tissue

109


Xiao D, Ohlendorf J, Chen Y, Taylor DD, Rai SN, Waigel S, Zacharias W, Hao H, McMasters KM. (2012) Identifying mRNA, MicroRNA and Protein Profiles of Melanoma Exosomes. PLoS One. 7(10): e46874.

Cell line

108


Malika Kuzembayeva, Ya-Fang Chiu, Bill Sugden (2012) Comparing Proteomics and RISC Immunoprecipitations to Identify Targets of Epstein-Barr Viral miRNAs. PLoS ONE. 7(10): e47409

Cell line

107


Govindaraju A, Dogan S, Rodriguez-Osorio N, Grant K, Kaya A, Memili E. (2012) Delivering value from sperm proteomics for fertility. Cell Tissue Res. 349(3):783-793.

Cow sperm cells

106


Ubaldo E. Martinez-Outschoorn, Zhao Lin, Diana Whitaker-Menezes, Anthony Howell, Michael P. Lisanti and Federica Sotgia (2012) Ketone bodies and two-compartment tumor metabolism: Stromal ketone production fuels mitochondrial biogenesis in epithelial cancer cells. Cell Cycle 11(21): 3956 - 3963.

Human cell line

105


Tang H, Lee M, Sharpe O, Salamone L, Noonan EJ, Hoang CD, Levine S, Robinson WH, Shrager JB. (2012) Oxidative stress-responsive microRNA-320 regulates glycolysis in diverse biological systems. FASEB J. 26: 4710-4721.

Mouse tissue

104


Martinez-Outschoorn UE, Sotgia F, Lisanti MP. (2012) Power surge: supporting cells "fuel" cancer cell mitochondria. Cell Metab 15: 4-5.

Virus

103


Li G, Cai W, Hussein A, Wannemuehler YM, Logue CM, Nolan LK. (2012) Proteome response of an extraintestinal pathogenic Escherichia coli strain with zoonotic potential to human and chicken sera. J Proteomics. 75: 4853-4862.

E. coli cells

102


Diaz F, Garcia S, Padgett KR, Moraes CT. (2012) A defect in the mitochondrial complex III, but not complex IV, triggers early ROS-dependent damage in defined brain regions. Hum Mol Genet. 21:5066-5077.

Mouse brain tissue

101


Gregory A. Elder, Nathan P. Dorr, Rita De Gasperi, Miguel A. Gama Sosa, Michael C. Shaughness, Eric Maudlin-Jeronimo, Aaron A. Hall, Richard M. McCarron, and Stephen T. Ahlers. (2012) Blast Exposure Induces Post-Traumatic Stress Disorder-Related Traits in a Rat Model of Mild Traumatic Brain Injury. Journal of Neurotrauma. 29:2564-2575.

Rat brain tissue

100


Kotlo K, Johnson KR, Grillon JM, Geenen DL, Detombe P, Danziger RS. (2012) Phosphoprotein abundance changes in hypertensive cardiac remodeling. J Proteomics. 77: 1-13.

Rat heart tissue

099


Z Lewis Liu, Scott A Weber, Michael A Cotta (2012) Isolation and Characterization of a ß-Glucosidase from a Clavispora Strain with Potential Applications in Bioethanol Production from Cellulosic Materials. BioEnergy Research DOI 10.1007/s12155-012-9236-9.

Clavispora

098


Purushothaman P, McDowell ME, McGuinness J, Salas R, Rumjahn SM, Verma SC. (2012) Kaposi's Sarcoma-Associated Herpesvirus-Encoded LANA Recruits Topoisomerase II ß for Latent DNA Replication of the Terminal Repeats. J. Virol. 86:9983-9994.

Virus

097


Anwar Ahmed, Kavita Gaadhe, Guru Prasad Sharma, Narendra Kumar, Mirela Neculai, Raymond Hui, Debasisa Mohanty and Pushkar Sharma (2012) Novel insights into the regulation of malarial calcium-dependent protein kinase 1. FASEB J. 26: 3212-3221.

Parasite

096


Curry E, Stoops MA, Roth TL (2012) Non-invasive detection of candidate pregnancy protein biomarkers in the feces of captive polar bears (Ursus maritimus). Theriogenology 78: 308-314.

Polar bear fecal

095


Brian Scharf, Cristina C. Clement, Xiao-Xuan Wu, Kateryna Morozova, Diego Zanolini, Antonia Follenzi, Jorge N. Larocca, Kalle Levon, Fayyaz S. sutterwala, Jacob Rand, Neil Cobelli, Ed Purdue, Katherine A. Hajjar, and Laura Santambrogio (2012) Annexin A2 binds to endosomes following organelle destabilization by particulate wear debris. Nat Commun. 3: 755. doi: 10.1038/ncomms1754

Mouse bone marrow

094


Pinzón A, Rodriguez-R LM, González A, Bernal A, Restrepo S. (2011) Targeted metabolic reconstruction: a novel approach for the characterization of plant-pathogen interactions. Brief Bioinform. 12(2):151-162.

Plant tissue

093


Ramadoss, J. and Magness, R.R. (2011) 2-D DIGE uterine endothelial proteomic profile for maternal chronic binge-like alcohol exposure. J. Proteomics 74:2986-2994.

Bovine tissue

092


Frank, AK, Pietsch, EC, Dumont, P, Tao, J and Murphy, ME (2011) Wild-type and mutant p53 proteins interact with mitochondrial caspase-3. Cancer Biology & Therapy 11: 740-745.

Human cell line

091


Pimkina, J and Murphy, ME (2011) Interaction of the ARF tumor suppressor with cytosolic HSP70 contributes to its autophagy function. Cancer Biology & Therapy 12:503-509.

Human cell line

090


Ramsey, A.J., Milenkovic, M., Oliveira, A.F., Escobedo-Lozoya, Y., Seshadri, S,, Salahpour, A., Sawa, A., Yasuda, R., Caron, M.G. (2011) Impaired NMDA receptor transmission alters striatal synapses and DISC1 protein in an age-dependent manner. PNAS USA. 108(14):5795-5800.

Mouse tissue

089


Huang Z, Hoffmann FKW, Norton RL, Hashimoto AC and Hoffmann PR (2011) Selenoprotein k is a novel target of m-calpain and cleavage is regulated by toll-like receptor-induced calpastatin in macrophages. J Biol Chem. 286: 34830-34838.

Cells

088


Hong-hai Zhang, Yu-ping Wang, Dong-bao Chen (2011) Analysis of nitroso-Proteomes in Normotensive and Severe Preeclamptic Human Placentas. Biol Reprod. 84: 966-975.

Human placentas

087


Kassa, R.M., Kasensa, N.L., Monterroso, V.H., Kayton, R.J., Klimek, J.E., David, L.L., Lunganza, K.R., Kayembe, K.T., Bentivoglio, M., Juliano, S.L. and Tshala-Katumbay, D.D. (2011) On the biomarkers and mechanisms of konzo, a distinct upper motor neuron disease associated with food (cassava) cyanogenic exposure. Food Chem Toxicol. 49:571-578.

Neuron cells

086


Froman DP, Feltmann AJ, Pendarvis K, Cooksey AM, Burgess SC, Rhoads DD. (2011) A proteome-based model for sperm mobility phenotype. J. Anim Sci. 89:1330-1337.

Sperm cells

085


Hill, D., Coss, C., Dubey, J.P., Wroblewski, K., Sautter, M., Hosten, T., Munoz-Zanzi, C., Mui, E., Withers, S., Boyer, K., Hermes, G., Coyne, J., Jagdis, F., Burnett, A., McLeod, P., Morton, H., Robinson, D., McLeod, R. and Toxoplasmosis Study Group (2011) Identification of a sporozoite-specific antigen from toxoplasma gondii. Journal of Parasitology 97:328-337.

Toxoplasma gondii

084


Antunes, R.F., Brandão, C., Maia, M., Arosa, F.A. (2011) Red blood cells release factors with growth and survival bioactivities for normal and leukemic t cells. Immunology and Cell Biology 89: 111-121.

Red blood cells

083


Huang N.F., Kurpinski, K., Qizhi Fang, Q.Z., Lee, R.J. and Li, S. (2011) Proteomic identification of biomarkers of vascular injury. Am J Transl Res 3:139-148.

Rat plasma

082


Marshall, J.L., Huestis, D.L., Garcia, C., Hiromasa, Y., Wheeler, S., Noh, S., Tomich, J.M., Howard, D.J. (2011) Comparative proteomics uncovers the signature of natural selection acting on the ejaculate proteomes of two cricket species isolated by postmating, prezygotic phenotypes. Mol Biol Evol 28: 423-435.

Cricket

081


Kirpich, I.A., Gobejishvili, L.N., Homme, M.B., Waigel, S., Cave, M., Arteel, G., Barve, S.S., McClain, C.J. and Deaciuc, I.V. (2011) Integrated hepatic transcriptome and proteome analysis of mice with high-fat diet-induced nonalcoholic fatty liver disease. The Journal of Nutritional Biochemistry 22: 38-45.

Mouse liver tissue

080


Posokhova, E., Song, H., Belcastro, M., LeeAnn Higgins, LA., Bigley, L.R., Michaud, N.A., Martemyanov, K.A. and Sokolov, M. (2011) Disruption of the Chaperonin Containing TCP-1 Function Affects Protein Networks Essential for Rod Outer Segment Morphogenesis and Survival Molecular and Cellular Proteomics 10: M110.000570.

Retina

079


Thakkar, D., Shervington, L. and Shervington, A. (2011) Proteomic Studies Coupled with RNAi Methodologies can Shed Further Light on the Downstream Effects of Telomerase in Glioma. Cancer Investigation 29: 113-122.

Glioma cells

078


Arce-Paredes, P., Mora-Escobedo, R., Luna-Arias, J.P., Mendoza-Hernández, G. and Rojas-Espinosa, O. (2011) Heat, Salinity, and Acidity, Commonly Upregulate A1aB1b Proglycinin in Soybean Embryonic Axes. Soybean - Biochemistry, Chemistry and Physiology pp402-422.

Plant

077


Green, K.N., Khashwji, H., Estrada, T., Laferla, F,M. (2011) ST101 induces a novel 17kDa APP cleavage that precludes A generation in vivo. Ann Neurol. 69 (5): 831-844.

Mouse tissue

076


Maldonado, R., Wei, R., Kachlany, S.C., Kazi, M. and Balashova, N.V. (2011) Cytotoxic effects of Kingella kingae outer membrane vesicles on human cells. Microbial Pathogenesis 51: 22-30.

Human cells

075


Mains, L.M., Christenson, L., Yang, B., Sparks, A.E., Mathur, S., Van Voorhis, B.J. (2011) Identification of apolipoprotein A1 in the human embryonic secretome. Fertil Steril. 96:422-427.

Human blastocysts

074


Chae, H.S. and Kim, Y.H. (2011) A NELL-1 Binding Protein: Vimentin. J. Kor Dent Sci. 4: 6 - 13

C. elegans

073


Sindhu Saraswathy, Narsing A. Rao (2011) Posttranslational modification of differentially expressed mitochondrial proteins in the retina during early experimental autoimmune uveitis. Molecular Vision 17:1814-1821.

Mouse mitochondria

072


Powolny, A.A., Bommareddy, A., Hahm, E.R., Normolle, D.P., Beumer, J.H., Nelson, J.B., Singh, S.V. (2011) Chemopreventative Potential of the Cruciferous Vegetable Constituent Phenethyl Isothiocyanate in a Mouse Model of Prostate Cancer. J Natl Cancer Inst. 103: 571-584.

Mouse tissue

071


Ji, C., Kaplowitz, N., Lau, M.Y., Kao, E., Petrovic, L.M., Lee, A.S. (2011) Liver-specific loss of GRP78 perturbs globally unfolded protein response and exacerbates a spectrum of acute and chronic liver diseases. Hepatology 54: 229-239.

Mouse liver

070


Gong KZ, Xing DQ, Li P, Hilgers RH, Hage FG, Oparil S and Chen YF (2011) cGMP Inhibits TGF-ß Signaling by Sequestering Smad3 with Cytosolic ß2-Tubulin in Pulmonary Artery Smooth Muscle Cells. Molecular Endocrinology 25: 1794-1803

Cells

069


Oggé G, Romero R, Lee DC, Gotsch F, Than NG, Lee J, Chaiworapongsa T, Dong Z, Mittal P, Hassan SS, Kim CJ. (2011) Chronic chorioamnionitis displays distinct alterations of the amniotic fluid proteome. J Pathology 223(4):553-65.

Amniotic fluid

068


Wang J, Han X, Saha S, Xu T, Rai R, Zhang F, Wolf YI, Wolfson A, Yates JR, Kashina A. (2011) Arginyltransferase is an ATP-independent self-regulating enzyme that forms distinct functional complexes in vivo. Chem Biol. 18:121-30.

Cells

067


Maldonado R, Wei R, Kachlany SC, Kazi M, Balashova NV (2011) Cytotoxic effects of Kingella kingae outer membrane vesicles on human cells. Microbial Pathogenesis 51: 22-30.

Cells

066


Patrick S. Hopf, Rachel S. Ford, Najwa Zebian, Alexandra Merkx-Jacques, Somalinga Vijayakumar, Dinath Ratnayake, Jacqueline Hayworth, Carole Creuzenet (2011) Protein Glycosylation in Helicobacter pylori: Beyond the Flagellins? PLoS ONE 6(9): e25722. doi:10.1371/journal.pone.0025722

Cells

065


Bryant KG, Camacho J, Jasmin JF, Wang CG, Addya A, Casimiro MC, Fortina P, Balasubramaniam S, Knudsen KE, Schwarting R, Lisanti MP and Mercier I (2011) Caveolin-1 overexpression enhances androgen-dependent growth and proliferation in the mouse prostate. The International Journal of Biochemistry & Cell Biology, 43:1318-1329.

Mouse prostate

064


Boone LR, Lagor WR, de la Llera Moya M, Niesen MI, Rothblat GH, Ness GC (2011) Thyroid hormone enhances the ability of serum to accept cellular cholesterol via the ABCA1 transporter. Atherosclerosis, 218: 77-82.

Rat serum

063


Xi, L., Zhu, S.G., Hobbs, D.C., Kukreja, R.C. (2011) Identification of protein targets underlying dietary nitrate-induced protection against doxorubicin ardiotoxicity. Journal of Cellular and Molecular Medicine 15: 2512-2524.

Mouse heart tissue

062


Trimmer, C., Sotgia, F., Whitaker-Menezes, D., Balliet, R.M., Eaton, G., Martinez-Outschoorn, U.E., Pavlides, S., Howell, A., Iozzo, R.V., Pestell, R.G., Scherer, P.E., Capozza, F. and Lisanti M.P. (2011) Caveolin-1 and mitochondrial SOD2 (MnSOD) function as tumor suppressors in the stromal microenvironment. Cancer Biology & Therapy 11: 383-394.

Human cell line

061


Chen Y, Wang D, Guo Z, Zhao J, Wu B, Deng H, Zhou T, Xiang H, Gao F, Yu X, Liao J, Ward T, Xia P, Emenari C, Ding X, Thompson W, Ma K, Zhu J, Aikhionbare F, Dou K, Cheng SY, Yao X. (2011) Rho kinase phosphorylation promotes ezrin mediated metastasis in hepatocellular carcinoma. Cancer Res. 71: 1721-1729.

Human cells

060


Miharada K, Karlsson G, Rehn M, Rörby E, Siva K, Cammenga J, Karlsson S. (2011) Cripto Regulates Hematopoietic Stem Cells as a Hypoxic-Niche-Related Factor through Cell Surface Receptor GRP78. Cell Stem Cell 9: 330-344.

Stem cell

059


Castello-Cros R, Bonuccelli G, Molchansky A, Capozza F, Witkiewicz AK, Birbe RC, Howell A, Pestell RG, Whitaker-Menezes D, Sotgia F, Lisanti MP (2011) Matrix remodeling stimulates stromal autophagy, "fueling" cancer cell mitochondrial metabolism and metastasis. Cell Cycle 10:2021-2034.

Human cell line

058


Kalupahana NS, Claycombe KJ and Moustaid-Moussa N. (2011) (n-3) fatty acids alleviate adipose tissue inflammation and insulin resistance: mechanistic insights. Advances in Nutrition 2: 304-316.

Mouse tissue

057


Chiavarina B, Whitaker-Menezes D, Migneco G, Martinez-Outschoorn UE, Pavlides S, Howell A, Tanowitz HB, Casimiro MC, Wang CG, Pestell RG, Grieshaber P, Caro J., Sotgia F and Lisanti MP (2010) HIF1-alpha functions as a tumor promoter in cancer-associated fibroblasts, and as a tumor suppressor in breast cancer cells: Autophagy drives compartment-specific oncogenesis. Cell Cycle 9:3534-3551.

Human cell line

056


Bonuccelli G, Whitaker-Menezes D, Castello-Cros R, Pavlides S, Pestell RG, Fatatis A, Witkiewicz AK, Vander Heiden MG, Migneco G, Chiavarina B, Frank PG, Capozza F, Flomenberg N, Martinez-Outschoorn UE, Sotgia F, Lisanti MP. (2010) The reverse Warburg effect: glycolysis inhibitors prevent the tumor promoting effects of caveolin-1 deficient cancer associated fibroblasts. Cell Cycle 9:1960-1971.

Human cell line

055


Migneco G, Whitaker-Menezes D, Chiavarina B, Castello-Cros R, Pavlides S, Pestell RG, Fatatis A, Flomenberg N, Tsirigos A, Howell A, Martinez-Outschoorn UE, Sotgia F, Lisanti MP. (2010) Glycolytic cancer associated fibroblasts promote breast cancer tumor growth, without a measurable increase in angiogenesis-Evidence for stromal-epithelial metabolic coupling. Cell Cycle 9: 2412-2422.

Human cells

054


Birk. E. et. al. (2010) SOBP Is Mutated in Syndromic and Nonsyndromic Intellectual Disability and Is Highly Expressed in the Brain Limbic System. The American Journal of Human Genetics 87: 694-700.

Mouse brain

053


Prescott, M.A. and Pastey, M.K. (2010) Identification of Unique Blood and Urine Biomarkers in Influenza Virus and Staphylococcus aureus Co-infection: A Preliminary Study. Biomarker Insights 5: 145-151.

Mouse urine

052


Balestrieri, M.L., Giovane, A., Milone, L., Felice, F., Fiorito, C., Crudele, V., Esposito, A., Rossiello, R., Minucci, P.B., Farzati, B., Servillo, L. and Napoli, C. (2010) Modification of the detrimental effect of TNF-œ on human endothelial progenitor cells by fasudil and Y27632. Journal of Biochemical and Molecular Toxicology 24: 351-360.

Human endothelial progenitor cells

051


Paczkowski, M. and Krisher, R. (2010) Aberrant protein expression is associated with decreased developmental potential in porcine cumulus-oocyte complexes. Molecular Reproduction and Development. 77: 51 -58.

Porcine cumulus-oocyte complexes

050


Rex, E.B., Rankin, M.L., Yang, Y., Lu, Q, Gerfen, C.R., Jose, P.A., and Sibley, D.R. (2010) Identification of RanBP 9/10 as Interacting Partners for Protein Kinase C / and the D1 Dopamine Receptor: regulation of PKC-mediated receptor Phosphorylation. Molecular Pharmacology 78: 69-80.

HEK293T cells

049


Kongara, S., Kravchuk, O., Teplova, I., Lozy, F., Schulte, J., Moore, D., Barnard, N., Neumann, C.A., White, E., Karantza, V. (2010) Autophagy regulates keratin 8 homeostasis in mammary epithelial cells and in breast tumors. Mol Cancer Res 8(6); 873-884.

Mouse mammary epithelial cells

048


Hong-hai Zhang, Lin Feng, Itamar Livnat, Jeong-Kyu Hoh, Jae-Yoon Shim, Wu-Xiang Liao, and Dong-bao Chen (2010) Estradiol-17(beta) Stimulates Specific Receptor and Endogenous Nitric Oxide-Dependent Dynamic Endothelial Protein S-Nitrosylation: Analysis of Endothelial Nitrosyl-Proteome. Endocrinology 151: 3874-3887.


Human endothelial cell

047


Clement CC, Cannizzo ES, Nastke M-D, Sahu R, Olszewski W, et al. (2010) An Expanded Self-Antigen Peptidome Is Carried by the Human Lymph As Compared to the Plasma. PLoS ONE 5(3): e9863.


Human plasma and lymph

046


Zhang, L., Xiao, H., Karlan, S., Zhou, H., Gross, J., Elashoff, D., Akin, D., Yan, X.M., Chia, D., Karlan, B., Wong D.T. (2010) Discovery and preclinical validation of salivary transcriptomic and proteomic biomarkers for the non-invasive detection of breast cancer. PLoS ONE 5(12), e15573.

Saliva

045


Palanisamy, V., Sharma, S., Deshpande, A., Zhou, H., Gimzewski, J. and Wong, D.T. (2010) Nanostructural and Transcriptomic Analyses of Human Saliva Derived Exosomes. PLoS ONE 5(1): e8577.

Human oral keratinocytes

044


Luo, W.I, Dizin, E., Yoon, T. and Cowan, J.A. (2010) Kinetic and structural characterization of human mortalin. Protein Expression and Purification 72: 75-81.

Purified recombinant protein (mass spec)

043


Doukhanine, E., Gavino, C., Haines, J.D., Almazan, G. and Richard, S. (2010) The QKI-6 RNA Binding Protein Regulates Actin-interacting Protein-1 mRNA Stability during Oligodendrocyte Differentiation. Mol Biol Cell 21: 3029-3040.


Human glioblastoma cells

042


Villar, M., Ayllón, N., Busby, A.T., Galindo, R.C., Blouin, E.F., Kocan, K.M., Bonzón-Kulichenko, E., Zivkovic, Z., Almazán, C., Torina, A., Vázquez, J., Fuente, J. (2010) Expression of heat shock and other stress response proteins in ticks and cultured tick cells in response to Anaplasma spp. infection and heat shock. International Journal of Proteomics Volume 2010, Article ID 657261.

Tick cells

041


Loheswaran, G., Stanojcic, M., Xu, L., Sakic, B. (2010) Autoimmunity as a principal pathogenic factor in the refined model of neuropsychiatric lupus. Clinical and Experimental Neuroimmunology 1:141-152.

Mouse serum and cerebrospinal fluid

040


Kang, M-Y., Zhang, Y., Matkovich, S.J., Diwan, A., Chishti, A.H., and Dorn, G.W. (2010) Receptor-Independent Cardiac Protein Kinase C Activation by Calpain-Mediated Truncation of Regulatory Domains. Circulation Research 107: 903-912.


Mouse ventricular cells

039


Martínez-Pastor, M., Proft, M., Pascual-Ahuir, A. (2010) Adaptive Changes of the Yeast Mitochondrial Proteome in Response to Salt Stress. OMICS: A Journal of Integrative Biology. 14: 541-552.


Yeast mitochondrial cells

038


Encinas, P., Rodriguez-Milla, M.A., Novoa, B., Estepa, A., Figueras, A. and Coll, J. (2010) Zebrafish fin immune responses during high mortality infections with viral haemorrhagic septicemia rhabdovirus. A proteomic and transcriptomic approach. BMC Genomics 11:518

Zebrafish fins

037


Mellgren, R.L. (2010) A plasma membrane wound proteome: reversible externalization of intracellular proteins following reparable mechanical damage. J Biol Chem. 285:36597-36607.

Wound-associated proteins (mass spec)

036


Zhou, Q., Snider, N.T., Liao, J., Li, D.H., Hong, A., Ku, N., Cartwright, C.A. & Omary, M.B. (2010) Characterization of in vivo keratin 19 phosphorylation on tyrosine-391. PLoS ONE 5(10):e13538

Keratin proteins
(mass spec)

035


Kalupahana, N.S., Claycombe, K., Newman, S.J., Stewart, T., Siriwardhana, N., Matthan, N., Lichtenstein A.H. and Moustaid-Moussa, N. (2010) Eicosapentaenoic Acid Prevents and Reverses Insulin Resistance in High-Fat Diet-Induced Obese Mice via Modulation of Adipose Tissue Inflammation. Journal of Nutrition 140:1915-1922.

Cultured adipocytes

034


Sarah D. Lamore, Shuxi Qiao, David Horn, Georg T. Wondrak (2010) Proteomic Identification of Cathepsin B and Nucleophosmin as Novel UVA-Targets in Human Skin Fibroblasts. Photochemistry and Photobiology 86: 1307-1317.

Human dermal fibroblasts

033


Pia Steen Petersen, David P. D. Woldbye, Andreas Nygaard Madsen, Kristoffer L. Egerod, Chunyu Jin, Manja Lang, Maria Rasmussen, Annette G. Beck-Sickinger, and Birgitte Holst (2009) In Vivo Characterization of High Basal Signaling from the Ghrelin Receptor Endocrinology 2009 150: 4920-4930.

Cells

032


Martin, J.N., Bair, T.B., Bode, N., Dauer, W.T. and Gonzalez-Alegre, P. (2009) Transcriptional and proteomic profiling in a cellular model of DYT1 dystonia. Neuroscience, 164:563-572.

Human cell line

031


Mathew, R., Karp, C.M., Beaudoin, B., Vuong, N., Chen, G., Chen, H.Y., Bray, K., Reddy, A., Bhanot, G., Gelinas, C., DiPaola, R.S., Karantza-Wadsworth, V. and White, E. (2009) Autophagy Suppresses Tumorigenesis through Elimination of p62. Cell 137: 1062-1075.

Baby mouse kidney cells

030


Alvares, K., Dixit, S.N., Lux, E. and Veis, A. (2009) Echinoderm Phosphorylated Matrix Proteins UTMP16 and UTMP19 Have Different Functions in Sea Urchin Tooth Mineralization. J Biol Chem. 284: 26149-26160.

Sea urchin

029


Gupta, S., Varghese, M., Shareef, M.M., and Ahmed M.M. (2009) Human Prostate Cancer Cells Secrete Neuro-Protective Factors in Response to Cryotherapy. Mol Cell Pharmacol. 1: 200-206.

Human prostate cancer cells

028


Kurpinski, K., Chu, J., Wang, D.J. and Li, S. (2009) Proteomic Profiling of Mesenchymal Stem Cell Responses to Mechanical Strain and TGF- 1. Cellular and Molecular Bioengineering. 2: 606-614.

Human mesenchymal stem cells

027


Pimkina, J., Humbey, O., Zilfou, J.T., Jarnik, M. and Murphy, M.E. (2009) ARF Induces Autophagy by Virtue of Interaction with Bcl-xl. J. Biol. Chem. 282, 14328-14336.

Immunoprecipitates from purified mitochondria

026


Fong, L.G. et al. (2009) Activating the synthesis of progerin, the mutant prelamin A in Hutchinson-Gilford progeria syndrome, with antisense oligonucleotides. Hum Mol Genet. 18: 2462-2471.

Human fibroblasts

025


Petersen, P.S., Woldbye, D.P., Madsen, A.N., Egerod, K.L., Jin, C., Lang, M., Rasmussen, M., Beck-Sickinger, A.G., Holst, B. (2009) In vivo characterization of high Basal signaling from the ghrelin receptor. Endocrinology. 150(11):4920-4930.

Peptide characterization (mass spec)

024


Tshala-Katumbay, D., Monterroso, V., Kayton, R., Lasarev, M., Sabri, M.M. and Spencer, P. (2009) Probing Mechanisms of Axonopathy. Part II: Protein Targets of 2,5-Hexanedione, the Neurotoxic Metabolite of the Aliphatic Solvent n-Hexane. Toxicological Sciences. 107(2):482-489.

Rat spinal cords

023


Pileggi, A., Ribeiro, M.M., Hogan, A.R., Molano, R.D., Cobianchi, L., Ichii, H., Embury, J., Inverardi, L., Fornoni, A., Ricordi, C. and Pastori, R.L. (2009) Impact of Pancreatic Cold Preservation on Rat Islet Recovery and Function. Transplantation. 87:1442-1450.

Rat pancreatic tissue

022


Shi, T., Moulton, V.R., Lapchak, P.H., Deng, G.M., Lucca, J.J.D. and Tsokos G.C. (2009) Ischemia-mediated aggregation of the actin cytoskeleton is one of the major initial events resulting in ischemia-reperfusion injury. Am J Physiol Gastrointest Liver Physiol 296: 339-G347.

Mouse jejunal segments

021


Caplan J.L., Zhu X., Mamillapalli P., Marathe R., Anandalakshmi R., Dinesh-Kumar S.P. (2009) Induced ER Chaperones Regulate a Receptor-like Kinase to Mediate Antiviral Innate Immune Response in Plants. Cell Host Microbe. 6:457-469.

Plant cells

020


Kang, X., Chen, W., Kim, R.H., Kang, M.K. and Park, N-H. (2009) Regulation of the hTERT promoter activity by MSH2, the hnRNPs K and D, and GRHL2 in human oral squamous cell carcinoma cells. Oncogene 28: 565-574.

IP samples

019


Tector, M., Khatri, B.O., Kozinski, K., Dennert1 K. and Oaks, M.K. (2009) Biochemical analysis of CTLA-4 immunoreactive material from human blood. BMC Immunology 10:51.

Human plasma

018


Averette, K.M., Pratt, M.R., Yang, Y., Bassilian, S., Whitelegge, J.P., Loo, J.A., Muir, T.W., Bradley, K.A. (2009) Anthrax Lethal Toxin Induced Lysosomal Membrane Permeabilization and Cytosolic Cathepsin Release Is Nlrp1b/Nalp1b-Dependent. PLoS ONE. 4(11):e7913.

Macrophage cells

017


Saraswathy, S. and Rao, N.A. (2009) Mitochondrial proteomics in experimental autoimmune uveitis oxidative stress. Invest Ophthalmol Vis Sci. 50:5559-5566.

Mouse retinal mitochondria

016


Hogan, A.R., Doni, M., Ribeiro, M.M., Molano, R.D., Cobianchi, L., Molina, J., Zahr, E., Ricordi, C., Pastori, R.L. and Pileggi, A. (2009) Ischemic preconditioning improves islet recovery after pancreas cold preservation. Transplant Proc. 41:354-355.

Mouse islet cells

015


Pileggi, A., Ribeiro, M.M., Hogan, A.R., Molano, R.D., Embury, J.E., Ichii, H., Cobianchi, L., Fornoni, A., Ricordi, C. and Pastori, R.L. (2009) Effects of pancreas cold ischemia on islet function and quality. Transplant Proc. 41:1808-1809.

Mouse islet cells

014


Tao, G.Z., Looi, K.S., Toivola, D.M., Strnad, P., Zhou, Q., Liao, J., Wei, Y., Habtezion, A., Omary M.B. (2009) Keratins modulate the shape and function of hepatocyte mitochondria: a mechanism for protection from apoptosis. J Cell Sci. 122:3851-3855.

Mouse liver mitochondria

013


Balestrieria, M.L., Rienzob, M., Felicea, F., Rossielloa, R., Grimaldib, V., Milonea, L., Casamassimib, A., Servillo, L., Farzati, B., Giovane, A. and Napoli, C. (2008) High glucose downregulates endothelial progenitor cell number via SIRT1. Biochimica Biophysica Acta (BBA). 1784 (6): 936-945.

Human endothelial progenitor cells

012


Corena-McLeod Mdel P, Oliveros A, Charlesworth C, Madden B, Liang YQ, Boules M, Shaw A, Williams K, Richelson E. (2008) Paliperidone as a mood stabilizer: A pre-frontal cortex synaptoneurosomal proteomics comparison with lithium and valproic acid after chronic treatment reveals similarities in protein expression. Brain Research. 1233:8-19.

Rat brain tissue

011


Ho, T.D., Davis, B.M., Ritchie, J. M. and Waldor, M. K. (2008) Type 2 Secretion Promotes Enterohemorrhagic Escherichia coli Adherence and Intestinal Colonization. Infection and Immunity. 76 (5): 1858-1865.

Enterohemorrhagic E. coli

010


Moore J.C., Fu J., Chan Y.C., Lin D., Tran H., Tse H.F., Li R.A. (2008) Distinct cardiogenic preferences of two human embryonic stem cell (hESC) lines are imprinted in their proteomes in the pluripotent state. Biochem Biophys Res Commun. 372(4):553-558.

Human embryonic stem cells

009


Siboo, I.R., Chaffin, D.O., Rubens, C.E. and Sullam, P.M. (2008). Characterization of the Accessory Sec System of Staphylococcus aureus. J. Bacteriol. 190: 6188-6196.

Culture media

008


Strnad P., Tao G.Z., So P., Lau K., Schilling J., Wei Y., Liao J. and Omary M.B. (2008) "Toxic memory" via chaperone modification is a potential mechanism for rapid mallory-denk body reinduction. Hepatology. 48(3):931-42.

Mouse liver homogenates

007


Tshala-Katumbay, D., Monterroso, V., Kayton, R., Lasarev, M., Sabri, M.M. and Spencer, P. (2008) Probing Mechanisms of Axonopathy. Part I: Protein Targets of 1,2-Diacetylbenzene, the Neurotoxic Metabolite of Aromatic Solvent 1,2-Diethylbenzene. Toxicological Sciences. 105(1):134-141.

Rat spinal cords

006


Fuente, J., Blouin, E.F., Manzano-Roman, R., Naranjo, V., Almazán, C., Lastra, J.M.P., Zivkovic, Z., Jongejan, F. and Kocan, K.M. (2007) Functional genomic studies of tick cells in response to infection with the cattle pathogen, Anaplasma marginale. Genomics, 90 (6): 712-722.

Tick cells

005


Saba, H., Batinic-Haberle, I., Munusamy, S., Mitchell, T., Lichti, C., Megyesi, J., and MacMillan-Crow, L.E., (2007) Manganese Porphyrin Reduces Renal Injury and Mitochondrial Damage during Ischemia/Reperfusion. Free Radic Biol Med. 42(10): 1571-1578.

Rat renal tissue

004


Wong, C.C.L., Xu, T., Rai, R., Bailey, A.O., Yates, J.R. 3rd, Wolf, Y.I., Zebroski, H., and Kashina, A., (2007) Global Analysis of Posttranslational Protein Arginylation. PLoS Biol. 5(10): e258. 2231-2242.

Mouse fibroblasts

003


Zhu, S., Si, M-L., Wu, H., and Mo, Y-Y. (2007) MicroRNA-21 Targets the Tumor Suppressor Gene Tropomyosin 1 (TPM1). J. Biol. Chem. 282, 14328-14336.

Mouse tumor cells

002


Shen Y., Li L., and Liao J., (2006) Proteomic Technology for Plasma and Serum. Genetic Engineering News 26(10).

N/A

001


Nemunaitis, J., Senzer, N., Shen, J., Maples, P., Rao, D., Tong, A., Kumar, P., Kuhn, J., Zhang, Y.A., Liao, J., Khalil, I., Hill, C., and Gazdar,A., (2006) Clinical Study of Personalized Therapeutics Based on Genomic/Proteomic Profiling. Molecular Therapy 13, S21 - S22 (01 May 2006).

N/A


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