Processing of data generated by 2-dimensional gel electrophoresis for statistical analysis: missing data, normalization, and statistics.

abstract：:Tyrosine phosphorylation plays a major role in regulating cell signaling pathways governing diverse biological functions such as proliferation and differentiation. Systemically mapping phosphotyrosine (pTyr) sites is the key to understanding molecular mechanisms underlining pTyr-dependent signaling. Although mass spec...

journal_title：Journal of proteome research

authors： Yao Y,Wang Y,Wang S,Liu X,Liu Z,Li Y,Fang Z,Mao J,Zheng Y,Ye M

更新日期：2019-04-05 00:00:00

abstract：:POPX2 is a serine/threonine phosphatase belonging to the protein phosphatase 2C (PP2C) family that has been found to be elevated in invasive breast cancer cells. Silencing of POPX2 results in lower cell motility and invasiveness. The molecular mechanism of POPX2-regulated cell motility is not well understood. To ident...

journal_title：Journal of proteome research

authors： Zhang S,Guo T,Chan H,Sze SK,Koh CG

更新日期：2013-06-07 00:00:00

abstract：:Prostate cancer (PCa) is the second leading cause of cancer-related mortality in men. The prevalent diagnosis method is based on the serum prostate-specific antigen (PSA) screening test, which suffers from low specificity, overdiagnosis, and overtreatment. In this work, untargeted metabolomic profiling of age-matched ...

journal_title：Journal of proteome research

authors： Zang X,Jones CM,Long TQ,Monge ME,Zhou M,Walker LD,Mezencev R,Gray A,McDonald JF,Fernández FM

更新日期：2014-07-03 00:00:00

abstract：:Human plasma and serum proteins are subject to intrinsic proteolytic degradation both during and after blood collection. By monitoring peptides, we investigated the stability of plasma and serum samples and the effects of anticoagulants and protease inhibitors on the plasma samples. Serum and plasma were subjected to ...

journal_title：Journal of proteome research

authors： Yi J,Kim C,Gelfand CA

更新日期：2007-05-01 00:00:00

abstract：:Protein phosphorylation is essential for numerous cellular processes. Large-scale profiling of phosphoproteins continues to enhance the depth and speed at which we understand these processes. The development of effective phosphoprotein and peptide enrichment techniques and improvements to mass spectrometric instrument...

journal_title：Journal of proteome research

authors： Li X,Gerber SA,Rudner AD,Beausoleil SA,Haas W,Villén J,Elias JE,Gygi SP

更新日期：2007-03-01 00:00:00

abstract：:Francisella tularensis is a Gram-negative bacterium that causes the zoonotic disease tularemia. The historical development of tularemia as a biological weapon has led to it being characterized by the CDC as a category A biothreat agent. Neither posttranslational modification (PTM) of proteins, in particular lysine ace...

journal_title：Journal of proteome research

authors： Marakasova E,Ii A,Nelson KT,van Hoek ML

更新日期：2020-04-03 00:00:00

abstract：:Since 2012, missing proteins (MPs) investigation has been one of the critical missions of Chromosome-Centric Human Proteome Project (C-HPP) through various biochemical strategies. On the basis of our previous testis MPs study, faster scanning and higher resolution mass-spectrometry-based proteomics might be conducive ...

journal_title：Journal of proteome research

authors： Wei W,Luo W,Wu F,Peng X,Zhang Y,Zhang M,Zhao Y,Su N,Qi Y,Chen L,Zhang Y,Wen B,He F,Xu P

更新日期：2016-11-04 00:00:00

abstract：:Roux-en-Y gastric bypass (RYGB) is one of the most effective treatments for long-term weight loss and diabetes remission; however, the mechanisms underlying these changes are not clearly understood. In this study, the serum metabolic profiles of 23 remission and 12 nonremission patients with type 2 diabetes mellitus (...

journal_title：Journal of proteome research

authors： Luo P,Yu H,Zhao X,Bao Y,Hong CS,Zhang P,Tu Y,Yin P,Gao P,Wei L,Zhuang Z,Jia W,Xu G

更新日期：2016-04-01 00:00:00

abstract：:14-3-3s are phosphoserine/phosphotreonine binding proteins that play pivotal roles as regulators of multiple cellular processes in eukaryotes. The flagellated protozoan parasite Giardia duodenalis, the causing agent of giardiasis, is a valuable simplified eukaryotic model. A single 14-3-3 isoform (g14-3-3) is expresse...

journal_title：Journal of proteome research

authors： Lalle M,Camerini S,Cecchetti S,Sayadi A,Crescenzi M,Pozio E

更新日期：2012-05-04 00:00:00

abstract：:The CB1 and CB2 cannabinoid receptors belong to the GPCR superfamily and are associated with a variety of physiological and pathophysiological processes. Both receptors, with several lead compounds at different phases of development, are potentially useful targets for drug discovery. For this reason, fully elucidating...

journal_title：Journal of proteome research

authors： Zvonok N,Yaddanapudi S,Williams J,Dai S,Dong K,Rejtar T,Karger BL,Makriyannis A

更新日期：2007-06-01 00:00:00

abstract：:The zebrafish genome has recently been sequenced and annotated allowing for high-throughput proteomic analysis. Here, we report for the first time a proteomic subset of zebrafish liver, an important organ for metabolizing toxins. Using a newly developed analytical procedure, we have identified 1204 proteins from the c...

journal_title：Journal of proteome research

authors： Wang N,Mackenzie L,De Souza AG,Zhong H,Goss G,Li L

更新日期：2007-01-01 00:00:00

abstract：:The aim of current study was to investigate the metabolic changes associated with histidine supplementation in serum and urine metabolic signatures and serum amino acid (AA) profiles. Serum and urine 1H NMR-based metabolomics and serum AA profiles were employed in 32 and 37 obese women with metabolic syndrome (MetS) i...

journal_title：Journal of proteome research

authors： Du S,Sun S,Liu L,Zhang Q,Guo F,Li C,Feng R,Sun C

更新日期：2017-06-02 00:00:00

abstract：:In this paper, we describe a method for analyzing large-volume protein samples using capillary electrophoresis in conjunction with laser-induced fluorescence detection (CE-LIF). To improve the stacking and separation efficiencies of proteins, we added either 0.01% sodium dodecyl sulfate (SDS) or 0.01% poly(ethylene ox...

journal_title：Journal of proteome research

authors： Huang YF,Hsieh MM,Tseng WL,Chang HT

更新日期：2006-02-01 00:00:00

abstract：:The fungal pathogen Fusarium graminearum (telomorph Gibberella zeae) is the causal agent of several destructive crop diseases. Identifying interactions among F. graminearum proteins and understanding their functions can provide insights into pathogenic mechanisms underlying F. graminearum-host interactions. F. gramine...

journal_title：Journal of proteome research

authors： Zhao XM,Zhang XW,Tang WH,Chen L

更新日期：2009-10-01 00:00:00

abstract：:Yeast two-hybridization (Y2H) is a classical method to study protein-protein interactions in organisms, and the top limitation of Y2H is the high ratio of false negatives and false positives. The most efficient way to reduce this error is to improve the quality of the library. The traditional library quality evaluatio...

journal_title：Journal of proteome research

authors： Yu Q,Hu Y,Su J,Li P,Zhang L,Fu X,Chen F,Song A

更新日期：2020-08-07 00:00:00

abstract：:Streptococcus agalactiae causes severe systemic infections in human and fish. In the present study, we established a pathogen-plasma interaction model by which we explored how S. agalactiae evaded serum-mediated killing. We found that S. agalactiae grew faster in the presence of yellow grouper plasma than in the absen...

journal_title：Journal of proteome research

authors： Wang Z,Li MY,Peng B,Cheng ZX,Li H,Peng XX

更新日期：2016-07-01 00:00:00

abstract：:Analysis of the cerebrospinal fluid (CSF) proteome has proven valuable to the study of neurodegenerative disorders. To identify new protein/pathway alterations and candidate biomarkers for amyotrophic lateral sclerosis (ALS), we performed comparative proteomic profiling of CSF from sporadic ALS (sALS), healthy control...

journal_title：Journal of proteome research

authors： Collins MA,An J,Hood BL,Conrads TP,Bowser RP

更新日期：2015-11-06 00:00:00

abstract：:Our recent study first demonstrated that human bone marrow mesenchymal stem cell (hBMSC) transplantation could prevent death from fulminant hepatic failure (FHF) in pigs. To further clarify the metabolic mechanism of hBMSC transplantation in FHF, the plasma collected from FHF pigs that received transplantation of hBMS...

journal_title：Journal of proteome research

authors： Li J,Xin J,Hao S,Zhang L,Jiang L,Chen D,Xie Q,Xu W,Cao H,Li L

更新日期：2012-06-01 00:00:00

abstract：:While numerous strategies exist for biomarker discovery, the bottleneck to product development and routine use at the clinic is in the verification phase of candidate biomarkers. The aim of this study was to establish a robust and high-throughput product ion monitoring (PIM) assay that is potentially capable of rapidl...

journal_title：Journal of proteome research

authors： Kulasingam V,Smith CR,Batruch I,Buckler A,Jeffery DA,Diamandis EP

更新日期：2008-02-01 00:00:00

abstract：:In this report, we use a proteomic strategy to identify glycoproteins on the surface of exosomes derived from myeloid-derived suppressor cells (MDSCs), and then test if selected glycoproteins contribute to exosome-mediated chemotaxis and migration of MDSCs. We report successful modification of a surface chemistry meth...

journal_title：Journal of proteome research

authors： Chauhan S,Danielson S,Clements V,Edwards N,Ostrand-Rosenberg S,Fenselau C

更新日期：2017-01-06 00:00:00

abstract：:Lysine methylation plays important roles in structural and functional regulation of chromatin. Although trypsin is the most widely used protease in mass spectrometry-based proteomic analysis for lysine methylation substrates, the proteolytic activity of trypsin on dimethylated lysine residues remains an arguable issue...

journal_title：Journal of proteome research

authors： Chen M,Zhang M,Zhai L,Hu H,Liu P,Tan M

更新日期：2017-09-01 00:00:00

abstract：:Our previous studies suggest that the α2,3sialylated T-antigen (NeuAcα2,3Galβ1,3GalNac-) and associated glycan structures are likely to be elevated during cancer. An easy and reliable strategy to label mucinous glycans that contain such carbohydrates can enable the identification of novel glycoproteins that are cancer...

journal_title：Journal of proteome research

authors： Chandrasekaran EV,Xue J,Xia J,Locke RD,Patil SA,Neelamegham S,Matta KL

更新日期：2012-04-06 00:00:00

abstract：:Nostoc punctiforme ATCC 29133 is a photoautotrophic cyanobacterium with the capacity to fix atmospheric N 2. Its ability to mediate this process is similar to that described for Nostoc sp. PCC 7120, where vegetative cells differentiate into heterocysts. Quantitative proteomic investigations at both the filament level ...

journal_title：Journal of proteome research

authors： Ow SY,Noirel J,Cardona T,Taton A,Lindblad P,Stensjö K,Wright PC

更新日期：2009-01-01 00:00:00

abstract：:We aimed to determine the time-course of metabolic changes related to the early onset of insulin resistance (IR), trying to evidence breaking points preceding the appearance of the clinical IR phenotype. The model chosen was the fructose (FRU)-fed rat compared to controls fed with starch. We focused on the hepatic met...

journal_title：Journal of proteome research

authors： Polakof S,Dardevet D,Lyan B,Mosoni L,Gatineau E,Martin JF,Pujos-Guillot E,Mazur A,Comte B

更新日期：2016-06-03 00:00:00

abstract：:Reference materials are vital to benchmarking the reproducibility of clinical tests and essential for monitoring laboratory performance for clinical proteomics. The reference material utilized for mass spectrometric analysis of the human proteome would ideally contain enough proteins to be suitably representative of t...

journal_title：Journal of proteome research

authors： Clark DJ,Hu Y,Bocik W,Chen L,Schnaubelt M,Roberts R,Shah P,Whiteley G,Zhang H

更新日期：2018-06-01 00:00:00

abstract：:The secreted proteins of bacteria are usually accompanied by virulence factors, which can cause inflammation and damage host cells. Identifying the secretomes arising from the interactions of bacteria and host cells could therefore increase understanding of the mechanisms during initial pathogenesis. The present study...

journal_title：Journal of proteome research

authors： Chiu KH,Wang LH,Tsai TT,Lei HY,Liao PC

更新日期：2017-01-06 00:00:00

abstract：:Tomato fruit and seed allergens were detected by IgE-immunoblotting using sera from 18 adult tomato-sensitized patients selected based on a positive history skin prick test (SPT) and specific Immunglobulin (Ig) E-levels. Isolated tomato seed total protein showed high SPT activity comparable or even higher than tomato ...

journal_title：Journal of proteome research

authors： Bässler OY,Weiss J,Wienkoop S,Lehmann K,Scheler C,Dölle S,Schwarz D,Franken P,George E,Worm M,Weckwerth W

更新日期：2009-03-01 00:00:00

abstract：:In this work, we developed a general perturbation theory and machine learning method for data mining of proteomes to discover new B-cell epitopes useful for vaccine design. The method predicts the epitope activity εq(cqj) of one query peptide (q-peptide) under a set of experimental query conditions (cqj). The method u...

journal_title：Journal of proteome research

authors： Martínez-Arzate SG,Tenorio-Borroto E,Barbabosa Pliego A,Díaz-Albiter HM,Vázquez-Chagoyán JC,González-Díaz H

更新日期：2017-11-03 00:00:00

abstract：:Polygalacturonase inhibiting proteins (PGIPs) are members of the leucine rich repeat family of proteins, involved in plant defense against fungal pathogens. PGIPs exhibit a remarkable degree of specificity in terms of their ability to bind and inhibit their target molecules, the endopolygalacturonases (EPGs). This spe...

journal_title：Journal of proteome research

authors： Lim JM,Aoki K,Angel P,Garrison D,King D,Tiemeyer M,Bergmann C,Wells L

更新日期：2009-02-01 00:00:00

abstract：:Comparative phosphoproteomics of Mycobacterium tuberculosis (Mtb)- and Mycobacterium bovis BCG (BCG)-infected macrophages could be instrumental in understanding the characteristic post-translational modifications of host proteins and their subsequent involvement in determining Mtb pathogenesis. To identify proteins ac...

journal_title：Journal of proteome research

authors： Choudhary E,Bullen CK,Goel R,Singh AK,Praharaj M,Thakur P,Dhiman R,Bishai WR,Agarwal N

更新日期：2020-06-05 00:00:00