Early events in plastid protein degradation in stay-green Arabidopsis reveal differential regulation beyond the retention of LHCII and chlorophyll.

abstract：:Src family kinases (SFKs) are the earliest known family of tyrosine kinases and are widely thought to play essential roles in cellular signal transduction. Although numerous functional analyses have been performed, no study has analyzed the specificity of all SFKs on an equal platform. To gain a better understanding o...

journal_title：Journal of proteome research

authors： Takeda H,Kawamura Y,Miura A,Mori M,Wakamatsu A,Yamamoto J,Isogai T,Matsumoto M,Nakayama KI,Natsume T,Nomura N,Goshima N

更新日期：2010-11-05 00:00:00

abstract：:The skin is the primary boundary between the body and the environment. In addition to its properties as a physical barrier, skin keratinocytes actively participate in many defense mechanisms. Viral double-stranded RNA (dsRNA) is the most important viral structure involved in activation of immune response. Intracellula...

journal_title：Journal of proteome research

authors： Ohman T,Lietzén N,Välimäki E,Melchjorsen J,Matikainen S,Nyman TA

更新日期：2010-03-05 00:00:00

abstract：:Bone proteomics is an expanding field for understanding protein changes associated with disease as well as characterizing and detecting proteins preserved in fossil bone. Most previous studies have utilized a protocol with demineralization and extraction approach to isolate and characterize proteins from bone. Through...

journal_title：Journal of proteome research

authors： Cleland TP

更新日期：2018-01-05 00:00:00

abstract：:Repeat administration of psychostimulants, such as methamphetamine, produces a progressive increase in locomotor activity (behavioral sensitization) in rodents that is believed to represent the underlying neurochemical changes driving psychoses. Alterations to the prefrontal cortex (PFC) are suggested to mediate the e...

journal_title：Journal of proteome research

authors： Wearne TA,Mirzaei M,Franklin JL,Goodchild AK,Haynes PA,Cornish JL

更新日期：2015-01-02 00:00:00

abstract：:The endothelium plays a critical role in orchestrating the inflammatory response seen during sepsis. Many of the inflammatory effects of Gram-negative sepsis are elicited by lipopolysaccharide (LPS), a glycolipid component of bacterial cell walls. Lipid-rich microdomains have been shown to concentrate components of th...

journal_title：Journal of proteome research

authors： Karsan A,Blonder J,Law J,Yaquian E,Lucas DA,Conrads TP,Veenstra T

更新日期：2005-03-01 00:00:00

abstract：:Secreted proteins play a key role in cell signaling, communication, and migration. We recently described the development of an aggressive variant (T24M) of the bladder cancer cell line T24. Using this cell line model, the objective of our work was the identification of secreted proteins involved in the acquisition of ...

journal_title：Journal of proteome research

authors： Makridakis M,Roubelakis MG,Bitsika V,Dimuccio V,Samiotaki M,Kossida S,Panayotou G,Coleman J,Candiano G,Anagnou NP,Vlahou A

更新日期：2010-06-04 00:00:00

abstract：:Birth weight is an important indicator of maternal and fetal health and a predictor of health in later life. However, the determinants of variance in birth weight are still poorly understood. We aimed to identify the biological pathways, which may be perturbed by environmental exposures, that are important in determin...

journal_title：Journal of proteome research

authors： Robinson O,Keski-Rahkonen P,Chatzi L,Kogevinas M,Nawrot T,Pizzi C,Plusquin M,Richiardi L,Robinot N,Sunyer J,Vermeulen R,Vrijheid M,Vineis P,Scalbert A,Chadeau-Hyam M

更新日期：2018-03-02 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：: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：:The field of computational proteomics is approaching the big data age, driven both by a continuous growth in the number of samples analyzed per experiment as well as by the growing amount of data obtained in each analytical run. In order to process these large amounts of data, it is increasingly necessary to use elast...

journal_title：Journal of proteome research

authors： Hulstaert N,Shofstahl J,Sachsenberg T,Walzer M,Barsnes H,Martens L,Perez-Riverol Y

更新日期：2020-01-03 00:00:00

abstract：:Spectral library searching is a popular approach for MS/MS-based peptide identification. Because the size of spectral libraries continues to grow, the performance of searching algorithms is an important issue. This technical note introduces a strategy based on a minimum shared peak count between two spectra to reduce ...

journal_title：Journal of proteome research

authors： Vu TN,Bittremieux W,Valkenborg D,Goethals B,Lemière F,Laukens K

更新日期：2014-09-05 00:00:00

abstract：:Although the "missing protein" is a temporary concept in C-HPP, the biological information for their "missing" could be an important clue in evolutionary studies. Here we classified missing-protein-encoding genes into two groups, the genes encoding PE2 proteins (with transcript evidence) and the genes encoding PE3/4 p...

journal_title：Journal of proteome research

authors： Xu A,Li G,Yang D,Wu S,Ouyang H,Xu P,He F

更新日期：2015-12-04 00:00:00

abstract：:Protein interaction networks display approximate scale-free topology, in which hub proteins that interact with a large number of other proteins determine the overall organization of the network. In this study, we aim to determine whether hubs are distinguishable from other networked proteins by specific sequence featu...

journal_title：Journal of proteome research

authors： Dosztányi Z,Chen J,Dunker AK,Simon I,Tompa P

更新日期：2006-11-01 00:00:00

abstract：:We performed proteomic analyses of human olfactory epithelial tissue to identify missing proteins using liquid chromatography-tandem mass spectrometry. Using a next-generation proteomic pipeline with a < 1.0% false discovery rate at the peptide and protein levels, we identified 3731 proteins, among which five were mis...

journal_title：Journal of proteome research

authors： Hwang H,Jeong JE,Lee HK,Yun KN,An HJ,Lee B,Paik YK,Jeong TS,Yee GT,Kim JY,Yoo JS

更新日期：2018-12-07 00:00:00

abstract：:Carcinoma, the most common type of cancer, arises from epithelial cells. The transition from adenoma to carcinoma is associated with the loss of E-cadherin and, in consequence, the disruption of cell-cell contacts. E-cadherin is a tumor suppressor, and it is down-regulated during epithelial-to-mesenchymal transition (...

journal_title：Journal of proteome research

authors： Díaz-Díaz A,Casas-Pais A,Calamia V,Castosa R,Martinez-Iglesias O,Roca-Lema D,Santamarina I,Valladares-Ayerbes M,Calvo L,Chantada V,Figueroa A

更新日期：2017-08-04 00:00:00

abstract：:Cardiovascular disease is the leading cause of diabetic morbidity with more than 10% of type 1 diabetes mellitus (T1DM) patients dying before they are 40 years old. This study utilized Akita mice, a murine model with T1DM progression analogous to that of humans. Diabetic cardiomyopathy in Akita mice presents as cardia...

journal_title：Journal of proteome research

authors： Dewey S,Lai X,Witzmann FA,Sohal M,Gomes AV

更新日期：2013-09-06 00:00:00

abstract：:Campylobacter jejuni, an important foodborne microorganism, poses severe and emergent threats to human health as antibiotic resistance becomes increasingly prevalent. The mechanisms of drug resistance are hard to decipher, and little is known at the metabolic level. Here we apply metabolomic profiling to discover meta...

journal_title：Journal of proteome research

authors： Li H,Xia X,Li X,Naren G,Fu Q,Wang Y,Wu C,Ding S,Zhang S,Jiang H,Li J,Shen J

更新日期：2015-02-06 00:00:00

abstract：:There are three quantitative phosphoproteomic strategies most commonly used to study receptor tyrosine kinase (RTK) signaling. These strategies quantify changes in: (1) all three forms of phosphosites (phosphoserine, phosphothreonine and phosphotyrosine) following enrichment of phosphopeptides by titanium dioxide or i...

journal_title：Journal of proteome research

authors： Zhang G,Neubert TA

更新日期：2011-12-02 00:00:00

abstract：:Mass spectrometry is being used to identify protein biomarkers that can facilitate development of drug treatment. Mass spectrometry-based labeling proteomic experiments result in complex proteomic data that is hierarchical in nature often with small sample size studies. The generalized linear model (GLM) is the most p...

journal_title：Journal of proteome research

authors： D'Angelo G,Chaerkady R,Yu W,Hizal DB,Hess S,Zhao W,Lekstrom K,Guo X,White WI,Roskos L,Bowen MA,Yang H

更新日期：2017-09-01 00:00:00

abstract：:In the past few years, the focus of phosphoproteomics has shifted from merely qualitative to quantitative and targeted studies. Tryptic digestion is a critical step that directly affects quantification and that can be impaired by phosphorylation. Therefore, we systematically characterized the digestion efficiency of 1...

journal_title：Journal of proteome research

authors： Dickhut C,Feldmann I,Lambert J,Zahedi RP

更新日期：2014-06-06 00:00:00

abstract：:We investigated the effect of homogenization strategy and protein precipitation on downstream protein quantitation using multiple reaction monitoring mass spectrometry (MRM-MS). Our objective was to develop a workflow capable of processing disparate tissue types with high throughput, minimal variability, and maximum p...

journal_title：Journal of proteome research

authors： Michaud SA,Pětrošová H,Jackson AM,McGuire JC,Sinclair NJ,Ganguly M,Flenniken AM,Nutter LMJ,McKerlie C,Schibli D,Smith D,Borchers CH

更新日期：2021-01-01 00:00:00

abstract：:The bacterial ribosomal protein S12 contains a universally conserved D88 residue on a loop region thought to be critically involved in translation due to its proximal location to the A site of the 30S subunit. While D88 mutants are lethal this residue has been found to be post-translationally modified to β-methylthioa...

journal_title：Journal of proteome research

authors： Strader MB,Hervey WJ 4th,Costantino N,Fujigaki S,Chen CY,Akal-Strader A,Ihunnah CA,Makusky AJ,Court DL,Markey SP,Kowalak JA

更新日期：2013-03-01 00:00:00

abstract：:The process of extracting comprehensive proteome representations is a crucial step for many proteomic studies. While antibody microarrays are an evolving and promising methodology in proteomics, the issue of protein extraction from tissues for this kind of analysis has never been addressed. Here, we describe a single-...

journal_title：Journal of proteome research

authors： Alhamdani MS,Schröder C,Werner J,Giese N,Bauer A,Hoheisel JD

更新日期：2010-02-05 00:00:00

abstract：:Major depressive disorder (MDD) is a debilitating mental disease with a pronounced impact on the quality of life of many people; however, it is still difficult to diagnose MDD accurately. In this study, a nontargeted metabolomics approach based on ultra-high-performance liquid chromatography equipped with quadrupole t...

journal_title：Journal of proteome research

authors： Liu X,Zheng P,Zhao X,Zhang Y,Hu C,Li J,Zhao J,Zhou J,Xie P,Xu G

更新日期：2015-05-01 00:00:00

abstract：:Various biological activities of immunoglobulin G (IgG) including antibody-dependent cellular cytotoxicity (ADCC) are modulated by the structural features of the N-glycans in the Fc part. In this study, we describe a population of IgG1 alloantibodies which are formed during pregnancy against human platelet antigens (H...

journal_title：Journal of proteome research

authors： Wuhrer M,Porcelijn L,Kapur R,Koeleman CA,Deelder A,de Haas M,Vidarsson G

更新日期：2009-02-01 00:00:00

abstract：:A synthetic coumarin, N,N,N-triethyl-11-(4-methyl-2-oxo-2H-chromen-7-yloxy)-11-oxoundecan-1-aminium bromide (SCD-1), having potent activity against pathogenic Aspergilli (MIC90 15.62 μg/mL), was investigated to identify its molecular targets in the pathogen. The proteome of Aspergillus fumigatus was developed after tr...

journal_title：Journal of proteome research

authors： Singh S,Gupta S,Singh B,Sharma SK,Gupta VK,Sharma GL

更新日期：2012-06-01 00:00:00

abstract：:A proper sample preparation, in particular, abundant protein removal is crucial in the characterization of low-abundance proteins including those harboring post-translational modifications. In human cerebrospinal fluid (CSF), approximately 80% of proteins originate from serum, and removal of major proteins is necessar...

journal_title：Journal of proteome research

authors： Ogata Y,Charlesworth MC,Muddiman DC

更新日期：2005-05-01 00:00:00

abstract：:High plant lignan intake is associated with a number of health benefits, possibly induced by the lignan metabolite enterolactone (ENL). The gut microbiota plays a crucial role in converting dietary lignans into ENL, and epidemiological studies have shown that use of antibiotics is associated with lower levels of ENL. ...

journal_title：Journal of proteome research

authors： Bolvig AK,Nørskov NP,Hedemann MS,Foldager L,McCarthy-Sinclair B,Marco ML,Lærke HN,Bach Knudsen KE

更新日期：2017-06-02 00:00:00

abstract：:We developed an ELISA in high-density microarray format to detect hepatocyte growth factor (HGF) in human serum. The microassay can detect HGF at sub-pg/mL concentrations in sample volumes of 100 microL or less. The microassay is also quantitative and was used to detect elevated HGF levels in sera from recurrent breas...

journal_title：Journal of proteome research

authors： Woodbury RL,Varnum SM,Zangar RC

更新日期：2002-05-01 00:00:00

abstract：:S-Nitrosylation is a redox-based post-translational modification of a protein in response to nitric oxide (NO) signaling, and it participates in a variety of processes in diverse biological systems. The significance of this type of protein modification in health and diseases is increasingly recognized. In the central ...

journal_title：Journal of proteome research

authors： Qu Z,Greenlief CM,Gu Z

更新日期：2016-01-04 00:00:00