Label-free proteomics and systems biology analysis of mycobacterial phagosomes in dendritic cells and macrophages.

abstract：:Urine is an ideal material to study the cancer-related protein biomarkers in bladder, whereas exploration to these candidates is confronting technique challenges. Herein, we propose a comprehensive strategy of searching the urine proteins related with bladder cancer. The strategy consists of three core combinations, s...

journal_title：Journal of proteome research

authors： Guo J,Ren Y,Hou G,Wen B,Xian F,Chen Z,Cui P,Xie Y,Zi J,Lin L,Wu S,Li Z,Wu L,Lou X,Liu S

更新日期：2016-07-01 00:00:00

abstract：:Broadly neutralizing antibodies (bNAbs) that target the trimeric HIV-1 envelope glycoprotein spike (Env) are tools that can guide the design of recombinant Env proteins intended to engage the predicted human germline precursors of bNAbs (gl-bNAbs). The protein components of gl-bNAb epitopes are often masked by glycans...

journal_title：Journal of proteome research

authors： Behrens AJ,Kumar A,Medina-Ramirez M,Cupo A,Marshall K,Cruz Portillo VM,Harvey DJ,Ozorowski G,Zitzmann N,Wilson IA,Ward AB,Struwe WB,Moore JP,Sanders RW,Crispin M

更新日期：2018-03-02 00:00:00

abstract：:N-Glycans are an important source of milk oligosaccharides. In addition to free oligosaccharides found in milk, N-glycans can also be utilized by gut microbes. A potential for milk N-glycans to act as gut microbe regulators in suckling animals has attracted considerable attention; however, sow milk N-glycans and their...

journal_title：Journal of proteome research

authors： Mu C,Cai Z,Bian G,Du Y,Ma S,Su Y,Liu L,Voglmeir J,Huang R,Zhu W

更新日期：2019-03-01 00:00:00

abstract：:Quantitative proteomics experiments, using for instance isobaric tandem mass tagging approaches, are conducive to measuring changes in protein abundance over multiple time points in response to one or more conditions or stimulations. The aim is often to determine which proteins exhibit similar patterns within and acro...

journal_title：Journal of proteome research

authors： Lee LH,Halu A,Morgan S,Iwata H,Aikawa M,Singh SA

更新日期：2019-02-01 00:00:00

abstract：:Chronic Obstructive Pulmonary Disease (COPD), a lung disease related to smoking, is one of the leading causes of chronic morbidity and mortality around the world. One goal in COPD research is the identification of biomarkers for early diagnosis of the disease. Here, we sought COPD-specific changes in the proteome from...

journal_title：Journal of proteome research

authors： Ohlmeier S,Vuolanto M,Toljamo T,Vuopala K,Salmenkivi K,Myllärniemi M,Kinnula VL

更新日期：2008-12-01 00:00:00

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：:As central tissue of glucose homeostasis, islet has been an important focus of diabetes research. Phosphorylation plays pivotal roles in islet function, especially in islet glucose-stimulated insulin secretion. A systematic view on how phosphorylation networks were coordinately regulated in this process remains lackin...

journal_title：Journal of proteome research

authors： Li J,Li Q,Tang J,Xia F,Wu J,Zeng R

更新日期：2015-11-06 00:00:00

abstract：:Hematopoietic stem cell transplantation is the oldest and most successful form of stem cell therapy. High dose therapy (HDT) followed by hematopoietic stem cell transplantation allows physicians to administer increased amounts of chemotherapy and/or radiation while minimizing negative side effects such as damage to bl...

journal_title：Journal of proteome research

authors： Cano KE,Li L,Bhatia S,Bhatia R,Forman SJ,Chen Y

更新日期：2011-06-03 00:00:00

abstract：:Assessing metabolomic alterations in age-related macular degeneration (AMD) can provide insights into its pathogenesis. We compared the metabolomic profiles of the aqueous humor between wet AMD patients (n = 26) and age- and sex-matched patients undergoing cataract surgery without AMD as controls (n = 20). A global un...

journal_title：Journal of proteome research

authors： Han G,Wei P,He M,Teng H,Chu Y

更新日期：2020-06-05 00:00:00

abstract：:Seasonal nitrogen (N) cycling in temperate deciduous trees involves the accumulation of bark storage proteins (BSPs) in phloem parenchyma and xylem ray cells. BSPs are anabolized using recycled N during autumn leaf senescence and later become a source of N during spring shoot growth as they are catabolized. Little is ...

journal_title：Journal of proteome research

authors： Islam N,Li G,Garrett WM,Lin R,Sriram G,Cooper B,Coleman GD

更新日期：2015-02-06 00:00:00

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：:Colon cancer is the most common cancer and the third leading cause of cancer mortality in humans. Using mass spectrometry-based metabolomics, the current study revealed the accumulation of four uremic toxins (cresol sulfate, cresol glucuronide, indoxyl sulfate, and phenyl sulfate) in the serum of mice harboring adenom...

journal_title：Journal of proteome research

authors： Li F,Yang XW,Krausz KW,Nichols RG,Xu W,Patterson AD,Gonzalez FJ

更新日期：2015-04-03 00:00:00

abstract：:Workflows in urinary proteomics studies are often complex and require many steps to enrich, purify, deplete, and separate the complex mixture. Many of these methods are laborious, are time-consuming, and have the potential for error. Although individual steps of these methods have been previously studied, their downst...

journal_title：Journal of proteome research

authors： Vaezzadeh AR,Briscoe AC,Steen H,Lee RS

更新日期：2010-11-05 00:00:00

abstract：:To understand bacterial reactions to environmental stress or infection-related processes, it is necessary to identify the involved proteins. In mass spectrometry-based proteomics, the method of choice for spectra-to-peptide-match is database search, but in recent times, spectral libraries have come into focus. Here, w...

journal_title：Journal of proteome research

authors： Hentschker C,Maaß S,Junker S,Hecker M,Hammerschmidt S,Otto A,Becher D

更新日期：2020-04-03 00:00:00

abstract：:Fucosylated alpha-fetoprotein (AFP) is a specific tumor marker for hepatocellular carcinomas (HCC). However, the mechanisms underlying the increase in fucosylated AFP in serum of patients with HCC are largely unknown. Recently, we reported that fucosylation is a possible signal for the secretion of glycoproteins into ...

journal_title：Journal of proteome research

authors： Nakagawa T,Takeishi S,Kameyama A,Yagi H,Yoshioka T,Moriwaki K,Masuda T,Matsumoto H,Kato K,Narimatsu H,Taniguchi N,Miyoshi E

更新日期：2010-10-01 00:00:00

abstract：:Populus tremula L. x P. alba L. (Populus x canescens (Aiton) Smith), clone INRA 717-1-B4, saplings were subjected to 120 ppb ozone exposure for 28 days. Chloroplasts were isolated, and the membrane proteins, solubilized using the detergent 1,2-diheptanoyl-sn-glycero-3-phosphocholine (DHPC), were analyzed in a differen...

journal_title：Journal of proteome research

authors： Bohler S,Sergeant K,Hoffmann L,Dizengremel P,Hausman JF,Renaut J,Jolivet Y

更新日期：2011-07-01 00:00:00

abstract：:Sperm proteomes have emerged for several species; however, the extent of species similarity is unknown. Sheep are an important agricultural species for which a comprehensive sperm proteome has not been produced. In addition, potential proteomic factors from seminal plasma that may contribute to improved fertility afte...

journal_title：Journal of proteome research

authors： Pini T,Leahy T,Soleilhavoup C,Tsikis G,Labas V,Combes-Soia L,Harichaux G,Rickard JP,Druart X,de Graaf SP

更新日期：2016-10-07 00:00:00

abstract：:Dehydroeffusol (DHE) is a phenanthrene isolated from the Chinese medicinal plant Juncus effusus. Biological evaluation of DHE reveals in vitro and in vivo anticancer effects. We performed a shotgun proteomic analysis using liquid chromatography-tandem mass spectrometry to investigate the changes in the protein profile...

journal_title：Journal of proteome research

authors： Chang IS,Sy LK,Cao B,Lum CT,Kwong WL,Fung YE,Lok CN,Che CM

更新日期：2018-07-06 00:00:00

abstract：:Human mesenchymal stromal cells (hMSCs) are promising candidates for cell therapy and tissue regeneration. Knowledge of the molecular mechanisms governing hMSC commitment into osteoblasts is critical to the development of therapeutic applications for human bone diseases. Because protein phosphorylation plays a critica...

journal_title：Journal of proteome research

authors： Lo T,Tsai CF,Shih YR,Wang YT,Lu SC,Sung TY,Hsu WL,Chen YJ,Lee OK

更新日期：2012-02-03 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：:Protein turnover is an important aspect of the regulation of cellular processes for organisms when responding to developmental or environmental cues. The measurement of protein turnover in plants, in contrast to that of rapidly growing unicellular organismal cultures, is made more complicated by the high degree of ami...

journal_title：Journal of proteome research

authors： Fan KT,Rendahl AK,Chen WP,Freund DM,Gray WM,Cohen JD,Hegeman AD

更新日期：2016-03-04 00:00:00

abstract：:Glial-cell-line-derived neurotrophic factor (GDNF) is a most potent survival factor for dopaminergic neurons. In addition, GDNF was also found to promote neurite outgrowth in dopaminergic neurons. However, despite the potential clinical and physiological importance of GDNF, its mechanism of action is unclear. Therefor...

journal_title：Journal of proteome research

authors： Hong Z,Zhang QY,Liu J,Wang ZQ,Zhang Y,Xiao Q,Lu J,Zhou HY,Chen SD

更新日期：2009-06-01 00:00:00

abstract：:Gaining insights into the molecular events that govern the progression from melanoma in situ to advanced melanoma and understanding how the local microenvironment at the melanoma site influences this progression are two clinically pivotal aspects that to date are largely unexplored. In an effort to identify key regula...

journal_title：Journal of proteome research

authors： Hood BL,Grahovac J,Flint MS,Sun M,Charro N,Becker D,Wells A,Conrads TP

更新日期：2010-07-02 00:00:00

abstract：:The energy-dissipating alternative oxidase (AOX) from Hansenula anomala was expressed in Saccharomyces cerevisiae. The recombinant AOX was functional. A comparative analysis by two-dimensional differential in-gel electrophoresis (2D-DIGE) of mitochondrial protein patterns found in wild-type and recombinant AOX strains...

journal_title：Journal of proteome research

authors： Mathy G,Navet R,Gerkens P,Leprince P,De Pauw E,Sluse-Goffart CM,Sluse FE,Douette P

更新日期：2006-02-01 00:00:00

abstract：:Protein-protein interactions play a major role in the molecular machinery of life, and various techniques such as AP-MS are dedicated to their identification. However, those techniques return lists of proteins devoid of organizational structure, not detailing which proteins interact with which others. Proposing a hier...

journal_title：Journal of proteome research

authors： Postic G,Marcoux J,Reys V,Andreani J,Vandenbrouck Y,Bousquet MP,Mouton-Barbosa E,Cianférani S,Burlet-Schiltz O,Guerois R,Labesse G,Tufféry P

更新日期：2020-07-02 00:00:00

abstract：:Correct phosphorylation site assignment is a critical aspect of phosphoproteomic analysis. Large-scale phosphopeptide data sets that are generated through liquid chromatography-coupled tandem mass spectrometry (LC-MS/MS) analysis often contain hundreds or thousands of phosphorylation sites that require validation. To ...

journal_title：Journal of proteome research

authors： Ruttenberg BE,Pisitkun T,Knepper MA,Hoffert JD

更新日期：2008-07-01 00:00:00

abstract：:Extracellular vesicles (EVs) are important mediators of cell-cell communication due to their cargo content of proteins, lipids, and RNAs. We previously reported that small EVs (SEVs) called exosomes promote directed and random cell motility, invasion, and serum-independent growth. In contrast, larger EVs (LEVs) were n...

journal_title：Journal of proteome research

authors： Jimenez L,Yu H,McKenzie AJ,Franklin JL,Patton JG,Liu Q,Weaver AM

更新日期：2019-03-01 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：:Peroxiredoxin V, an atypical thioredoxin peroxidase, is widely expressed in mammalian tissues. In addition, Prdx V is localized in mitochondria, peroxisome, cytosol, and the nucleus. Prdx V has been reported to protect a wide range of cellular environments as an antioxidant enzyme, and its dysfunctions may be implicat...

journal_title：Journal of proteome research

authors： Yang HY,Kwon J,Cho EJ,Choi HI,Park C,Park HR,Park SH,Chung KJ,Ryoo ZY,Cho KO,Lee TH

更新日期：2010-08-06 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