Qualitative and quantitative proteomic profiling of cripto(-/-) embryonic stem cells by means of accurate mass LC-MS analysis.

abstract：:Nicotinamide adenine dinucleotide (NAD) is a coenzyme found in all living cells and mediates multiple cellular signaling pathways. In the present study, a 35% decrease of cellular NAD level is achieved by stable expression of the N-terminal truncated CD38, a NAD hydrolase. CD38-expressing (CD38(+)) cells have the lowe...

journal_title：Journal of proteome research

authors： Hu Y,Wang H,Wang Q,Deng H

更新日期：2014-02-07 00:00:00

abstract：:Ozonated autohemotherapy (O3-AHT) is a medical approach during which blood obtained from the patient is ozonated and injected back into the body. Despite an increasing number of evidence that O3-AHT is safe, this type of therapy remains controversial. To extend knowledge about the changes in blood evoked by O3-AHT, LC...

journal_title：Journal of proteome research

authors： Ciborowski M,Lipska A,Godzien J,Ferrarini A,Korsak J,Radziwon P,Tomasiak M,Barbas C

更新日期：2012-12-07 00:00:00

abstract：:The localization of proteins at a tissue- or cell-type-specific level is tightly linked to the protein function. To better understand each protein's role in cellular systems, spatial information constitutes an important complement to quantitative data. The standard methods for determining the spatial distribution of p...

journal_title：Journal of proteome research

authors： Sivertsson Å,Lindström E,Oksvold P,Katona B,Hikmet F,Vuu J,Gustavsson J,Sjöstedt E,von Feilitzen K,Kampf C,Schwenk JM,Uhlén M,Lindskog C

更新日期：2020-12-04 00:00:00

abstract：:Schistosomes are blood-dwelling helminth parasites that cause schistosomiasis, a debilitating disease resulting in inflammation and, in extreme cases, multiple organ damage. Major challenges to control the transmission persist, and the discovery of protective antigens remains of critical importance for vaccine develop...

journal_title：Journal of proteome research

authors： Neves LX,Wilson RA,Brownridge P,Harman VM,Holman SW,Beynon RJ,Eyers CE,DeMarco R,Castro-Borges W

更新日期：2020-01-03 00:00:00

abstract：:An efficient means for the identification of prognostic and predictive biomarkers is essential in today's cancer management. A new approach toward biomarker discovery has therefore been proposed, where pathways instead of individual proteins would be monitored and targeted. Recently, the 'secretome', a biological flui...

journal_title：Journal of proteome research

authors： Lawlor K,Nazarian A,Lacomis L,Tempst P,Villanueva J

更新日期：2009-03-01 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：:Quantifying peptides based on unique peptide fragment ions avoids the issue of ratio distortion that is commonly observed for reporter ion-based quantification approaches. Herein, we present a collision-induced dissociation-cleavable, isobaric acetyl-isoleucine-proline-glycine (Ac-IPG) tag, which conserves the merits ...

journal_title：Journal of proteome research

authors： Tian X,de Vries MP,Permentier HP,Bischoff R

更新日期：2020-09-04 00:00:00

abstract：:Protein or peptide sample losses could accompany all steps of the proteomic analysis workflow. We focused on suppression of sample adsorptive losses during sample storage in autosampler vials. We examined suppression capabilities of six different sample injection solutions and seven types of autosampler vial surfaces ...

journal_title：Journal of proteome research

authors： Stejskal K,Potěšil D,Zdráhal Z

更新日期：2013-06-07 00:00:00

abstract：:We report the proteomic characterization and biological activities of the venom of the black-speckled palm pitviper, Bothriechis nigroviridis, a neotropical arboreal pitviper from Costa Rica. In marked contrast to other Bothriechis species investigated, the venom of B. nigroviridis does not possess detectable Zn(2+)-d...

journal_title：Journal of proteome research

authors： Fernández J,Lomonte B,Sanz L,Angulo Y,Gutiérrez JM,Calvete JJ

更新日期：2010-08-06 00:00:00

abstract：:Advances in proteomics are continually driven by the introduction of new mass spectrometric instrumentation with improved performances. The recently introduced quadrupole Orbitrap (Q Exactive) tandem mass spectrometer allows fast acquisition of high-resolution higher-energy collisional dissociation (HCD) tandem mass s...

journal_title：Journal of proteome research

authors： Kelstrup CD,Young C,Lavallee R,Nielsen ML,Olsen JV

更新日期：2012-06-01 00:00:00

abstract：:In an attempt to identify prostate cancer biomarkers with greater diagnostic and prognostic capabilities, we have developed an integrative proteomic discovery workflow focused on N-linked glycoproteins that refines the target selection process. In this work, hydrazide-based chemistry was used to identify N-linked glyc...

journal_title：Journal of proteome research

authors： Whitmore TE,Peterson A,Holzman T,Eastham A,Amon L,McIntosh M,Ozinsky A,Nelson PS,Martin DB

更新日期：2012-05-04 00:00:00

abstract：:Traditional measures of short-term stress response such as fecal glucocorticoid metabolites (FGM) are widely used in controlled settings to quantify the intensity of stimulation to which cattle are exposed. However, FGMs present several methodological and interpretation pitfalls when applied on animals in free-ranging...

journal_title：Journal of proteome research

authors： Valerio A,Casadei L,Giuliani A,Valerio M

更新日期：2020-02-07 00:00:00

abstract：:Hepatocellular carcinoma is one of the most fatal cancers worldwide. In this study, a reversed-phase-strong cation exchange-reversed-phase three-dimensional liquid chromatography strategy was established and coupled with mass spectrometry to investigate the differential proteome expression of HCC and normal liver tiss...

journal_title：Journal of proteome research

authors： Xu B,Wang F,Song C,Sun Z,Cheng K,Tan Y,Wang H,Zou H

更新日期：2014-08-01 00:00:00

abstract：:A "one-pot" alternative method for processing proteins and isolating peptide mixtures from bacterial samples is presented for liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis and data reduction. The conventional in-solution digestion of the protein contents of bacteria is compared to a small disposab...

journal_title：Journal of proteome research

authors： Jabbour RE,Deshpande SV,Stanford MF,Wick CH,Zulich AW,Snyder AP

更新日期：2011-02-04 00:00:00

abstract：:Although the legume-rhizobium symbiosis is a most-important biological process, there is a limited knowledge about the protein interaction network between host and symbiont. Using interolog- and domain-based approaches, we constructed an interspecies protein interactome containing 5115 protein-protein interactions bet...

journal_title：Journal of proteome research

authors： Zhang L,Liu JY,Gu H,Du Y,Zuo JF,Zhang Z,Zhang M,Li P,Dunwell JM,Cao Y,Zhang Z,Zhang YM

更新日期：2018-09-07 00:00:00

abstract：:An important mechanism by which plants defend themselves against pathogens is the rapid execution of a hypersensitive response (HR). Tomato plants containing the Cf-4 resistance gene mount an HR that relies on the activation of phosphorylation cascades, when challenged with the Avr4 elicitor secreted by the pathogenic...

journal_title：Journal of proteome research

authors： Stulemeijer IJ,Joosten MH,Jensen ON

更新日期：2009-03-01 00:00:00

abstract：:One of the critical challenges in predicting protein subcellular localization is how to deal with the case of multiple location sites. Unfortunately, so far, no efforts have been made in this regard except for the one focused on the proteins in budding yeast only. For most existing predictors, the multiple-site protei...

journal_title：Journal of proteome research

authors： Chou KC,Shen HB

更新日期：2007-05-01 00:00:00

abstract：:A method for the rapid correlation of tandem mass spectra to a list of protein sequences in a database has been developed. The combination of the fast and accurate computational search algorithm, X!Tandem, and a Linux cluster parallel computing environment with PVM or MPI, significantly reduces the time required to pe...

journal_title：Journal of proteome research

authors： Duncan DT,Craig R,Link AJ

更新日期：2005-09-01 00:00:00

abstract：:The Human Proteome Project (HPP) has made great efforts to clarify the existing evidence of human proteins since 2012. However, according to the recent release of neXtProt (2019-1), approximately 10% of all human genes still have inadequate or no experimental evidence of their translation at the protein level. They we...

journal_title：Journal of proteome research

authors： Elguoshy A,Hirao Y,Yamamoto K,Xu B,Kinoshita N,Mitsui T,Yamamoto T

更新日期：2019-12-06 00:00:00

abstract：:Human milk oligosaccharides (HMOs) perform a number of functions including serving as prebiotics to stimulate the growth of beneficial intestinal bacteria, as receptor analogues to inhibit binding of pathogens, and as substances that promote postnatal brain development. There is further evidence that HMOs participate ...

journal_title：Journal of proteome research

authors： Wu S,Tao N,German JB,Grimm R,Lebrilla CB

更新日期：2010-08-06 00:00:00

abstract：:The Model Organism Protein Expression Database (MOPED, http://moped.proteinspire.org) is an expanding proteomics resource to enable biological and biomedical discoveries. MOPED aggregates simple, standardized and consistently processed summaries of protein expression and metadata from proteomics (mass spectrometry) ex...

journal_title：Journal of proteome research

authors： Higdon R,Stewart E,Stanberry L,Haynes W,Choiniere J,Montague E,Anderson N,Yandl G,Janko I,Broomall W,Fishilevich S,Lancet D,Kolker N,Kolker E

更新日期：2014-01-03 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：:Microorganisms release effector molecules that modulate the host machinery enabling survival, replication, and dissemination of a pathogen. Here we characterized the extracellular proteome of Paracoccidioides brasiliensis at its pathogenic yeast phase. Cell-free culture supernatants from the Pb18 isolate, cultivated i...

journal_title：Journal of proteome research

authors： Vallejo MC,Nakayasu ES,Matsuo AL,Sobreira TJ,Longo LV,Ganiko L,Almeida IC,Puccia R

更新日期：2012-03-02 00:00:00

abstract：:Protein chemical cross-linking combined with mass spectrometry has become an important technique for the analysis of protein structure and protein-protein interactions. A variety of cross-linkers are well developed, but reliable, rapid, and user-friendly tools for large-scale analysis of cross-linked proteins are stil...

journal_title：Journal of proteome research

authors： Lu L,Millikin RJ,Solntsev SK,Rolfs Z,Scalf M,Shortreed MR,Smith LM

更新日期：2018-07-06 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：:Protein biomarker discovery in the low concentration range of human body fluids requires the enrichment of the proteins of interest. Here we report on a tandem affinity strategy: In the first step, we isolated a human plasma glyco-subproteome of healthy individuals by wheat germ agglutinin (WGA) lectin affinity chroma...

journal_title：Journal of proteome research

authors： Mortezai N,Harder S,Schnabel C,Moors E,Gauly M,Schlüter H,Wagener C,Buck F

更新日期：2010-12-03 00:00:00

abstract：:Hepatitis C virus (HCV) causes chronic liver disease worldwide. HCV Core protein (Core) forms the viral capsid and is crucial for HCV pathogenesis and HCV-induced hepatocellular carcinoma, through its interaction with the host factor proteasome activator PA28γ. Here, using BD-PowerBlot high-throughput Western array, w...

journal_title：Journal of proteome research

authors： Tripathi LP,Kambara H,Moriishi K,Morita E,Abe T,Mori Y,Chen YA,Matsuura Y,Mizuguchi K

更新日期：2012-07-06 00:00:00

abstract：:After tissue or body fluid sampling, proteases and other protein-modifying enzymes can rapidly change composition of the proteome. As a direct consequence, analytical results will reflect a mix of in vivo proteome and ex vivo degradation products. Vital information about the presampling state may be destroyed or disto...

journal_title：Journal of proteome research

authors： Svensson M,Boren M,Sköld K,Fälth M,Sjögren B,Andersson M,Svenningsson P,Andren PE

更新日期：2009-02-01 00:00:00

abstract：:The ability to distinguish between phosphopeptides of high and low stoichiometry is essential to discover the true extent of protein phosphorylation. We here extend the strategy whereby a peptide sample is briefly split in two identical parts and differentially labeled preceding the phosphatase treatment of one part. ...

journal_title：Journal of proteome research

authors： Glibert P,Meert P,Van Steendam K,Van Nieuwerburgh F,De Coninck D,Martens L,Dhaenens M,Deforce D

更新日期：2015-02-06 00:00:00

abstract：:During asexual intraerythrocytic development, Plasmodium falciparum diverges from the paradigm of the eukaryotic cell cycles by undergoing multiple rounds of DNA replication and nuclear division without cytokinesis. A better understanding of the molecular switches that coordinate a myriad of events for the progression...

journal_title：Journal of proteome research

authors： Pease BN,Huttlin EL,Jedrychowski MP,Talevich E,Harmon J,Dillman T,Kannan N,Doerig C,Chakrabarti R,Gygi SP,Chakrabarti D

更新日期：2013-09-06 00:00:00