Lysine and Arginine Protein Post-translational Modifications by Enhanced DIA Libraries: Quantification in Murine Liver Disease.

abstract：:We have investigated the transcriptome and proteome of the venom of a cryptic Australian elapid snake Drysdalia coronoides. To probe into the transcriptome, we constructed a partial cDNA library from the venom gland of D. coronoides. The proteome of the venom of D. coronoides was explored by tryptic digestion of the c...

journal_title：Journal of proteome research

authors： Chatrath ST,Chapeaurouge A,Lin Q,Lim TK,Dunstan N,Mirtschin P,Kumar PP,Kini RM

更新日期：2011-02-04 00:00:00

abstract：:Temperature is one of the most critical parameters for yeast growth, and it has deep consequences in many industrial processes where yeast is involved. Nevertheless, the metabolic changes required to accommodate yeast cells at high or low temperatures are still poorly understood. In this work, the ultimate responses o...

journal_title：Journal of proteome research

authors： Puig-Castellví F,Bedia C,Alfonso I,Piña B,Tauler R

更新日期：2018-06-01 00:00:00

abstract：:The plasma of patients with stable carotid atherosclerosis (n = 9), and healthy subjects (n = 10) have been fingerprinted with both GC-MS and (1)H NMR. Principal component analysis (PCA), partial least-squares-discriminant analysis (PLS-DA) and orthogonal partial least-squares-discriminant analysis (OPLS-DA) have been...

journal_title：Journal of proteome research

authors： Teul J,Rupérez FJ,Garcia A,Vaysse J,Balayssac S,Gilard V,Malet-Martino M,Martin-Ventura JL,Blanco-Colio LM,Tuñón J,Egido J,Barbas C

更新日期：2009-12-01 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：:In this study, a tandem LC-MS (Waters Xevo TQ) MRM-based MS method was developed for rapid, broad profiling of hydrophilic metabolites from biological samples, in either positive or negative ion modes without the need for an ion pairing reagent, using a reversed-phase pentafluorophenylpropyl (PFPP) column. The develop...

journal_title：Journal of proteome research

authors： Lv H,Palacios G,Hartil K,Kurland IJ

更新日期：2011-04-01 00:00:00

abstract：:Knowledge of protein subcellular localization assists in the elucidation of protein function and understanding of different biological mechanisms that occur at discrete subcellular niches. Organelle-centric proteomics enables localization of thousands of proteins simultaneously. Although such techniques have successfu...

journal_title：Journal of proteome research

authors： Groen AJ,Sancho-Andrés G,Breckels LM,Gatto L,Aniento F,Lilley KS

更新日期：2014-02-07 00:00:00

abstract：:The purpose of this study was to determine the system-wide consequences of deficiencies in two essential micronutrients, vitamins E and C, on the proteome using zebrafish (Danio rerio) as one of the few vertebrate models that similar to humans cannot synthesize vitamin C. We describe a label-free proteomics workflow t...

journal_title：Journal of proteome research

authors： Motorykin I,Traber MG,Tanguay RL,Maier CS

更新日期：2014-03-07 00:00:00

abstract：:Clinical trials have been conducted for the neuronal ceroid lipofuscinoses (NCLs), a group of neurodegenerative lysosomal diseases that primarily affect children. Whereas clinical rating systems will evaluate long-term efficacy, biomarkers to measure short-term response to treatment would be extremely valuable. To ide...

journal_title：Journal of proteome research

authors： Sleat DE,Tannous A,Sohar I,Wiseman JA,Zheng H,Qian M,Zhao C,Xin W,Barone R,Sims KB,Moore DF,Lobel P

更新日期：2017-10-06 00:00:00

abstract：:Porcine reproductive and respiratory syndrome (PRRS) has devastated the pig industry worldwide for almost 25 years, and its virus (PRRSV) preferentially infects and replicates in pulmonary alveolar macrophages (PAMs). To discover cellular protein responses in PRRSV-infected PAMs, two-dimensional liquid chromatography-...

journal_title：Journal of proteome research

authors： Lu Q,Bai J,Zhang L,Liu J,Jiang Z,Michal JJ,He Q,Jiang P

更新日期：2012-05-04 00:00:00

abstract：:Protein post-translational modification by ubiquitin-fold modifier 1, UFM1, regulates many biological processes such as response to endoplasmic reticulum stress and regulation of tumor progression. A recent study has indicated that the UFM1-binding and PCI domain-containing protein 1 (UFBP1) is required for the conjug...

journal_title：Journal of proteome research

authors： Zhu Y,Lei Q,Li D,Zhang Y,Jiang X,Hu Z,Xu G

更新日期：2018-04-06 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：: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：:Energy imbalance is a primary cause of obesity. While the classical approach to attenuate weight gain includes an increase in energy expenditure through exercise, dietary manipulation such as the inclusion of dairy products has also been proven effective. In the present study, we explored the potential mechanisms by w...

journal_title：Journal of proteome research

authors： Mayengbam S,Mickiewicz B,Trottier SK,Mu C,Wright DC,Reimer RA,Vogel HJ,Shearer J

更新日期：2019-11-01 00:00:00

abstract：:Moving from macroscale preparative systems in proteomics to micro- and nanotechnologies offers researchers the ability to deeply profile smaller numbers of cells that are more likely to be encountered in clinical settings. Herein a recently developed microscale proteomic method, microdroplet processing in one pot for ...

journal_title：Journal of proteome research

authors： Weke K,Singh A,Uwugiaren N,Alfaro JA,Wang T,Hupp TR,O'Neill JR,Vojtesek B,Goodlett DR,Williams SM,Zhou M,Kelly RT,Zhu Y,Dapic I

更新日期：2021-01-25 00:00:00

abstract：:The Proteomics Standards Initiative (PSI) of the Human Proteome Organization (HUPO) has now been developing and promoting open community standards and software tools in the field of proteomics for 15 years. Under the guidance of the chair, cochairs, and other leadership positions, the PSI working groups are tasked wit...

journal_title：Journal of proteome research

authors： Deutsch EW,Orchard S,Binz PA,Bittremieux W,Eisenacher M,Hermjakob H,Kawano S,Lam H,Mayer G,Menschaert G,Perez-Riverol Y,Salek RM,Tabb DL,Tenzer S,Vizcaíno JA,Walzer M,Jones AR

更新日期：2017-12-01 00:00:00

abstract：:We report the comparative proteomic characterization of the venoms of adult and newborn specimens of the lancehead pitviper Bothrops asper from two geographically isolated populations from the Caribbean and the Pacific versants of Costa Rica. The crude venoms were fractionated by reverse-phase HPLC, followed by analys...

journal_title：Journal of proteome research

authors： Alape-Girón A,Sanz L,Escolano J,Flores-Díaz M,Madrigal M,Sasa M,Calvete JJ

更新日期：2008-08-01 00:00:00

abstract：:Activation of AMP-activated protein kinase (AMPK) upon energy depletion stimulates energy production and limits energy utilization. Erythrocytes lacking AMPK are susceptible to suicidal cell death (eryptosis). A hallmark of eryptosis is cell membrane scrambling with phosphatidylserine exposure at the erythrocyte surfa...

journal_title：Journal of proteome research

authors： Zelenak C,Föller M,Velic A,Krug K,Qadri SM,Viollet B,Lang F,Macek B

更新日期：2011-04-01 00:00:00

abstract：:Membrane proteins play a critical role in the process of neural stem cell self-renewal and differentiation. Here, we apply the SILAC (stable isotope labeling by amino acids in cell culture) approach to quantitatively compare the membrane proteome of the self-renewing and the astroglial differentiating cells. High-reso...

journal_title：Journal of proteome research

authors： Cao R,Chen K,Song Q,Zang Y,Li J,Wang X,Chen P,Liang S

更新日期：2012-02-03 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：:The use of matrix-assisted laser desorption ionization mass spectrometry (MALDI-MS) to acquire spectral profiles has become a common approach to detect proteomic biomarkers of disease. MALDI-MS signals may represent both intact proteins as well as proteolysis products. Liquid chromatography-tandem mass spectrometry (L...

journal_title：Journal of proteome research

authors： Zimmerman LJ,Wernke GR,Caprioli RM,Liebler DC

更新日期：2005-09-01 00:00:00

abstract：:To investigate the role of rpoS in gene expression of Escherichia coli cells grown as biofilms, we compared the proteomes of a rpoS mutant and the wild-type strain. Experiments were performed on planktonic cells (in exponential or stationary growth phase) and biofilms developed on glass wool. Spot-by-spot comparison o...

journal_title：Journal of proteome research

authors： Collet A,Cosette P,Beloin C,Ghigo JM,Rihouey C,Lerouge P,Junter GA,Jouenne T

更新日期：2008-11-01 00:00:00

abstract：:In this study we selected three breast cancer cell lines (SKBR3, SUM149 and SUM190) with different oncogene expression levels involved in ERBB2 and EGFR signaling pathways as a model system for the evaluation of selective integration of subsets of transcriptomic and proteomic data. We assessed the oncogene status with...

journal_title：Journal of proteome research

authors： Zhang EY,Cristofanilli M,Robertson F,Reuben JM,Mu Z,Beavis RC,Im H,Snyder M,Hofree M,Ideker T,Omenn GS,Fanayan S,Jeong SK,Paik YK,Zhang AF,Wu SL,Hancock WS

更新日期：2013-06-07 00:00:00

abstract：:Cyanobacteria developed efficient carbon concentrating mechanisms which significantly improve the photosynthetic performance and survival of cells under limiting CO(2) conditions. Dynamic changes of the Synechocystis proteome to CO(2) limitation were investigated using shotgun LC-MS/MS approach with isobaric tag for r...

journal_title：Journal of proteome research

authors： Battchikova N,Vainonen JP,Vorontsova N,Keranen M,Carmel D,Aro EM

更新日期：2010-11-05 00:00:00

abstract：:Clinical diagnostics and biomarker discovery are the major focuses of current clinical proteomics. In the present study, we applied microfluidic technology on a chip for proteome profiling of human urine from 31 normal healthy individuals (15 males and 16 females), 6 patients with diabetic nephropathy (DN), and 4 pati...

journal_title：Journal of proteome research

authors： Thongboonkerd V,Songtawee N,Sritippayawan S

更新日期：2007-05-01 00:00:00

abstract：:A proteoform family is a group of related molecular forms of a protein (proteoforms) derived from the same gene. We have previously described a strategy to identify proteoforms and elucidate proteoform families in complex mixtures of intact proteins. The strategy is based upon measurements of two properties for each p...

journal_title：Journal of proteome research

authors： Dai Y,Shortreed MR,Scalf M,Frey BL,Cesnik AJ,Solntsev S,Schaffer LV,Smith LM

更新日期：2017-11-03 00:00:00

abstract：:Advances in high-throughput proteomics have led to a rapid increase in the number, size, and complexity of the associated data sets. Managing and extracting reliable information from such large series of data sets require the use of dedicated software organized in a consistent pipeline to reduce, validate, exploit, an...

journal_title：Journal of proteome research

authors： Hesse AM,Dupierris V,Adam C,Court M,Barthe D,Emadali A,Masselon C,Ferro M,Bruley C

更新日期：2016-10-07 00:00:00

abstract：:Mequindox is used as a veterinary antibiotic drug. As part of systematic investigations into mequindox as a veterinary medicine and its subsequent applications in food safety, we conducted the investigation to assess the metabolic response of mice to mequindox using metabonomics, which combines NMR metabolic profiles ...

journal_title：Journal of proteome research

authors： Zhao XJ,Huang C,Lei H,Nie X,Tang H,Wang Y

更新日期：2011-11-04 00:00:00

abstract：:A rate-limiting and costly step in many proteomics analyses is the cloning of all of the ORFs for an organism into technique-specific vectors. Here, we describe the generation of a Campylobacter jejuni expression clone set using a high-throughput cloning approach based on recombination in E. coli. The approach uses na...

journal_title：Journal of proteome research

authors： Parrish JR,Limjindaporn T,Hines JA,Liu J,Liu G,Finley RL Jr

更新日期：2004-05-01 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：:Nutrient starvation is an important survival challenge for bacteria during industrial production of functional foods. As next-generation sequencing technology has greatly advanced, we performed proteomic and genomic analysis to investigate the response of Lactobacillus casei Zhang to a glucose-restricted environment. ...

journal_title：Journal of proteome research

authors： Yu J,Hui W,Cao C,Pan L,Zhang H,Zhang W

更新日期：2018-03-02 00:00:00