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


:Cripto is one of the key regulators of embryonic stem cells (ESCs) differentiation into cardiomyocites vs neuronal fate. Cripto(-/-) murine ESCs have been utilized to investigate the molecular mechanisms underlying early events of mammalian lineage differentiation. 2D/LC-MS/MS and a label-free LC-MS approaches were used to qualitatively and quantitatively profile the cripto(-/-) ESC proteome, providing an integral view of the alterations induced in stem cell functions by deleting the cripto gene.


J Proteome Res


Chambery A,Vissers JP,Langridge JI,Lonardo E,Minchiotti G,Ruvo M,Parente A




Has Abstract


2009-02-01 00:00:00














  • System-Wide Quantitative Proteomics of the Metabolic Syndrome in Mice: Genotypic and Dietary Effects.

    abstract::Advances in mass spectrometry have made the quantitative measurement of proteins across multiple samples a reality, allowing for the study of complex biological systems such as the metabolic syndrome. Although the deregulation of lipid metabolism and increased hepatic storage of triacylglycerides are known to play a p...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Terfve C,Sabidó E,Wu Y,Gonçalves E,Choi M,Vaga S,Vitek O,Saez-Rodriguez J,Aebersold R

    更新日期:2017-02-03 00:00:00

  • PTML Model for Proteome Mining of B-Cell Epitopes and Theoretical-Experimental Study of Bm86 Protein Sequences from Colima, Mexico.

    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

    pub_type: 杂志文章


    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

  • Interaction between inducible nitric oxide synthase and calmodulin in Ca2+-free and -bound forms.

    abstract::We have obtained the first direct electrochemistry of full-length inducible nitric oxide synthase (iNOS) by entrapping the enzyme in polyethylenimine (PEI) film. The interaction between iNOS and calmodulin (CaM) was then studied, which revealed an enhanced electron-transfer reactivity of the enzyme facilitated by CaM....

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Xiao H,Zhou H,Chen G,Liu S,Li G

    更新日期:2007-04-01 00:00:00

  • Proteomics reveals that redox regulation is disrupted in patients with ethylmalonic encephalopathy.

    abstract::Deficiency of the sulfide metabolizing protein ETHE1 is the cause of ethylmalonic encephalopathy (EE), an inherited and severe metabolic disorder. To study the molecular effects of EE, we performed a proteomics study on mitochondria from cultured patient fibroblast cells. Samples from six patients were analyzed and re...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Palmfeldt J,Vang S,Stenbroen V,Pavlou E,Baycheva M,Buchal G,Monavari AA,Augoustides-Savvopoulou P,Mandel H,Gregersen N

    更新日期:2011-05-06 00:00:00

  • Impact of the core components of the phosphoenolpyruvate-carbohydrate phosphotransferase system, HPr and EI, on differential protein expression in Ralstonia eutropha H16.

    abstract::In Ralstonia eutropha H16, seven genes encoding proteins being involved in the phosphoenolpyruvate-carbohydrate phosphotransferase system (PEP-PTS) were identified. In order to provide more insights into the poly(3-hydroxybutyrate) (PHB)-leaky phenotype of the HPr/EI deletion mutants H16ΔptsH, H16ΔptsI, and H16ΔptsHI ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Kaddor C,Voigt B,Hecker M,Steinbüchel A

    更新日期:2012-07-06 00:00:00

  • Circulating Microvesicles from Pancreatic Cancer Accelerate the Migration and Proliferation of PANC-1 Cells.

    abstract::Circulating microvesicles are able to mediate long-distance cell-cell communications. It is essential to understand how microvesicles from pancreatic cancer act on other cells in the body. In this work, serum-derived microvesicles were isolated from 10 patients with locally advanced pancreatic cancer and healthy contr...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: An M,Zhu J,Wu J,Cuneo KC,Lubman DM

    更新日期:2018-04-06 00:00:00

  • Protein profilings in mouse liver regeneration after partial hepatectomy using iTRAQ technology.

    abstract::Liver is unique in its capability to regenerate after an injury. Liver regeneration after a 2/3 partial hepatectomy served as a classical model and is adopted frequently to study the mechanism of liver regeneration. In the present study, semiquantitative analysis of protein expression in mouse liver regeneration follo...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Hsieh HC,Chen YT,Li JM,Chou TY,Chang MF,Huang SC,Tseng TL,Liu CC,Chen SF

    更新日期:2009-02-01 00:00:00

  • Comparative proteomic analysis of primary schwann cells and a spontaneously immortalized schwann cell line RSC 96: a comprehensive overview with a focus on cell adhesion and migration related proteins.

    abstract::Schwann cells (SCs) are the principal glial cells of the peripheral nervous system (PNS). As a result of tissue heterogeneity and difficulties in the isolation and culture of primary SCs, a considerable understanding of SC biology is obtained from SC lines. However, the differences between the primary SCs and SC lines...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ji Y,Shen M,Wang X,Zhang S,Yu S,Chen G,Gu X,Ding F

    更新日期:2012-06-01 00:00:00

  • Poly(glycidyl methacrylate/divinylbenzene)-IDA-FeIII in phosphoproteomics.

    abstract::The study of protein phosphorylation has grown exponentially in recent years, as it became evident that important cellular functions are regulated by phosphorylation and dephosphorylation of proteins on serine, threonine and tyrosine residues. The use of immobilized metal affinity chromatography (IMAC) to enrich phosp...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Aprilita NH,Huck CW,Bakry R,Feuerstein I,Stecher G,Morandell S,Huang HL,Stasyk T,Huber LA,Bonn GK

    更新日期:2005-11-01 00:00:00

  • A new workflow for proteomic analysis of urinary exosomes and assessment in cystinuria patients.

    abstract::Cystinuria is a purely renal, rare genetic disease caused by mutations in cystine transporter genes and characterized by defective cystine reabsorption leading to kidney stones. In 14% of cases, patients undergo nephrectomy, but given the difficulty to predict the evolution of the disease, the identification of marker...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Bourderioux M,Nguyen-Khoa T,Chhuon C,Jeanson L,Tondelier D,Walczak M,Ollero M,Bekri S,Knebelmann B,Escudier E,Escudier B,Edelman A,Guerrera IC

    更新日期:2015-01-02 00:00:00

  • Mitochondrial Function, Metabolic Regulation, and Human Disease Viewed through the Prism of Sirtuin 4 (SIRT4) Functions.

    abstract::As cellular metabolic hubs, mitochondria are the main energy producers for the cell. These organelles host essential energy producing biochemical processes, including the TCA cycle, fatty acid oxidation, and oxidative phosphorylation. An accumulating body of literature has demonstrated that a majority of mitochondrial...

    journal_title:Journal of proteome research

    pub_type: 杂志文章,评审


    authors: Betsinger CN,Cristea IM

    更新日期:2019-05-03 00:00:00

  • Urinary metabolite profiling combined with computational analysis predicts interstitial cystitis-associated candidate biomarkers.

    abstract::Interstitial cystitis/painful bladder syndrome (IC) is a chronic syndrome of unknown etiology that presents with bladder pain, urinary frequency, and urgency. The lack of specific biomarkers and a poor understanding of underlying molecular mechanisms present challenges for disease diagnosis and therapy. The goals of t...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Wen H,Lee T,You S,Park SH,Song H,Eilber KS,Anger JT,Freeman MR,Park S,Kim J

    更新日期:2015-01-02 00:00:00

  • NopM and NopD are rhizobial nodulation outer proteins: identification using LC-MALDI and LC-ESI with a monolithic capillary column.

    abstract::We have explored the potential of commercial polystyrene-divinylbenzene monolithic capillary nanoLC-MS/MS for identifying Sinorhizobium fredii HH103 nodulation outer proteins. Monolithic nanoLC with off-line MALDI-TOF/TOF and on-line ESI-q-oTOF is fast and robust, generating complementary data and offering high-confid...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Rodrigues JA,López-Baena FJ,Ollero FJ,Vinardell JM,Espuny Mdel R,Bellogín RA,Ruiz-Sainz JE,Thomas JR,Sumpton D,Ault J,Thomas-Oates J

    更新日期:2007-03-01 00:00:00

  • Comparison of GC-MS and NMR for metabolite profiling of rice subjected to submergence stress.

    abstract::Natural disasters such as drought, extreme temperatures, and flooding can severely impact crop production. Understanding the metabolic response of crops threatened with these disasters provides insights into biological response mechanisms that can influence survival. In this study, a comparative analysis of GC-MS and ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Barding GA Jr,Béni S,Fukao T,Bailey-Serres J,Larive CK

    更新日期:2013-02-01 00:00:00

  • Distinct Gut Microbiota and Serum Metabolites in Response to Weight Loss Induced by Either Dairy or Exercise in a Rodent Model of Obesity.

    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

    pub_type: 杂志文章


    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

  • Worker honeybee sterility: a proteomic analysis of suppressed ovary activation.

    abstract::Eusocial behavior is extensively studied in the honeybee, Apis mellifera, as it displays an extreme form of altruism. Honeybee workers are generally obligatory sterile in a bee colony headed by a queen, but the inhibition of ovary activation is lifted upon the absence of queen and larvae. Worker bees are then able to ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Cardoen D,Ernst UR,Boerjan B,Bogaerts A,Formesyn E,de Graaf DC,Wenseleers T,Schoofs L,Verleyen P

    更新日期:2012-05-04 00:00:00

  • Membrane proteomic analysis of Arabidopsis thaliana using alternative solubilization techniques.

    abstract::This study presents a comparative proteomic analysis of the membrane subproteome of whole Arabidopsis seedlings using 2% Brij-58 or 60% methanol to enrich and solubilize membrane proteins for strong cation exchange fractionation and reversed-phase liquid chromatography-tandem mass spectrometry (LC-MS/MS). A total of 4...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Mitra SK,Gantt JA,Ruby JF,Clouse SD,Goshe MB

    更新日期:2007-05-01 00:00:00

  • Comprehensive analysis of conditioned media from ovarian cancer cell lines identifies novel candidate markers of epithelial ovarian cancer.

    abstract::Ovarian cancer remains a deadly threat to women as the disease is often diagnosed in the late stages when the chance of survival is low. There are no good biomarkers available for early detection and only a few markers have shown clinical utility for prognosis, response to therapy and disease recurrence. We mined cond...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Gunawardana CG,Kuk C,Smith CR,Batruch I,Soosaipillai A,Diamandis EP

    更新日期:2009-10-01 00:00:00

  • Ultra-high performance liquid chromatography-mass spectrometry for the fast profiling of histone post-translational modifications.

    abstract::Histones are subjected to extensive post-translational modifications (PTMs) that are known to play key roles in many biological processes. In this study, we report a fast, efficient, highly reproducible, and easily automated method involving ultra-high performance liquid chromatography (UHPLC) coupled to a high resolu...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Contrepois K,Ezan E,Mann C,Fenaille F

    更新日期:2010-10-01 00:00:00

  • Global Metabonomic and Proteomic Analysis of Human Conjunctival Epithelial Cells (IOBA-NHC) in Response to Hyperosmotic Stress.

    abstract::"Dry eye" is a multifactorial inflammatory disease affecting the ocular surface. Tear hyperosmolarity in dry eye contributes to inflammation and cell damage. Recent research efforts on dry eye have been directed toward biomarker discovery for diagnosis, response to treatment, and disease mechanisms. This study employe...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Chen L,Li J,Guo T,Ghosh S,Koh SK,Tian D,Zhang L,Jia D,Beuerman RW,Aebersold R,Chan EC,Zhou L

    更新日期:2015-09-04 00:00:00

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

    abstract::Several high-throughput statistical methods were evaluated for processing data generated by two-dimensional polyacrylamide gel electrophoresis, including how to handle missing data, normalization, and statistical analysis of data obtained from 2-D gels. Quantile normalization combined with a nonparametric permutation ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Chang J,Van Remmen H,Ward WF,Regnier FE,Richardson A,Cornell J

    更新日期:2004-11-01 00:00:00

  • Empirical Bayesian random censoring threshold model improves detection of differentially abundant proteins.

    abstract::A challenge in proteomics is that many observations are missing with the probability of missingness increasing as abundance decreases. Adjusting for this informative missingness is required to assess accurately which proteins are differentially abundant. We propose an empirical Bayesian random censoring threshold (EBR...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Koopmans F,Cornelisse LN,Heskes T,Dijkstra TM

    更新日期:2014-09-05 00:00:00

  • Proteomic signatures uncover hydrogen peroxide and nitric oxide cross-talk signaling network in citrus plants.

    abstract::Hydrogen peroxide (H(2)O(2)) and nitric oxide ((•)NO) elicit numerous processes in plants. However, our knowledge of H(2)O(2) and (•)NO-responsive proteins is limited. The present study aimed to identify proteins whose accumulation levels were regulated by these signaling molecules in citrus leaves. To address this qu...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Tanou G,Job C,Belghazi M,Molassiotis A,Diamantidis G,Job D

    更新日期:2010-11-05 00:00:00

  • Dynamic omics approach identifies nutrition-mediated microbial interactions.

    abstract::"Omics" studies reported to date have dealt with either thoroughly characterized single species or poorly explored meta-microbial communities. However, these techniques are capable of producing highly informative data for the analysis of interactions between two organisms. We examined the bacterial interaction between...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Nakanishi Y,Fukuda S,Chikayama E,Kimura Y,Ohno H,Kikuchi J

    更新日期:2011-02-04 00:00:00

  • MicroPOTS Analysis of Barrett's Esophageal Cell Line Models Identifies Proteomic Changes after Physiologic and Radiation Stress.

    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

    pub_type: 杂志文章


    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

  • Sonoreactor-based technology for fast high-throughput proteolytic digestion of proteins.

    abstract::Fast (120 s) and high-throughput (more than six samples at once) in-gel trypsin digestion of proteins using sonoreactor technology has been achieved. Successful protein identification was done by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry, MALDI-TOF-MS. Specific identification of the ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Rial-Otero R,Carreira RJ,Cordeiro FM,Moro AJ,Fernandes L,Moura I,Capelo JL

    更新日期:2007-02-01 00:00:00

  • Proteomic identification of unique photoreceptor disc components reveals the presence of PRCD, a protein linked to retinal degeneration.

    abstract::Visual signal transduction takes place on the surface of flat membrane vesicles called photoreceptor discs, which reside inside the light-sensitive outer segment organelle of vertebrate photoreceptor cells. Although biochemical studies have indicated that discs are built with a handful of highly specialized proteins, ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Skiba NP,Spencer WJ,Salinas RY,Lieu EC,Thompson JW,Arshavsky VY

    更新日期:2013-06-07 00:00:00

  • Allostasis and Resilience of the Human Individual Metabolic Phenotype.

    abstract::The urine metabotype of 12 individuals was followed over a period of 8-10 years, which provided the longest longitudinal study of metabolic phenotypes to date. More than 2000 NMR metabolic profiles were analyzed. The majority of subjects have a stable metabotype. Subjects who were exposed to important pathophysiologic...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ghini V,Saccenti E,Tenori L,Assfalg M,Luchinat C

    更新日期:2015-07-02 00:00:00

  • Comparison of ERLIC-TiO2, HILIC-TiO2, and SCX-TiO2 for global phosphoproteomics approaches.

    abstract::Reversible phosphorylations play a critical role in most biological pathways. Hence, in signaling studies great effort has been put into identification of a maximum number of phosphosites per experiment. Mass spectrometry (MS)-based phosphoproteomics approaches have been proven to be an ideal analytical method for map...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Zarei M,Sprenger A,Metzger F,Gretzmeier C,Dengjel J

    更新日期:2011-08-05 00:00:00

  • iTRAQ protein profile differential analysis between somatic globular and cotyledonary embryos reveals stress, hormone, and respiration involved in increasing plantlet regeneration of Gossypium hirsutum L.

    abstract::Somatic embryo development (SED) in upland cotton shows low frequencies of embryo maturation and plantlet regeneration. Progress in increasing the regeneration rate has been limited. Here a global analysis of proteome dynamics between globular and cotyledonary embryos was performed using isobaric tags for relative and...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ge X,Zhang C,Wang Q,Yang Z,Wang Y,Zhang X,Wu Z,Hou Y,Wu J,Li F

    更新日期:2015-01-02 00:00:00