Use of lysozyme as a standard for evaluating the effectiveness of a proteomics process.

abstract：:Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder caused by a mutation in the Huntingtin gene, where excessive (≥ 36) CAG repeats encode for glutamine expansion in the huntingtin protein. Research using mouse models and human pathological material has indicated dysfunctions in a myriad of s...

journal_title：Journal of proteome research

authors： McQuade LR,Balachandran A,Scott HA,Khaira S,Baker MS,Schmidt U

更新日期：2014-12-05 00:00:00

abstract：:In-depth, reproducible coverage of complex proteomes is challenging because the complexity of tryptic digests subjected to LC-MS/MS analysis frequently exceeds mass spectrometer analytical capacity, which results in undersampling of data. In this study, we used cancer cell lysates to systematically compare the commonl...

journal_title：Journal of proteome research

authors： Wang H,Chang-Wong T,Tang HY,Speicher DW

更新日期：2010-02-05 00:00:00

abstract：:Patients with triple-negative breast cancer (TNBC) are unresponsive to endocrine and anti-HER2 pharmacotherapy, limiting their therapeutic options to chemotherapy. TNBC is frequently associated with abnormalities in the PI3K/AKT/mTOR signaling pathway; drugs targeting this pathway are currently being evaluated in thes...

journal_title：Journal of proteome research

authors： Euceda LR,Hill DK,Stokke E,Hatem R,El Botty R,Bièche I,Marangoni E,Bathen TF,Moestue SA

更新日期：2017-05-05 00:00:00

abstract：:Tryptic digestion of biotinylated Lys-C peptides followed by affinity chromatography allows the selective isolation of lysine-free tryptic peptides delimited by arginine residues (RRnK peptides). In silico analysis revealed that RRnK peptides represent 87% of the whole proteomes and their specific isolation simplifies...

journal_title：Journal of proteome research

authors： Sánchez A,González LJ,Ramos Y,Betancourt L,Gil J,Besada V,Fernández-de-Cossio J,Alvarez F,Padrón G

更新日期：2006-05-01 00:00:00

abstract：:The phagosome is very important to host immunity and tissue homeostasis maintenance. The destiny of the phagosome is closely associated with the outcome of the pathogen within. Most pathogens are successfully delivered to the lysosome and destroyed via the fusion of the phagosome with the lysosome. Mycobacterium tube...

journal_title：Journal of proteome research

authors： He Y,Li W,Liao G,Xie J

更新日期：2012-05-04 00:00:00

abstract：:Knowledge of the protein networks interacting with the amyloid precursor protein (APP) in vivo can shed light on the physiological function of APP. To date, most proteins interacting with the APP intracellular domain (AICD) have been identified by Yeast Two Hybrid screens which only detect direct interaction partners....

journal_title：Journal of proteome research

authors： Kohli BM,Pflieger D,Mueller LN,Carbonetti G,Aebersold R,Nitsch RM,Konietzko U

更新日期：2012-08-03 00:00:00

abstract：:Protein arrays will greatly accelerate research and development in medical and biological sciences. We have used cell-free protein biosynthesis and a parallel immobilization strategy for producing protein biochips. We demonstrate a model two-protein microarray using luciferase and green fluorescent protein, both expre...

journal_title：Journal of proteome research

authors： Oleinikov AV,Gray MD,Zhao J,Montgomery DD,Ghindilis AL,Dill K

更新日期：2003-05-01 00:00:00

abstract：:Pancreatic cancer is a devastating disease and early diagnosis and treatment are essential to improve the prognosis. We previously showed that α-fibrinogen containing hydroxylated proline residues at positions 530 and 565 is increased in plasma of pancreatic cancer patients. However, no antibody specific for hydroxyla...

journal_title：Journal of proteome research

authors： Yoneyama T,Ohtsuki S,Ono M,Ohmine K,Uchida Y,Yamada T,Tachikawa M,Terasaki T

更新日期：2013-02-01 00:00:00

abstract：:Type-I procollagen aminoterminal propeptide (PINP) is a useful biomarker for bone formation activity that is used to monitor treatment of bone disorders including osteoporosis. Studies with human patients under long-term therapy for osteoporosis by daily injection of parathyroid hormone (PTH) demonstrated that the cir...

journal_title：Journal of proteome research

authors： Han B,Copeland M,Geiser AG,Hale LV,Harvey A,Ma YL,Powers CS,Sato M,You J,Hale JE

更新日期：2007-11-01 00:00:00

abstract：:Akt1 is a serine/threonine kinase that promotes cell growth and survival. Previously, Akt1 activation in a double transgenic (DTG) mouse model fed a high-fat/high-sucrose (HF/HS) diet was found to promote type IIb muscle growth and to lead to a significant reduction in obesity. Here, we have used metabolomics to exami...

journal_title：Journal of proteome research

authors： Cheng KK,Akasaki Y,Lecommandeur E,Lindsay RT,Murfitt S,Walsh K,Griffin JL

更新日期：2015-01-02 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：:Proteoforms containing post-translational modifications (PTMs) represent a degree of functional diversity only harnessed through analytically precise simultaneous quantification of multiple PTMs. Here we present a method to accurately differentiate an unmodified peptide from its PTM-containing counterpart through data...

journal_title：Journal of proteome research

authors： Robinson AE,Binek A,Venkatraman V,Searle BC,Holewinski RJ,Rosenberger G,Parker SJ,Basisty N,Xie X,Lund PJ,Saxena G,Mato JM,Garcia BA,Schilling B,Lu SC,Van Eyk JE

更新日期：2020-10-02 00:00:00

abstract：:Isobaric tagging is the method of choice in mass-spectrometry-based proteomics for comparing several conditions at a time. Despite its multiplexing capabilities, some drawbacks appear when multiple experiments are merged for comparison in large sample-size studies due to the presence of missing values, which result fr...

journal_title：Journal of proteome research

authors： Corthésy J,Theofilatos K,Mavroudi S,Macron C,Cominetti O,Remlawi M,Ferraro F,Núñez Galindo A,Kussmann M,Likothanassis S,Dayon L

更新日期：2018-06-01 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：:The gut microbiota plays a critical role in the pathogenesis of nonalcoholic fatty liver disease (NAFLD). Increased fructose consumption and inadequate copper intake are two critical risk factors in the development of NAFLD. To gain insight into the role of gut microbiota, fecal metabolites, obtained from rats exposed...

journal_title：Journal of proteome research

authors： Wei X,Song M,Yin X,Schuschke DA,Koo I,McClain CJ,Zhang X

更新日期：2015-09-04 00:00:00

abstract：:Fusarium graminearum (FG) is a serious plant pathogen causing huge losses in global production of wheat and other cereals. Tri5-gene encoded trichodiene synthase is the first key enzyme for biosynthesis of trichothecene mycotoxins in FG. To further our understandings of FG metabolism which is essential for developing ...

journal_title：Journal of proteome research

authors： Chen F,Zhang J,Song X,Yang J,Li H,Tang H,Liao YC

更新日期：2011-05-06 00:00:00

abstract：:Defects in the gene encoding the persulfide dioxygenase ETHE1 are known to cause the severe inherited metabolic disorder ethylmalonic encephalopathy (EE). In spite of known clinical characteristics, the molecular mechanisms underlying the ETHE1 deficiency are still obscure. Herein, to further analyze the molecular phe...

journal_title：Journal of proteome research

authors： Sahebekhtiari N,Nielsen CB,Johannsen M,Palmfeldt J

更新日期：2016-05-06 00:00:00

abstract：:Reference materials are vital to benchmarking the reproducibility of clinical tests and essential for monitoring laboratory performance for clinical proteomics. The reference material utilized for mass spectrometric analysis of the human proteome would ideally contain enough proteins to be suitably representative of t...

journal_title：Journal of proteome research

authors： Clark DJ,Hu Y,Bocik W,Chen L,Schnaubelt M,Roberts R,Shah P,Whiteley G,Zhang H

更新日期：2018-06-01 00:00:00

abstract：:Streptococcus agalactiae causes severe systemic infections in human and fish. In the present study, we established a pathogen-plasma interaction model by which we explored how S. agalactiae evaded serum-mediated killing. We found that S. agalactiae grew faster in the presence of yellow grouper plasma than in the absen...

journal_title：Journal of proteome research

authors： Wang Z,Li MY,Peng B,Cheng ZX,Li H,Peng XX

更新日期：2016-07-01 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：:The mechanisms whereby Mycobacterium tuberculosis (Mtb) rewires the host metabolism in vivo are surprisingly unexplored. Here, we used three high-resolution mass spectrometry platforms to track altered lung metabolic changes associated with Mtb infection of mice. The multiplatform data sets were merged using consensus...

journal_title：Journal of proteome research

authors： Fernández-García M,Rey-Stolle F,Boccard J,Reddy VP,García A,Cumming BM,Steyn AJC,Rudaz S,Barbas C

更新日期：2020-05-01 00:00:00

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：:Flooding has severe negative effects on soybean growth. To explore the flooding-responsive mechanisms in early-stage soybean, a phosphoproteomic approach was used. Two-day-old soybean plants were treated without or with flooding for 3, 6, 12, and 24 h, and root tip proteins were then extracted and analyzed at each tim...

journal_title：Journal of proteome research

authors： Yin X,Sakata K,Komatsu S

更新日期：2014-12-05 00:00:00

abstract：:Endothelial cells (ECs) form the inner layer of blood vessels and physically separate the blood from the surrounding tissue. To support tissues with nutrients and oxygen, the endothelial monolayer is semipermeable. When EC permeability is altered, blood vessels are not functional, and this is associated with disease. ...

journal_title：Journal of proteome research

authors： Patella F,Neilson LJ,Athineos D,Erami Z,Anderson KI,Blyth K,Ryan KM,Zanivan S

更新日期：2016-07-01 00:00:00

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

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

abstract：:Analysis of the cerebrospinal fluid (CSF) proteome has proven valuable to the study of neurodegenerative disorders. To identify new protein/pathway alterations and candidate biomarkers for amyotrophic lateral sclerosis (ALS), we performed comparative proteomic profiling of CSF from sporadic ALS (sALS), healthy control...

journal_title：Journal of proteome research

authors： Collins MA,An J,Hood BL,Conrads TP,Bowser RP

更新日期：2015-11-06 00:00:00

abstract：:The SwePep database is designed for endogenous peptides and mass spectrometry. It contains information about the peptides such as mass, pl, precursor protein and potential post-translational modifications. Here, we have improved and extended the SwePep database with tandem mass spectra, by adding a locally curated ver...

journal_title：Journal of proteome research

authors： Fälth M,Svensson M,Nilsson A,Sköld K,Fenyö D,Andren PE

更新日期：2008-07-01 00:00:00

abstract：:The peptide toxins in the venoms of small invertebrates such as stinging ants have rarely been studied due to the limited amount of venom available per individual. We used a venomics strategy to identify the molecular diversity of the venom peptidome for the myrmicine ant Tetramorium bicarinatum. The methodology inclu...

journal_title：Journal of proteome research

authors： Touchard A,Téné N,Song PCT,Lefranc B,Leprince J,Treilhou M,Bonnafé E

更新日期：2018-10-05 00:00:00

abstract：:Mass spectrometry (MS) is a widely used proteome analysis tool for biomedical science. In an MS-based bottom-up proteomic approach to protein identification, sequence database (DB) searching has been routinely used because of its simplicity and convenience. However, searching a sequence DB with multiple variable modif...

journal_title：Journal of proteome research

authors： Cho JY,Lee HJ,Jeong SK,Paik YK

更新日期：2017-12-01 00:00:00

abstract：:Candida albicans (C. albicans) is a worldwide cause of fungal infectious diseases. As a general post-translational modification (PTM), lysine acetylation of proteins play an important regulatory role in almost every cell. In our research, we used a high-resolution proteomic technique (LC-MS/MS) to present the comprehe...

journal_title：Journal of proteome research

authors： Zhou X,Qian G,Yi X,Li X,Liu W

更新日期：2016-08-05 00:00:00