Abstract:
:PROTICdb is a web-based application, mainly designed to store and analyze plant proteome data obtained by two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) and mass spectrometry (MS). The purposes of PROTICdb are (i) to store, track, and query information related to proteomic experiments, i.e., from tissue sampling to protein identification and quantitative measurements, and (ii) to integrate information from the user's own expertise and other sources into a knowledge base, used to support data interpretation (e.g., for the determination of allelic variants or products of post-translational modifications). Data insertion into the relational database of PROTICdb is achieved either by uploading outputs of image analysis and MS identification software, or by filling web forms. 2-D PAGE annotated maps can be displayed, queried, and compared through a graphical interface. Links to external databases are also available. Quantitative data can be easily exported in a tabulated format for statistical analyses. PROTICdb is based on the Oracle or the PostgreSQL Database Management System and is freely available upon request at the following URL: http://moulon.inra.fr/ bioinfo/PROTICdb.
journal_name
Proteomicsjournal_title
Proteomicsauthors
Ferry-Dumazet H,Houel G,Montalent P,Moreau L,Langella O,Negroni L,Vincent D,Lalanne C,de Daruvar A,Plomion C,Zivy M,Joets Jdoi
10.1002/pmic.200401111subject
Has Abstractpub_date
2005-05-01 00:00:00pages
2069-81issue
8eissn
1615-9853issn
1615-9861journal_volume
5pub_type
杂志文章相关文献
PROTEOMICS文献大全abstract::Intrinsic or acquired resistance to vincristine (VCR), an antimicrotubule agent used in the treatment of childhood acute lymphoblastic leukemia (ALL), is a major clinical problem. Using a clinically relevant NOD/SCID mouse xenograft model of ALL, we established that alterations in the actin and tubulin cytoskeleton ar...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500417
更新日期:2006-03-01 00:00:00
abstract::Calcineurin is a heterodimeric serine/threonine protein phosphatase, important for many cellular processes such as T-cell regulation, cardiac hypertrophy and kidney development. We previously reported the characterization of Caenorhabditis elegans calcineurin mutants as providing a simple but excellent genetic model s...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500315
更新日期:2006-02-01 00:00:00
abstract::A monolithic enzymatic microreactor was prepared in a fused-silica capillary by in situ polymerization of acrylamide, glycidyl methacrylate (GMA) and ethylene dimethacrylate (EDMA) in the presence of a binary porogenic mixture of dodecanol and cyclohexanol, followed by ammonia solution treatment, glutaraldehyde activa...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500234
更新日期:2006-01-01 00:00:00
abstract::Gliadins and glutenins are the main protein fractions present in wheat gluten. They are responsible for technological and nutritional quality of wheat based products. In particular, glutenins are mainly responsible for dough visco-elastic properties, whereas gliadins confer extensibility to dough and are the most impo...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500236
更新日期:2006-03-01 00:00:00
abstract::Quantitative acetyl-proteomics, a newly identified post-translational modification, is known to regulate transcriptional activity in different organisms. Neurospora crassa is a model ascomycete fungus maintained for biochemistry and molecular biology research; however, extensive studies of the functions of its acylati...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.202000212
更新日期:2021-01-24 00:00:00
abstract::The presence of high-abundance proteins in complex protein mixtures often masks low-abundance proteins and causes loss of resolution of 2DE. Protein fractionation steps conducted prior to 2DE can enhance the detection of low-abundance proteins and improve the resolution of 2DE. Here, we report a method to prefractiona...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201100475
更新日期:2012-04-01 00:00:00
abstract::The nucleus is the organelle where basically all DNA-related processes take place in eukaryotes, such as replication, transcription, and splicing as well as epigenetic regulation. The identification and description of the nuclear proteins is one of the requisites toward a comprehensive understanding of the biological ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400072
更新日期:2014-10-01 00:00:00
abstract::Blood plasma and serum are very useful samples for the detection, identification and quantitation of proteins associated with both health and disease. However, analysis of plasma and serum is a challenge because traces of interesting polypeptides and proteins can be dominated by the very high concentration of albumin ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200401065
更新日期:2005-03-01 00:00:00
abstract::The endothelium is a single layer of cells lining the inside face of all blood vessels. It constitutes a major metabolic organ which is critically involved in the generation and the regulation of multiple physiological and pathological processes such as coagulation, hemostasis, inflammation, atherosclerosis, angiogene...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200300409
更新日期:2003-05-01 00:00:00
abstract::Many types of cells transit in vitro from a two- to a three-dimensional growth, when they are exposed to microgravity. The underlying mechanisms are not yet understood. Hence, we investigated the impact of microgravity on protein content and growth behavior. For this purpose, the human thyroid cancer cells FTC-133 wer...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500067
更新日期:2015-09-01 00:00:00
abstract::In an accompanying study (in this issue, DOI 10.1002/pmic.200402044), we have characterised the proteome of Sca-1(+) progenitor cells, which may function as precursors of vascular smooth muscle cells (SMCs). In the present study, we have analysed and mapped protein expression in aortic SMCs of mice, using 2-DE, MALDI-...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200402045
更新日期:2005-11-01 00:00:00
abstract::The 26S proteasome is a multicatalytic protease complex that degrades ubiquitinated proteins in eukaryotic cells. It consists of a proteolytic core (the 20S proteasome) as well as regulatory particles, which contain six ATPase (Rpt) subunits involved in unfolding and translocation of substrates to the catalytic chambe...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201300207
更新日期:2013-11-01 00:00:00
abstract::This paper reports on the findings of the Biomedical Research Institute, as one of the participants in the pilot study of the HUPO Brain Proteome Project. A biopsy and autopsy study sample derived from human brain was distributed among the participants for proteomic analysis. In our laboratory, attention was focused o...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200600080
更新日期:2006-09-01 00:00:00
abstract::Targeted mass spectrometry-based proteomics approaches enable the simultaneous and reproducible quantification of multiple protein analytes across numerous conditions in biology and clinical studies. These approaches involve e.g. selected reaction monitoring (SRM) typically conducted on a triple quadrupole mass spectr...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201600323
更新日期:2017-03-01 00:00:00
abstract::Several lines of evidence suggest that hnRNPs A/B (hnRNPs A1, A2/B1, and A3) play an important role in proliferation, although the functional overlap among members of hnRNPs A/B remains largely unknown. In this study, we have employed RNAi knockdown and proteomic approaches to investigate the biological functions of h...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201300549
更新日期:2014-06-01 00:00:00
abstract::The skin provides protection against environmental stress. However, intrinsic and extrinsic aging causes significant alteration to skin structure and components, which subsequently impairs molecular characteristics and biochemical processes. Here, we have conducted an immunohistological investigation and established t...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201600141
更新日期:2016-10-01 00:00:00
abstract::Mechanisms of milk lipid secretion are highly controversial. Analyzing the fine protein composition of the "milk fat globule membrane" (MFGM), the triple-layered membrane surrounding milk lipid droplets (LDs) can provide mechanistic clues to better understand LD biosynthesis and secretion pathways in mammary epithelia...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400245
更新日期:2015-07-01 00:00:00
abstract::A large repertoire of immunological methods permits monitoring the interaction of antibodies with their specific antigen. However, recognition of a protein by a conformation-specific antibody represents a challenge because native conditions must be kept throughout the assay. Native immunoblotting of blue native gels c...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200900468
更新日期:2010-01-01 00:00:00
abstract::Arabidopsis thaliana cell suspension cultures have been used to investigate the effects of salinity and hyperosmotic stress on plant cellular proteins. We show that 200 mM NaCl and 400 mM sorbitol treatments induce extracellular medium acidification in Arabidopsis cell cultures, a typical response of plant cells to sa...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200401282
更新日期:2005-11-01 00:00:00
abstract::Proteins extracted from leaf blades of rice plants infected with blast fungus, Magnaporthe grisea, were separated by two-dimensional polyacrylamide gel electrophoresis. The separated proteins were electroblotted onto a polyvinylidene difluoride membrane, and 63 proteins were analyzed by a gas-phase protein sequencer. ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/1615-9861(200109)1:9<1162::AID-PROT1162>3.
更新日期:2001-09-01 00:00:00
abstract::Urinary microvesicles constitute a rich source of membrane-bound and intracellular proteins that may provide important clues of pathophysiological mechanisms in renal disease. In the current study, we analyzed and compared the proteome of urinary microvesicles from patients with idiopathic membranous nephropathy (iMN)...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500127
更新日期:2015-11-01 00:00:00
abstract::The von Hippel-Lindau (VHL) tumour suppressor gene plays a central role in development of clear cell renal cell carcinoma (RCC). Using a cell line pair generated from the VHL-defective RCC cell line UMRC2 by transfection with vector control or VHL (-/+VHL) and stable isotope labelling with amino acids in cell culture ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200800756
更新日期:2009-04-01 00:00:00
abstract::We bring a "spectrum" of classical data mining and statistical analysis methods to bear on discrimination of two groups of spectra from 24 diseased and 17 normal patients. Our primary goal is to accurately estimate the generalizability of this small dataset. After an aggressive preprocessing step that reduces consider...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200300516
更新日期:2003-09-01 00:00:00
abstract::High-throughput shotgun metaproteomic approaches on environmental or medical microbiomes are producing huge amounts of tandem mass spectrometry data. These can be interpreted either with a general protein sequence database comprising tens of thousands of sequenced genomes or with a more customized database such as tho...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500104
更新日期:2015-10-01 00:00:00
abstract::To implement the 2-DE database of serogroup A Neisseria meningitidis (MenA) and improve its potential of investigation in bacterial biology, cell extracts were separated by tricine-SDS-PAGE and 131 novel proteins were identified by microLC-ESI-IT-MS/MS. These identifications extended to 404, the number of MenA gene ex...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200700210
更新日期:2007-09-01 00:00:00
abstract::CRISPR-Cas gene editing holds substantial promise in many biomedical disciplines and basic research. Due to the important functional implications of non-histone chromosomal protein HMG-14 (HMGN1) in regulating chromatin structure and tumor immunity, gene knockout of HMGN1 is performed by CRISPR in cancer cells and the...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201800438
更新日期:2019-07-01 00:00:00
abstract::We here present a user-friendly and extremely lightweight tool that can serve as a stand-alone front-end for the Open MS Search Algorithm (OMSSA) search engine, or that can directly be used as part of an informatics processing pipeline for MS driven proteomics. The OMSSA graphical user interface (OMSSAGUI) tool is wri...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200701126
更新日期:2008-06-01 00:00:00
abstract::The large interactive surfaces of nanoparticles (NPs) increase the opportunities to develop NPs for vascular targeting. Proteomic analysis of endothelial cells exposed to NPs reveals the cellular response and turns the focus into the impairment of the endothelial permeability. Here, quantitative proteomics and transcr...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201800228
更新日期:2019-03-01 00:00:00
abstract::The recent development in immune checkpoint inhibitors and chimeric antigen receptor (CAR) T-cells in the treatment of cancer has not only demonstrated the potency of utilizing T-cell reactivity for cancer therapy, but has also highlighted the need for developing new approaches to discover targets suitable for such no...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201700465
更新日期:2018-06-01 00:00:00
abstract::An improved method for peptide sequencing based on acetylation/deuteroacetylation in conjunction with ESI MS is introduced. Derivatization with a 1:1 mixture of acetic anhydride and deuterated acetic anhydride incorporates a stable isotope label into the analyzed molecule. This approach has been initially applied to F...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200401319
更新日期:2005-11-01 00:00:00