Advanced

Proteome annotations and identifications of the human pulmonary fibroblast.

Malmström, Johan LU ; Larsen, Kristoffer LU ; Malmström, Lars LU ; Tufvesson, Ellen LU ; Parker, Ken; Marchese, Jason; Williamson, Brian; Hattan, Steve; Patterson, Dale and Martin, Steve, et al. (2004) In Journal of Proteome Research 3(3). p.525-537
Abstract
We hereby report on a three year project initiative undertaken by our research team encompassing large-scale protein expression profiling and annotations of human primary lung fibroblast cells. An overview is given of proteomic studies of the fibroblast target cell involved in several diseases such as asthma, idiopatic pulmonary disease, and COPD. It has been the objective within our research team to map and identify the protein expressions occurring in both activated-, as well as resting cell states. The JGGL database www.2DDB.org has been built around these data, allowing advanced hypothesis building using the interactive query bioinformatic tools developed. Gene ontology has been applied to these annotations, classifying and correlating... (More)
We hereby report on a three year project initiative undertaken by our research team encompassing large-scale protein expression profiling and annotations of human primary lung fibroblast cells. An overview is given of proteomic studies of the fibroblast target cell involved in several diseases such as asthma, idiopatic pulmonary disease, and COPD. It has been the objective within our research team to map and identify the protein expressions occurring in both activated-, as well as resting cell states. The JGGL database www.2DDB.org has been built around these data, allowing advanced hypothesis building using the interactive query bioinformatic tools developed. Gene ontology has been applied to these annotations, classifying and correlating protein expressions to function. The localization as well as the biological processes involved for the annotations are being presented including an annotation-, and sequence-identification strategy, resulting in close to 2000 protein identities. Both gel based, high resolution 2D-gels, and liquid-phase separation (three-dimensional HPLC), as well as the combination of gel- and LC-based approaches (1D-gels and nano-capillary LC, reversed-phase) were utilized. Protein sequencing and structure identities were acquired by a combination of MALDI-, and electrospray-mass spectrometry techniques. Phenotypical and morphological characterizations were also made for this human disease target cell in both stimulated- and resting-cell states. The use of functional assays that demonstrate the key regulating role of growth factors and cytokine stimuli such as PDGF, TGF-, and EGF and the effect of ECM molecules such as Biglycan, are also presented and discussed. (Less)
Please use this url to cite or link to this publication:
author
, et al. (More)
(Less)
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Journal of Proteome Research
volume
3
issue
3
pages
525 - 537
publisher
The American Chemical Society
external identifiers
  • wos:000222075500021
  • scopus:4444294399
ISSN
1535-3893
DOI
10.1021/pr034104v
language
English
LU publication?
yes
id
d62132c7-c286-495b-80d6-6688bd3b89dc (old id 125832)
alternative location
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=15253434&dopt=Abstract
date added to LUP
2007-06-27 10:45:00
date last changed
2017-09-03 03:57:58
@article{d62132c7-c286-495b-80d6-6688bd3b89dc,
  abstract     = {We hereby report on a three year project initiative undertaken by our research team encompassing large-scale protein expression profiling and annotations of human primary lung fibroblast cells. An overview is given of proteomic studies of the fibroblast target cell involved in several diseases such as asthma, idiopatic pulmonary disease, and COPD. It has been the objective within our research team to map and identify the protein expressions occurring in both activated-, as well as resting cell states. The JGGL database www.2DDB.org has been built around these data, allowing advanced hypothesis building using the interactive query bioinformatic tools developed. Gene ontology has been applied to these annotations, classifying and correlating protein expressions to function. The localization as well as the biological processes involved for the annotations are being presented including an annotation-, and sequence-identification strategy, resulting in close to 2000 protein identities. Both gel based, high resolution 2D-gels, and liquid-phase separation (three-dimensional HPLC), as well as the combination of gel- and LC-based approaches (1D-gels and nano-capillary LC, reversed-phase) were utilized. Protein sequencing and structure identities were acquired by a combination of MALDI-, and electrospray-mass spectrometry techniques. Phenotypical and morphological characterizations were also made for this human disease target cell in both stimulated- and resting-cell states. The use of functional assays that demonstrate the key regulating role of growth factors and cytokine stimuli such as PDGF, TGF-, and EGF and the effect of ECM molecules such as Biglycan, are also presented and discussed.},
  author       = {Malmström, Johan and Larsen, Kristoffer and Malmström, Lars and Tufvesson, Ellen and Parker, Ken and Marchese, Jason and Williamson, Brian and Hattan, Steve and Patterson, Dale and Martin, Steve and Graber, Armin and Juhasz, H Peter and Westergren-Thorsson, Gunilla and Marko-Varga, György},
  issn         = {1535-3893},
  language     = {eng},
  number       = {3},
  pages        = {525--537},
  publisher    = {The American Chemical Society},
  series       = {Journal of Proteome Research},
  title        = {Proteome annotations and identifications of the human pulmonary fibroblast.},
  url          = {http://dx.doi.org/10.1021/pr034104v},
  volume       = {3},
  year         = {2004},
}