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. 2016 Jul 26;8:1099–1110. doi: 10.1016/j.dib.2016.07.033

Mass spectrometry based data of the blister fluid proteome of paediatric burn patients

Tuo Zang a,b,c, Daniel A Broszczak a,b,c, Leila Cuttle a,b,d, James A Broadbent a,b,c, Catherine Tanzer a,c,d, Tony J Parker a,b,
PMCID: PMC4976667  PMID: 27536711

Abstract

The data presented here are associated with the article “The blister fluid proteome of paediatric burns” (Zang et al., 2016) [1]. Burn injury is a highly traumatic event for children. The degree of burn severity (superficial-, deep-, or full-thickness injury) often dictates the extent of later scar formation which may require long term surgical operation or skin grafting. The data were obtained by fractionating paediatric burn blister fluid samples, which were pooled according to burn depth and then analysed using data dependent acquisition LC–MS/MS. The data includes a table of all proteins identified, in which burn depth category they were found, the percentage sequence coverage for each protein and the number of high confidence peptide identifications for each protein. Further Gene Ontology enrichment analysis shows the significantly over-represented biological processes, molecular functions, and cellular components of the burn blister fluid proteome. In addition, tables include the proteins associated with the biological processes of “wound healing” and “response to stress” as examples of highly relevant processes that occur in burn wounds.


Specifications Table

Subject area Biochemistry
More specific subject area Proteomics
Type of data Table, Figures, and Cytoscape file
How data was acquired LC-MS/MS, Eksigent ekspert 400 nanoLC system tandem TripleTOF 5600+ mass spectrometer (SCIEX)
Data format Raw, filtered and analysed
Experimental factors The blister fluid samples were pooled based on the depth classification, fractionated using 4 different methods, digested by trypsin and de-salted and enriched using Stage-Tips.
Experimental features Data dependent acquisition LC- MS/MSGene ontology analysis
Data source location Institute of Health and Biomedical Innovation (IHBI), Queensland University of Technology (QUT), Kelvin Grove, Queensland, Australia
Data accessibility Data is provided with this article

Value of the data

  • First and most comprehensive proteome of burn blister fluid that can be used to compare against other disease states/patient populations.

  • These data provide a reference list of known, observed proteins within paediatric burn blister fluid, which will be of interest for the burn wound research community and clinicians.

  • Qualitative evaluation of the biochemical differences between burns of different depths will enable future targeted quantitative analyses of protein abundance based on burn depth.

  • The dataset allows for extensive Gene Ontology (GO) term analysis of the burn blister fluid proteome and the interaction/interrogation of this proteome through the Cytoscape data file provided herein.

1. Data

Presented in this publication is an inventory of proteins identified in paediatric burn blister fluid (1% FDR corrected), and the depths at which they were detected (Supplementary Table S1). For each protein, the following elements are provided: the UniProt accession number; description; detected presence in three different burn depths (superficial, deep partial and full thickness); ProteinPilot confidence score; percent sequence coverage; and the number of ≥95% confident peptides identified per protein. An example of the quality of the mass spectrometry data acquired is shown in Fig. 1. The Gene Ontology (GO) enrichment analysis of the whole protein library categorised by biological processes, molecular functions and cellular components in response to burn injury is shown in Fig. 2 and provided online as a Cytoscape file. The proteins specifically involved in the GO term biological process annotations for ‘wound healing’ and ‘response to stress’ are shown in Tables A1 and B1.

Fig. 1.

Fig. 1

The mass spectra of an example sample. (A) Total ion chromatogram (blue) shows the complexity of ion information acquired from a single blister fluid sample. The dependent scan chromatogram (pink) shows the number of MS/MS ions detected. The total protein sequence coverage obtained and the corresponding MS2 spectra, with good y-ion series, of the underlined peptide are exemplified for burn relevant proteins, haemoglobin subunit alpha (B) and alpha-2 macroglobulin (C), respectively. Sequence coverage indicated by ≥95% confident peptides (green), ≥75% confident peptides (yellow), and ≥50% confident peptides (red). Grey amino acids were not detected.

Fig. 2.

Fig. 2

Gene ontology enrichment analysis for the entire protein inventory of burn blister fluid. The number of proteins involved in the annotation is in proportion to the size of nodes. The colour of the node represents the (corrected) p-value with a darker colour indicative of greater significance of over-representation for that GO term. Uncoloured nodes are the parents of over-represented downstream categories without over-representation themselves. (A) The network of biological process. (B) The network of cellular component. (C) The network of molecular function.

2. Experimental design, materials and methods

Methodology for blister fluid sample collection, sample preparation, liquid chromatography tandem mass spectrometry analysis, protein identification and GO analysis are described elsewhere [1].

2.1. Liquid chromatography tandem mass spectrometry (LC–MS/MS)

The quality of mass spectrometry data acquired and subsequently analysed was of a high standard (Fig. 1). The generation of complex and information rich ion chromatograms ensure that robust identifications of proteins are made (Fig. 1A). Furthermore, data acquired for proteins of relevance to burn injury were also of a high standard, with excellent sequence coverage and y-ion and b-ion series in MS2 spectra (Fig. 1B and C).

2.2. GO analysis

The over-represented biological processes (BP), molecular functions (MF), and cellular components (CC) were determined through Gene Ontology (GO) enrichment analysis of the whole blister fluid proteome using the BiNGO app within Cytoscape (Version 3.2.1, National Resource for Network Biology) (Fig. 2 and the Cytoscape file available online). Detected proteins within the two over-represented GO terms, ‘wound healing’ and ‘response to stress’ were compared across three burn depths (Tables A1 and B1, respectively). Subsets of these data with additional interpretation relevant to burn injury can be found elsewhere [1].

Acknowledgements

The authors acknowledge the patients and their families for the kind donation of their blister fluids and the assistance of the clinical staff at the Royal Children׳s Hospital and Lady Cilento Children׳s Hospital with sample collection. The authors also acknowledge Dr. Pawel Sadowski and Dr. Rajesh Gupta of the Central Analytical Research Facility (CARF) at the Queensland University of Technology, for their assistance with the mass spectrometry. Research support for this project was provided by the Wound Management Innovation Cooperative Research Centre (WMICRC) ​(project number 1-19) in addition to TZ’s and CT’s scholarship support and salary support for CT, DAB and JAB. LC was supported by a National Health and Medical Research Council Fellowship (#APP1035907). The authors have no other relevant affiliations or financial involvement with any organisation or entity with a financial interest in or financial conflict with the subject matter or materials discussed in the manuscript apart from those disclosed. This includes employment, consultancies, honoraria, stock ownership or options, expert testimony, grants or patents received or pending, or royalties.

Footnotes

Transparency document

Transparency document associated with this article can be found in the online version at 10.1016/j.dib.2016.07.033.

Appendix A

Supplementary data associated with this article can be found in the online version at 10.1016/j.dib.2016.07.033.

Appendix

See

Table A1.

Distribution of significance level between burn severities for the biological process GO term, wound healing, and the burn depth that proteins associated with this GO term were detected. S=superficial thickness, D=deep partial thickness, F=full-thickness.

Biological process ofwound healing
UniProt accession number Cohort S D F
heatmap
corrected p-value 1.55E−30 2.09E−35 3.11E−48
P11021 78 kDa glucose-regulated protein X X
P60709 Actin, cytoplasmic 1
P63261 Actin, cytoplasmic 2
Q01518 Adenylyl cyclase-associated protein 1 X X
P01009 Alpha-1-antitrypsin
P08697 Alpha-2-antiplasmin
P01023 Alpha-2-macroglobulin
P12814 Alpha-actinin-1 X X
O43707 Alpha-actinin-4
P01008 Antithrombin-III
P08519 Apolipoprotein
P02647 Apolipoprotein A-I
P04114 Apolipoprotein B-100
P05090 Apolipoprotein D X
P02749 Beta-2-glycoprotein 1
P20851 C4b-binding protein beta chain X X
Q96IY4 Carboxypeptidase B2
P16070 CD44 antigen X
O00299 Chloride intracellular channel protein 1 X X
P10909 Clusterin
P00740 Coagulation factor IX
A0A0A0MRJ7 Coagulation factor V X X
P00742 Coagulation factor X
P03951 Coagulation factor XI X
P00748 Coagulation factor XII
P00488 Coagulation factor XIII A chain X X
P05160 Coagulation factor XIII B chain
P02452 Collagen alpha-1 X
P02461 Collagen alpha-1 X X
P02741 C-reactive protein
P07585 Decorin X X
P15924 Desmoplakin X
P02671 Fibrinogen alpha chain
P02675 Fibrinogen beta chain
P02679 Fibrinogen gamma chain
P02751 Fibronectin X
P23142 Fibulin-1
P04075 Fructose-bisphosphate aldolase A X
P06396 Gelsolin
P04792 Heat shock protein beta-1
P68871 Haemoglobin subunit beta
P02042 Haemoglobin subunit delta X
P69891 Haemoglobin subunit gamma-1 X X
P05546 Heparin cofactor 2
P04196 Histidine-rich glycoprotein
P68431 Histone H3.1 X
Q71DI3 Histone H3.2 X X
P03956 Interstitial collagenase
Q92876 Kallikrein-6 X
P02538 Keratin, type II cytoskeletal 6A X
P01042 Kininogen-1 X X
P14151 L-selectin X
P01033 Metalloproteinase inhibitor 1
P35579 Myosin-9 X X
P62937 Peptidyl-prolyl cis-trans isomerase A
P03952 Plasma kallikrein
P05155 Plasma protease C1 inhibitor
P05154 Plasma serine protease inhibitor X
P00747 Plasminogen
P02775 Platelet basic protein X
P07737 Profilin-1
P05109 Protein S100-A8
P00734 Prothrombin
P02787 Serotransferrin
P02768 Serum albumin
P0DJI8 Serum amyloid A-1 protein
P00441 Superoxide dismutase [Cu-Zn]
P18827 Syndecan-1 X X
Q9Y490 Talin-1 X X
P07996 Thrombospondin-1 X
P18206 Vinculin X X
P07225 Vitamin K-dependent protein S
P04275 von Willebrand factor X

Table A1,

Table B1.

Distribution of significance level between burn severities for the biological process GO term, response to stress, and the burn depth that proteins associated with this GO term were detected. S=superficial thickness, D=deep partial thickness, F=full-thickness.

Biological process of response to stress
UniProt accession number Cohort S D F
heatmap
corrected p-value 1.10E−61 1.01E−72 1.37E−76
P31946 14-3-3 protein beta/alpha X X
P62258 14-3-3 protein epsilon X X
P31947 14-3-3 protein sigma
P11021 78 kDa glucose-regulated protein X X
P60709 Actin, cytoplasmic 1
P63261 Actin, cytoplasmic 2
P61160 Actin-related protein 2 X X
O15145 Actin-related protein 2/3 complex subunit 3 X X
O15511 Actin-related protein 2/3 complex subunit 5 X
P61158 Actin-related protein 3 X X
Q01518 Adenylyl cyclase-associated protein 1 X X
Q15848 Adiponectin X X
P02763 Alpha-1-acid glycoprotein 1
P19652 Alpha-1-acid glycoprotein 2
P01011 Alpha-1-antichymotrypsin
P01009 Alpha-1-antitrypsin
P08697 Alpha-2-antiplasmin
P02765 Alpha-2-HS-glycoprotein
P01023 Alpha-2-macroglobulin
P12814 Alpha-actinin-1 X X
O43707 Alpha-actinin-4
P01019 Angiotensinogen
P04083 Annexin A1 X
P01008 Antithrombin-III
P08519 Apolipoprotein
P02647 Apolipoprotein A-I
P06727 Apolipoprotein A-IV
P04114 Apolipoprotein B-100
P05090 Apolipoprotein D X
P02649 Apolipoprotein E
O14791 Apolipoprotein L1
O75882 Attractin X X
P02749 Beta-2-glycoprotein 1
P04003 C4b-binding protein alpha chain
P20851 C4b-binding protein beta chain X X
P27797 Calreticulin X X
P00918 Carbonic anhydrase 2 X X
Q96IY4 Carboxypeptidase B2
P31944 Caspase-14 X
P04040 Catalase X X
J3KNB4 Cathelicidin antimicrobial peptide X X
P07858 Cathepsin B X X
P16070 CD44 antigen X
O43866 CD5 antigen-like
O00299 Chloride intracellular channel protein 1 X X
P10909 Clusterin
P00740 Coagulation factor IX
A0A0A0MRJ7 Coagulation factor V X X
P00742 Coagulation factor X
P03951 Coagulation factor XI X
P00748 Coagulation factor XII
P00488 Coagulation factor XIII A chain X X
P05160 Coagulation factor XIII B chain
P02452 Collagen alpha-1 X
P02461 Collagen alpha-1 X X
P02745 Complement C1q subcomponent subunit A
P02747 Complement C1q subcomponent subunit C
Q9NZP8 Complement C1r subcomponent-like protein
P09871 Complement C1s subcomponent
P06681 Complement C2
P01024 Complement C3
P0C0L4 Complement C4-A
P0C0L5 Complement C4-B
P01031 Complement C5
P13671 Complement component C6
P10643 Complement component C7
P07357 Complement component C8 alpha chain
P07358 Complement component C8 beta chain
P07360 Complement component C8 gamma chain
P02748 Complement component C9
P08603 Complement factor H
P31146 Coronin-1A X
P02741 C-reactive protein
P01034 Cystatin-C
P99999 Cytochrome c X X
P07585 Decorin X X
P81605 Dermcidin X
P15924 Desmoplakin X
P78527 DNA-dependent protein kinase catalytic subunit X
Q16610 Extracellular matrix protein 1
P08294 Extracellular superoxide dismutase [Cu–Zn]
Q01469 Fatty acid-binding protein, epidermal
P02671 Fibrinogen alpha chain
P02675 Fibrinogen beta chain
P02679 Fibrinogen gamma chain
P02751 Fibronectin X
P23142 Fibulin-1
Q15485 Ficolin-2 X X
O75636 Ficolin-3
P04075 Fructose-bisphosphate aldolase A X
P17931 Galectin-3 X
Q08380 Galectin-3-binding protein X X
P06396 Gelsolin
A0A087X1J7 Glutathione peroxidase
H0YBE4 Glutathione peroxidase 3 X X
P09211 Glutathione S-transferase P
P04406 Glyceraldehyde-3-phosphate dehydrogenase
P00738 Haptoglobin
P00739 Haptoglobin-related protein
P34931 Heat shock 70 kDa protein 1-like X X
P11142 Heat shock cognate 71 kDa protein X
P04792 Heat shock protein beta-1
P08238 Heat shock protein HSP 90-beta X
P69905 Haemoglobin subunit alpha
P68871 Haemoglobin subunit beta
P02042 Haemoglobin subunit delta X
P69891 Haemoglobin subunit gamma-1 X X
P05546 Heparin cofactor 2
P04196 Histidine-rich glycoprotein
O60814 Histone H2B type 1-K X X
P68431 Histone H3.1 X
Q71DI3 Histone H3.2 X X
Q9BYW2 Histone-lysine N-methyltransferase SETD2 X X
P01876 Ig alpha-1 chain C region
P01877 Ig alpha-2 chain C region X X
P01859 Ig gamma-2 chain C region
P01861 Ig gamma-4 chain C region
P01602 Ig heavy chain V-I region 5
P01814 Ig heavy chain V-II region OU X
P01764 Ig heavy chain V-III region 23 X
P01767 Ig heavy chain V-III region BUT X X
P01781 Ig heavy chain V-III region GAL X X
P01780 Ig heavy chain V-III region JON X
P01762 Ig heavy chain V-III region TRO X X
P01779 Ig heavy chain V-III region TUR X
P01776 Ig heavy chain V-III region WAS X X
P01593 Ig kappa chain V-I region AG X X
P01613 Ig kappa chain V-I region Ni X X
P01608 Ig kappa chain V-I region Roy X X
P01609 Ig kappa chain V-I region Scw X X
P06310 Ig kappa chain V-II region RPMI 6410 X X
P01617 Ig kappa chain V-II region TEW
P18136 Ig kappa chain V-III region HIC
P01621 Ig kappa chain V-III region NG9 X X
P06314 Ig kappa chain V-IV region B17 X X
P06313 Ig kappa chain V-IV region JI
P06316 Ig lambda chain V-I region BL2 X X
P01701 Ig lambda chain V-I region NEW X X
P04208 Ig lambda chain V-I region WAH X
P80748 Ig lambda chain V-III region LOI X X
P01714 Ig lambda chain V-III region SH X
P0CG06 Ig lambda-3 chain C regions X X
Q14624 Inter-alpha-trypsin inhibitor heavy chain H4
P03956 Interstitial collagenase
Q92876 Kallikrein-6 X
P08779 Keratin, type I cytoskeletal 16
P04264 Keratin, type II cytoskeletal 1
P02538 Keratin, type II cytoskeletal 6A X
P01042 Kininogen-1 X X
E7ER44 Lactotransferrin
E7EQB2 Lactotransferrin X X
P09960 Leukotriene A-4 hydrolase X X
P18428 Lipopolysaccharide-binding protein
P14151 L-selectin X
F8VV32 Lysozyme X X
P61626 Lysozyme C
P14174 Macrophage migration inhibitory factor
P40925 Malate dehydrogenase, cytoplasmic
P48740 Mannan-binding lectin serine protease 1 X
O00187 Mannan-binding lectin serine protease 2 X X
P11226 Mannose-binding protein C X X
P01033 Metalloproteinase inhibitor 1
P08571 Monocyte differentiation antigen CD14
P05164 Myeloperoxidase
P35579 Myosin-9 X X
Q96PD5 N-acetylmuramoyl-L-alanine amidase
P59666 Neutrophil defensin 3
P08246 Neutrophil elastase X
P06748 Nucleophosmin
O95497 Pantetheinase X
P26022 Pentraxin-related protein PTX3 X X
P62937 Peptidyl-prolyl cis-trans isomerase A
Q06830 Peroxiredoxin-1 X X
P32119 Peroxiredoxin-2
P03952 Plasma kallikrein
P05155 Plasma protease C1 inhibitor
P05154 Plasma serine protease inhibitor X
P00747 Plasminogen
P02775 Platelet basic protein X
P02545 Prelamin-A/C [Cleaved into: Lamin-A/C
P07737 Profilin-1
P25788 Proteasome subunit alpha type-3 X X
P28066 Proteasome subunit alpha type-5 X X
O14818 Proteasome subunit alpha type-7 X X
P28072 Proteasome subunit beta type-6
P07237 Protein disulphide-isomerase X X
P30101 Protein disulphide-isomerase A3 X X
P13667 Protein disulphide-isomerase A4 X X
Q92597 Protein NDRG1 X X
Q9HCY8 Protein S100-A14 X X
P31151 Protein S100-A7 X X
P05109 Protein S100-A8
P06702 Protein S100-A9
A0A096LPE2 Protein SAA2-SAA4
P00734 Prothrombin
P55786 Puromycin-sensitive aminopeptidase X X
P02787 Serotransferrin
P02768 Serum albumin
E9PQD6 Serum amyloid A protein X X
P0DJI8 Serum amyloid A-1 protein
P0DJI9 Serum amyloid A-2 protein X
P02743 Serum amyloid P-component
P08254 Stromelysin-1 X X
P00441 Superoxide dismutase [Cu-Zn]
P18827 Syndecan-1 X X
Q9Y490 Talin-1 X X
P10599 Thioredoxin
P07996 Thrombospondin-1 X
P55072 Transitional endoplasmic reticulum ATPase
P35030 Trypsin-3 X X
P07437 Tubulin beta chain X
P68371 Tubulin beta-4B chain X X
P62987 Ubiquitin-60S ribosomal protein L40
P18206 Vinculin X X
P07225 Vitamin K-dependent protein S
P04004 Vitronectin
P04275 von Willebrand factor X

Table B1

Transparency document. Supplementary material

Supplementary material

mmc1.pdf (81.8KB, pdf)

Appendix A. Supplementary material

Supplementary material

mmc2.zip (116.9KB, zip)

Supplementary material

mmc3.zip (32.6KB, zip)

Supplementary material

mmc4.zip (33.6KB, zip)

Supplementary material

mmc5.pdf (1.4MB, pdf)

Reference

  • 1.Zang T., Broszczak D.A., Cuttle L., Broadbent J.A., Tanzer C., Parker T.J. The blister fluid proteome of paediatric burns. J. Proteom. 2016 doi: 10.1016/j.jprot.2016.06.026. [DOI] [PubMed] [Google Scholar]

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Supplementary material

mmc1.pdf (81.8KB, pdf)

Supplementary material

mmc2.zip (116.9KB, zip)

Supplementary material

mmc3.zip (32.6KB, zip)

Supplementary material

mmc4.zip (33.6KB, zip)

Supplementary material

mmc5.pdf (1.4MB, pdf)

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