Lung fibrosis (Homo sapiens)

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InflammationOxidative stressMacrophage-relatedfrustrated phagocytosis, oxidative stressandinflammasome activationLung injury (known or unknown) combined with tissue response (normal or abnormal)Epithelial injury andapoptosis:disturbed interactionwith mesenchymal cells,epithelial-mesenchymaltransition Coagulation disturbancesExcess deposition and/or reduced turnover of extracellular matrix (ECM)Pulmonary fibrosisFibroblastproliferation, resistance to apoptosis, differentiationinto myofibroblasts, collagen production1MT2RTEL1IL12BIGF1SPP1ELMOD2PDGFBFGF7TERCSERPINA1HMOX1IL6CTGFSFTPCFGF2CEBPBSKILCCL5PLAUCCL2CCL3SMAD7CCL11OBFC1SFTPA2ELNDSPFAM13ACMA1IL1BCCR2IL5CSF2FGF1HGFSFTPA1CALCAIL13CSF3TERTMUC5BPDGFAMMP2MECP2EDN1PTX3EGFNFE2L2TGFAATP11ACXCL8PARNDPP9BMP7CCL4TNFMMP9CYSLTR2CXCL2GREM1IL4CCR3TIMP1TGFB1Collagen productionInflammasome activationROS production2Genes with direct association topulmonary fibrosis in the Comparative Toxicogenomics Database (CTD)43


Description

(Nanoparticle) induced lung fibrosis pathway. Under construction.

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Quality Tags

Ontology Terms

 

Bibliography

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  1. Todd NW, Luzina IG, Atamas SP; ''Molecular and cellular mechanisms of pulmonary fibrosis.''; http://www.ncbi.nlm.nih.gov/pubmed/22824096, 2012 PubMed Europe PMC Scholia
  2. Vietti G, Lison D, van den Brule S; ''Mechanisms of lung fibrosis induced by carbon nanotubes: towards an Adverse Outcome Pathway (AOP).''; http://www.ncbi.nlm.nih.gov/pubmed/26926090, 2016 PubMed Europe PMC Scholia
  3. Montojo J, Zuberi K, Rodriguez H, Bader GD, Morris Q; ''GeneMANIA: Fast gene network construction and function prediction for Cytoscape.''; http://www.ncbi.nlm.nih.gov/pubmed/25254104, 2014 PubMed Europe PMC Scholia
  4. Davis AP, Grondin CJ, Lennon-Hopkins K, Saraceni-Richards C, Sciaky D2, King BL, Wiegers TC2, Mattingly CJ; ''The Comparative Toxicogenomics Database's 10th year anniversary: update 2015''; http://www.ncbi.nlm.nih.gov/pubmed/25326323, 2015 PubMed Europe PMC Scholia
  5. Naumanen P, Lappalainen P, Hotulainen P; ''Mechanisms of actin stress fibre assembly''; J Microsc. 2008 Sep;231(3):446-54. doi: 10.1111/j.1365-2818.2008.02057.x., 2008 PubMed Europe PMC Scholia
  6. Muir H.; ''The chondrocyte, architect of cartilage. Biomechanics, structure, function and molecular biology of cartilage matrix macromolecules.''; Bioessays. 1995 Dec;17(12):1039-48., 1995 PubMed Europe PMC Scholia
  7. Nymark P, Rieswijk L, Ehrhart F, Jeliazkova N, Tsiliki G, Sarimveis H, Evelo CT, Hongisto V, Kohonen P, Willighagen E, Grafström RC; ''A data fusion pipeline for generating and enriching Adverse Outcome Pathway descriptions.''; Toxicol Sci, 2017 PubMed Europe PMC Scholia
  8. Labib S, Williams A, Yauk CL, Nikota JK, Wallin H, Vogel U, Halappanavar S; ''Nano-risk Science: application of toxicogenomics in an adverse outcome pathway framework for risk assessment of multi-walled carbon nanotubes''; http://www.ncbi.nlm.nih.gov/pubmed/26979667, 2016 PubMed Europe PMC Scholia

History

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CompareRevisionActionTimeUserComment
122572view10:54, 16 April 2022EgonwMade multiple pathways clickable
118417view14:20, 27 May 2021Mkutmonpublication ref fix
110182view14:31, 23 April 2020EgonwOntology Term : 'carbon nanotube response pathway' added !
109958view07:05, 8 April 2020PennyUpdated the Legend of the AOP description in line with the current AOP:173
106633view20:59, 12 September 2019KhanspersModified description
105638view05:06, 10 August 2019KhanspersModified description
102001view15:23, 23 November 2018EgonwRemove duplicate BioPax content.
95209view13:13, 23 November 2017PennyAdded reference to publication doi: 10.1093/toxsci/kfx252
94992view14:26, 24 October 2017Fehrhartfixed a label (MIE)
92327view12:06, 23 May 2017PennyUpdated links - SERPINA1 to Chemokine signaling; TGFA to SMAD7
91475view12:07, 6 March 2017FehrhartAdded ID for Chemokine signaling
91457view12:32, 1 March 2017FehrhartDesign update
91456view11:57, 1 March 2017FehrhartFormat adjustments
91455view10:13, 1 March 2017FehrhartAdded AE3
91421view12:48, 22 February 2017FehrhartChanged shade of grey for AO
90900view11:37, 16 December 2016PennyRemoved "frustrated phagocytosis" since that is mainly related to high-aspect ratio materials and does not represent other types of fibrosis-inducing agents
90691view13:12, 9 December 2016PennyModified description
90684view11:24, 7 December 2016PennyLink to WP2666
90683view11:13, 7 December 2016PennyAdded link to WP474
90526view23:51, 21 November 2016Khanspersmoved pathway to improve scaling/readability
88994view12:05, 18 August 2016LindarieswijkConverted unknown node to label
88993view11:54, 18 August 2016LindarieswijkUpdate literature reference (double Vietti)
88992view11:51, 18 August 2016LindarieswijkUpdates references
88991view11:50, 18 August 2016LindarieswijkUpdates literature
88990view11:47, 18 August 2016LindarieswijkUpdates literature reference
88984view10:00, 18 August 2016LindarieswijkUpdated legend and coloring of the events
88974view08:57, 18 August 2016LindarieswijkChanged "ROS production" labels to metabolite nodes and added CHEBI ID
88972view07:59, 18 August 2016LindarieswijkUpdated literature
88923view15:24, 17 August 2016LindarieswijkChanged AE back to associative event (like in paper)
88922view15:19, 17 August 2016LindarieswijkCorrected the legend: added MIE and adjusted full name AE
88695view16:04, 12 August 2016JmeliusOntology Term : 'respiratory system disease pathway' added !
87393view11:05, 22 July 2016MaintBotadded missing graphids
86044view19:07, 28 June 2016MaintBotconnected interaction
85998view00:08, 24 June 2016KhanspersModified description
85992view08:34, 23 June 2016FehrhartConnected unconnected lines
85985view19:02, 22 June 2016KhanspersOntology Term : 'pulmonary fibrosis' added !
85070view10:30, 11 April 2016PennyAdded legend for AOP events
84887view14:15, 30 March 2016PennyPeriodical update, work in progress
84886view13:47, 30 March 2016PennyPeriodical update, work in progress
84881view20:33, 29 March 2016PennyPeriodical update, work in progress
84880view20:03, 29 March 2016PennyPeriodical update
84877view15:34, 29 March 2016PennySimplified connections with reference to MIEs, KEs and AEs associated with a putative AOP for lung fibrosis.
84873view11:29, 29 March 2016FehrhartAdded link to NDRP3 inflammasome pathway via IL1B
84792view12:33, 22 March 2016PennyUpdated links
84791view10:33, 22 March 2016PennyUpdated connections according to geneMANIA and CPDB induced network module.
84790view09:07, 22 March 2016PennyUpdated connections
84789view08:36, 22 March 2016PennyAdded gene connections
84787view15:28, 21 March 2016LindarieswijkUpdated Gene IDs
84775view14:33, 18 March 2016Penny
84774view14:13, 18 March 2016Penny

External references

DataNodes

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NameTypeDatabase referenceComment
ATP11AGeneProductENSG00000068650
BMP7GeneProductENSG00000101144
CALCAGeneProductENSG00000110680
CCL11GeneProductENSG00000172156
CCL2GeneProductENSG00000108691
CCL3GeneProductENSG00000278567
CCL4GeneProductENSG00000277943
CCL5GeneProductENSG00000271503
CCR2GeneProductENSG00000121807
CCR3GeneProductENSG00000183625
CEBPBGeneProductENSG00000172216
CMA1GeneProductENSG00000092009
CSF2GeneProductENSG00000164400
CSF3GeneProductENSG00000108342
CTGFGeneProductENSG00000118523
CXCL2GeneProductENSG00000081041
CXCL8GeneProductENSG00000169429
CYSLTR2GeneProductENSG00000152207
DPP9GeneProductENSG00000142002
DSPGeneProductENSG00000096696
EDN1GeneProductENSG00000078401
EGFGeneProductENSG00000138798
ELMOD2GeneProductENSG00000179387
ELNGeneProductENSG00000049540
FAM13AGeneProductENSG00000138640
FGF1GeneProductENSG00000113578
FGF2GeneProductENSG00000138685
FGF7GeneProductENSG00000140285
GREM1GeneProductENSG00000276886
HGFGeneProductENSG00000019991
HMOX1GeneProductENSG00000100292
IGF1GeneProductENSG00000017427
IL12BGeneProductENSG00000113302
IL13GeneProductENSG00000169194
IL1BGeneProductENSG00000125538
IL4GeneProductENSG00000113520
IL5GeneProductENSG00000113525
IL6GeneProductENSG00000136244
MECP2GeneProductENSG00000169057
MMP2GeneProductENSG00000087245
MMP9GeneProductENSG00000100985
MT2GeneProduct#N/A
MUC5BGeneProductENSG00000117983
NFE2L2GeneProductENSG00000116044
OBFC1GeneProductENSG00000107960
PARNGeneProductENSG00000274829
PDGFAGeneProductENSG00000197461
PDGFBGeneProductENSG00000100311
PLAUGeneProductENSG00000122861
PTX3GeneProductENSG00000163661
RTEL1GeneProductENSG00000258366
SERPINA1GeneProductENSG00000277377
SFTPA1GeneProductENSG00000122852
SFTPA2GeneProductENSG00000185303
SFTPCGeneProductENSG00000168484
SKILGeneProductENSG00000136603
SMAD7GeneProductENSG00000101665
SPP1GeneProductENSG00000118785
TERCGeneProductENSG00000270141
TERTGeneProductENSG00000164362
TGFAGeneProductENSG00000163235
TGFB1GeneProductENSG00000105329
TIMP1GeneProductENSG00000102265
TNFGeneProductENSG00000223952

Annotated Interactions

No annotated interactions

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