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Biogrammar Summary of Oxidative stress in health and disease: The therapeutic potential of Nrf2 activation 1.0.0

Table of Contents

  1. Contradictory Pairs
  2. Contradictory Triplets
  3. Causal Pathologies

Contradictory Statements 1

These pairs of nodes have a contradiction in their causal relationships, meaning they have more than one of INCREASES, DECREASES, or CAUSES NO CHANGE. This may be due to different experimental conditions, so these statements need to be carefully considered in analyses.

Source Relations Target
a(CHEBI:"dimethyl fumarate") increases, causesNoChange p(HGNC:NFE2L2)

Contradictory Triplets 1

Analysis of triple stability comes from a deep graph theoretic background. It identifies triangles within the graph that have logically inconsistent relations.

Separately Unstable Triplet
When both A positiveCorrelation B, B negativeCorrelation C, but C positiveCorrelation A.
Mutually Unstable Triplets
When both A negativeCorrelation B, B negativeCorrelation C, and C negativeCorrelation A.
Jens Contradictory Triplet
When A increases B, A decreases C, and C positiveCorrelation A.
Increase Mismatch Triplet
When A increases B, A increases C, and C negativeCorrelation A.
Decrease Mismatch Triplet
When A decreases B, A decreases C, and C negativeCorrelation A.
Type Node A Node B Node C
Jens p(HGNC:HMOX1) p(HGNC:NFE2L2) path(MESH:"Alzheimer Disease")

Causal Pathologies 113

Pathologies are more dogmatically the result of molecular and physical processes, and do not necessarily make sense as the subject of causal statements.

Source Relation Target
path(MESH:"Alzheimer Disease") decreases p(HGNC:ACLY)
path(MESH:"Alzheimer Disease") increases p(HGNC:AGRN)
path(MESH:"Alzheimer Disease") increases p(HGNC:ANP32A)
path(MESH:"Alzheimer Disease") decreases p(HGNC:ATAD2)
path(MESH:"Alzheimer Disease") increases p(HGNC:ATP1A1)
path(MESH:"Alzheimer Disease") increases p(HGNC:BAX)
path(MESH:"Alzheimer Disease") increases p(HGNC:BCHE)
path(MESH:"Alzheimer Disease") decreases p(HGNC:BECN1)
path(MESH:"Alzheimer Disease") increases p(HGNC:BGN)
path(MESH:"Alzheimer Disease") increases p(HGNC:BRCA1)
path(MESH:"Alzheimer Disease") increases p(HGNC:CADPS2)
path(MESH:"Alzheimer Disease") decreases p(HGNC:CANX)
path(MESH:"Alzheimer Disease") increases p(HGNC:CAPN1)
path(MESH:"Alzheimer Disease") increases p(HGNC:CCNB1)
path(MESH:"Alzheimer Disease") increases p(HGNC:CDK1)
path(MESH:"Alzheimer Disease") increases p(HGNC:CDK2)
path(MESH:"Alzheimer Disease") increases p(HGNC:CDKN2A)
path(MESH:"Alzheimer Disease") increases p(HGNC:CTSD)
path(MESH:"Alzheimer Disease") increases p(HGNC:CXCR4)
path(MESH:"Alzheimer Disease") decreases p(HGNC:DHCR24)
path(MESH:"Alzheimer Disease") increases p(HGNC:EIF4EBP1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:FGF2)
path(MESH:"Alzheimer Disease") increases p(HGNC:FOLH1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:GCNT2)
path(MESH:"Alzheimer Disease") increases p(HGNC:GLRX)
path(MESH:"Alzheimer Disease") increases p(HGNC:HMOX1)
path(MESH:"Alzheimer Disease") increases p(HGNC:HOMER1)
path(MESH:"Alzheimer Disease") increases p(HGNC:HRH1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:HTRA1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:IDE)
path(MESH:"Alzheimer Disease") increases p(HGNC:IGF2)
path(MESH:"Alzheimer Disease") increases p(HGNC:IGFBP2)
path(MESH:"Alzheimer Disease") increases p(HGNC:IL6R)
path(MESH:"Alzheimer Disease") increases p(HGNC:LDLR)
path(MESH:"Alzheimer Disease") increases p(HGNC:MAOA)
path(MESH:"Alzheimer Disease") decreases p(HGNC:MMP1)
path(MESH:"Alzheimer Disease") increases p(HGNC:NEFH)
path(MESH:"Alzheimer Disease") decreases p(HGNC:NFE2L2)
path(MESH:"Alzheimer Disease") increases p(HGNC:NPDC1)
path(MESH:"Alzheimer Disease") increases p(HGNC:NPTX1)
path(MESH:"Alzheimer Disease") increases p(HGNC:NQO1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:NR3C1)
path(MESH:"Alzheimer Disease") increases p(HGNC:NRGN)
path(MESH:"Alzheimer Disease") increases p(HGNC:PHF1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:PPARA)
path(MESH:"Alzheimer Disease") increases p(HGNC:PREP)
path(MESH:"Alzheimer Disease") increases p(HGNC:PRKCD)
path(MESH:"Alzheimer Disease") decreases p(HGNC:PRKCE)
path(MESH:"Alzheimer Disease") decreases p(HGNC:PRKDC)
path(MESH:"Alzheimer Disease") increases p(HGNC:PROS1)
path(MESH:"Alzheimer Disease") increases p(HGNC:PTGS1)
path(MESH:"Alzheimer Disease") increases p(HGNC:PTGS2)
path(MESH:"Alzheimer Disease") increases p(HGNC:RANBP9)
path(MESH:"Alzheimer Disease") decreases p(HGNC:SCD)
path(MESH:"Alzheimer Disease") increases p(HGNC:SELENBP1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:SLC6A6)
path(MESH:"Alzheimer Disease") increases p(HGNC:SOD1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:SYVN1)
path(MESH:"Alzheimer Disease") increases p(HGNC:TAGLN)
path(MESH:"Alzheimer Disease") increases p(HGNC:TGFB1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:TSHZ1)
path(MESH:"Alzheimer Disease") decreases p(HGNC:TUBB)
path(MESH:"Alzheimer Disease") increases p(HGNC:TUBB3)
path(MESH:"Alzheimer Disease") decreases p(HGNC:TXN)
path(MESH:"Alzheimer Disease") decreases p(HGNC:UNG)
path(MESH:"Alzheimer Disease") increases p(HGNC:VKORC1)
path(MESH:"Colorectal Neoplasms") decreases p(HGNC:ABCD3)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:ACLY)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:ANTXR1)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:C20orf27)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:CCNA2)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:CHAF1A)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:DHFR)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:EFCAB11)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:FEN1)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:GINS2)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:GLRX2)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:MCM10)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:MCM4)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:MICB)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:NQO1)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:RNASEH2A)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:SLIT2)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:SPC25)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TFRC)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TK1)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TMEM97)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TRIP13)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TUBB)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TUBB3)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:TYMS)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:UBA1)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:UNG)
path(MESH:"Colorectal Neoplasms") increases p(HGNC:VRK1)
path(MESH:Atherosclerosis) increases p(HGNC:CTNNB1)
path(MESH:Atherosclerosis) increases p(HGNC:DHFR)
path(MESH:Atherosclerosis) increases p(HGNC:EDN1)
path(MESH:Atherosclerosis) increases p(HGNC:EGR1)
path(MESH:Atherosclerosis) increases p(HGNC:ITGB3)
path(MESH:Atherosclerosis) increases p(HGNC:MKI67)
path(MESH:Atherosclerosis) increases p(HGNC:MMP11)
path(MESH:Atherosclerosis) increases p(HGNC:MMP14)
path(MESH:Atherosclerosis) increases p(HGNC:MMP2)
path(MESH:Atherosclerosis) decreases p(HGNC:NR3C1)
path(MESH:Atherosclerosis) increases p(HGNC:PDE7A)
path(MESH:Atherosclerosis) increases p(HGNC:PDE7B)
path(MESH:Atherosclerosis) increases p(HGNC:PLAU)
path(MESH:Atherosclerosis) decreases p(HGNC:PPARA)
path(MESH:Atherosclerosis) increases p(HGNC:PTGS1)
path(MESH:Atherosclerosis) increases p(HGNC:PTGS2)
path(MESH:Atherosclerosis) increases p(HGNC:SCARB1)
path(MESH:Atherosclerosis) increases p(HGNC:SOAT1)
path(MESH:Atherosclerosis) increases p(HGNC:TUBB3)

About

BEL Commons is developed and maintained in an academic capacity by Charles Tapley Hoyt and Daniel Domingo-Fernández at the Fraunhofer SCAI Department of Bioinformatics with support from the IMI project, AETIONOMY. It is built on top of PyBEL, an open source project. Please feel free to contact us here to give us feedback or report any issues. Also, see our Publishing Notes and Data Protection information.

If you find BEL Commons useful in your work, please consider citing: Hoyt, C. T., Domingo-Fernández, D., & Hofmann-Apitius, M. (2018). BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database, 2018(3), 1–11.