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Analysis of expression of genes responsible for regulation of cellular proliferation and migration – microarray approach based on porcine oocyte model

Agata Chamier-Gliszczyńska
Agata Chamier-Gliszczyńska
, 
Sandra Kałużna
Sandra Kałużna
, 
Katarzyna Stefańska
Katarzyna Stefańska
, 
Piotr Celichowski
Piotr Celichowski
, 
Paweł Antosik
Paweł Antosik
, 
Dorota Bukowska
Dorota Bukowska
, 
Małgorzata Bruska
Małgorzata Bruska
, 
Jana Zakova
Jana Zakova
, 
Marie Machatkova
Marie Machatkova
, 
Michal Jeseta
Michal Jeseta
 et 
Michał Nowicki
Michał Nowicki
   | 12 oct. 2019
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Publié en ligne: 12 oct. 2019
Pages: 48 - 57
Reçu: 14 juil. 2019
Accepté: 06 août 2019
DOI: https://doi.org/10.2478/acb-2019-0007
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© 2019 Agata Chamier-Gliszczyńska, Sandra Kałużna, Katarzyna Stefańska, Piotr Celichowski, Paweł Antosik, Dorota Bukowska, Małgorzata Bruska, Jana Zakova, Marie Machatkova, Michal Jeseta, Michał Nowicki, published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

Figure 1

Heat map representations of differentially expressed genes belonging to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. Arbitrary signal intensity acquired from microarray analysis is represented by colors (green, higher; red, lower expression). Log2 signal intensity values for any single gene were resized to Row Z-Score scale (from -2, the lowest expression to +2, the highest expression for single gene)
Heat map representations of differentially expressed genes belonging to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. Arbitrary signal intensity acquired from microarray analysis is represented by colors (green, higher; red, lower expression). Log2 signal intensity values for any single gene were resized to Row Z-Score scale (from -2, the lowest expression to +2, the highest expression for single gene)

Figure 2

The circle plot showing the differently expressed genes and z-scores of “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The outer circle shows a scatter plot for each term of the fold change of the assigned genes. Greencircles display up- regulation and red ones down- regulation. The inner circle shows the z-score of each GO BP term. The width of each bar corresponds to the number of genes within GO BP term and the color corresponds to the z-score
The circle plot showing the differently expressed genes and z-scores of “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The outer circle shows a scatter plot for each term of the fold change of the assigned genes. Greencircles display up- regulation and red ones down- regulation. The inner circle shows the z-score of each GO BP term. The width of each bar corresponds to the number of genes within GO BP term and the color corresponds to the z-score

Figure 3

The representation of the mutual relationship between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The ribbons indicate which gene belongs to which categories. The middle circle represents logarithm from fold change (LogFC). The genes were sorted by logFC from most to least changed gene. The color of the each LogFC bar corresponds with LogFC value
The representation of the mutual relationship between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The ribbons indicate which gene belongs to which categories. The middle circle represents logarithm from fold change (LogFC). The genes were sorted by logFC from most to least changed gene. The color of the each LogFC bar corresponds with LogFC value

Figure 4

Heatmap showing the gene occurrence between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The yellow color is associated with gene occurrence in the GO Term. The intensity of the color is corresponding to amount of GO BP terms that each gene belongs to
Heatmap showing the gene occurrence between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The yellow color is associated with gene occurrence in the GO Term. The intensity of the color is corresponding to amount of GO BP terms that each gene belongs to

Figure 5

STRING-generated interaction network between genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The intensity of the edges reflects the strength of interaction score
STRING-generated interaction network between genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. The intensity of the edges reflects the strength of interaction score

Figure 6

Functional interaction (FI) between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. In following figure “->” stands for activating/catalyzing, “-|” for inhibition, “-” for FIs extracted from complexes or inputs, and “---” for predicted FIs
Functional interaction (FI) between differently expressed genes that belongs to the “regulation of cell migration” and “regulation of cell proliferation” GO BP terms. In following figure “->” stands for activating/catalyzing, “-|” for inhibition, “-” for FIs extracted from complexes or inputs, and “---” for predicted FIs

Gene symbols, fold changes in expression, corrected p values and LogFC of studied genes

GENE SYMBOLFOLD CHANGEADJUSTEDP, VALUELOGFC
ID20,0634,74*10^5-1,201
VEGFA0,0701,91*10^3-1,157
BTG20,0749,55*10^5-1,129
CCND20,1221,79*10^4-0,914
EDNRA0,1671,85*10^3-0,777
TGFBR30,1974,06*10^4-0,707
GJA10,2071,08*10^4-0,684
LAMA20,2207,95*10^4-0,658
RTN40,2312,75*10^2-0,636
CDK60,2486,04*10^3-0,606
IHH0,3055,51*10^4-0,516
MAGED10,3067,06*10^4-0,515
INSR0,3161,91*10^3-0,500
CD90,3296,33*10^3-0,482
PTGES0,3371,21*10^3-0,472
TXNIP0,3567,81*10^4-0,449
ITGB10,3663,71*10^3-0,436
SMAD40,3681,24*10^3-0,434
MAP3K10,3692,47*10^2-0,433
NOTCH20,3852,52*10^3-0,415
IGFBP70,4042,50*10^3-0,394
KLF100,4056,85*10^3-0,392
KIT0,4302,56*10^3-0,366
TPM10,4341,63*10^3-0,363
PLD10,4681,10*10^2-0,329
BTG30,4864,03*10^2-0,314
CD470,4879,29*10^3-0,313
MITF0,4926,33*10^3-0,308
eISSN:
2544-3577
Langue:
Anglais
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4 fois par an
Sujets de la revue:
Life Sciences, Molecular Biology, Biochemistry
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