SPR509: Lung metastasis(Expression profiling by array)

Organism: Mus musculus

Samples : 14
‘Determining the gene expression differences between normal,
metastatic and non-metastatic mouse lung tissue’

GEO2R Window(with groups defined):

1. Options -> Taking Metastatic v/s Normal

Volcano plot
 Up-Regulated Genes Red
Down-Regulated Genes Blue

(Up-regulated genes below log

2-fc value of -1 removed)

log2(fold
ID Gene.title
change)
1416298_at 1.333 matrix metallopeptidase 9
1418722_at 2.422 neutrophilic granule protein
1418806_at 1.931 colony stimulating factor 3 receptor (granulocyte)
1419394_s_at 2.384 S100 calcium binding protein A8 (calgranulin A)
1419609_at 1.137 chemokine (C-C motif) receptor 1
1419691_at 3.873 cathelicidin antimicrobial peptide
1419709_at 5.339 stefin A3
1420330_at 2.202 C-type lectin domain family 4, member e
1420418_at -1.455 synaptotagmin II
1420804_s_at 1.781 C-type lectin domain family 4, member d
1421408_at 1.287 immunoglobulin superfamily, member 6
1421463_at 1.855 sialic acid binding Ig-like lectin E
1421734_at 2.522 chemokine (C-X-C motif) receptor 2
1424254_at 1.058 interferon induced transmembrane protein 1
1425829_a_at 1.11 STEAP family member 4
1425888_at 1.654 killer cell lectin-like receptor, subfamily A, member 17
1427102_at 2.062 schlafen 4
1430700_a_at 1.028 phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)
1430954_at -2.245 peptidylprolyl isomerase (cyclophilin)-like 3
1431525_at 1.027 RIKEN cDNA 9130002K18 gene
1434484_at 1.717 WAP four-disulfide core domain 21
1435761_at 4.554 cDNA sequence BC100530///stefin A1
1436530_at 2.845 WAP four-disulfide core domain 17
1437060_at 2.958 olfactomedin 4
1438692_at -2.651 general transcription factor IIIC, polypeptide 4
1440865_at 1.648 interferon induced transmembrane protein 6
1440921_at 1.536 NLR family, pyrin domain containing 12
1442339_at 4.015 stefin A2 like 1
1445780_at -1.969
1448025_at 1.19 signal-regulatory protein beta 1
1448291_at 2.162 matrix metallopeptidase 9
1448756_at 2.492 S100 calcium binding protein A9 (calgranulin B)
1449184_at 1.129 peptidoglycan recognition protein 1
1449366_at 1.465 matrix metallopeptidase 8
1449399_a_at 1.762 interleukin 1 beta
1449909_at 3.218 predicted gene 5483///RIKEN cDNA 2010005H15 gene
1449965_at 3.424 mast cell protease 8
1450298_at 3.427 tumor necrosis factor (ligand) superfamily, member 14
1450639_at 1.734 predicted gene 14085///solute carrier family 28 (sodium-coupled nucleoside transporter), me
1451858_at 1.531 MAS-related GPR, member A2A///MAS-related GPR, member A2B
1452732_at 1.525 aspartic peptidase, retroviral-like 1
1456893_at 1.007
1457933_at -2.073 major facilitator superfamily domain containing 2B
1460197_a_at 1.168 STEAP family member 4

2. Options -> Taking Non-Metastatic v/s Normal

Significant level cut-off- 0.5
 Significant level cut-off- 0.65

Gene table of Padj<0.65

(showing only highly regulated genes with Log2-fc value more than 1 and less than -1)
log2(fold
ID Gene.title
change)
1416316_at 1.723 solute carrier family 27 (fatty acid transporter), member 2
1420418_at -1.46 synaptotagmin II
1427211_at -1.218 keratin associated protein 8-1
1432899_at -1.621 RIKEN cDNA 4833408G04 gene
1433071_at 1.692 RIKEN cDNA 6430605C03 gene
1435438_at -1.765 SRY (sex determining region Y)-box 8
1438054_x_at 2.905 protein phosphatase 2, regulatory subunit B, gamma
1438237_at 2.433 reduced expression 2///zinc finger protein 980///zinc finger protein 600
1438585_at -2.081 spectrin repeat containing, nuclear envelope 2
1441745_at 1.792
1446940_at -1.941 TNF receptor-associated factor 6
1447199_at -2.118 expressed sequence C80763
1449965_at 2.723 mast cell protease 8
1450809_at 1.675 seminal vesicle antigen-like 2
1453973_s_at 1.545 RIKEN cDNA 2900057H02 gene///transmembrane protein 143
1457981_x_at -2.277 GINS complex subunit 1 (Psf1 homolog)
1458619_at 1.514

3. Options -> Taking Non-Metastatic v/s Metastatic

Significant level cut-off- 0.1
 Up-Regulated Genes Red
Down-Regulated Genes Blue

Gene table of Padj<0.1

(showing only highly regulated genes with Log2-fc value more than 1 and less than -
1)
log2(fold
ID Gene.title
change)
1416298_at 1.307 matrix metallopeptidase 9
1416518_at 1.573 H1 histone family, member O, oocyte-specific
1418722_at 2.788 neutrophilic granule protein
1418806_at 1.576 colony stimulating factor 3 receptor (granulocyte)
1419394_s_at 2.109 S100 calcium binding protein A8 (calgranulin A)
1419610_at 1.347 chemokine (C-C motif) receptor 1
1419691_at 4.044 cathelicidin antimicrobial peptide
1419709_at 4.571 stefin A3
1420330_at 1.995 C-type lectin domain family 4, member e
1420804_s_at 1.409 C-type lectin domain family 4, member d
1421463_at 2.043 sialic acid binding Ig-like lectin E
1421734_at 2.274 chemokine (C-X-C motif) receptor 2
1424254_at 1.02 interferon induced transmembrane protein 1
1425888_at 1.529 killer cell lectin-like receptor, subfamily A, member 17
1427102_at 1.433 schlafen 4
1427675_at -2.672 vomeronasal 1 receptor 45
1427994_at 1.064 CD300 molecule like family member F
1430954_at -2.065 peptidylprolyl isomerase (cyclophilin)-like 3
1433071_at -2.625 RIKEN cDNA 6430605C03 gene
1434484_at 1.997 WAP four-disulfide core domain 21
1435761_at 4.432 cDNA sequence BC100530///stefin A1
1436530_at 2.844 WAP four-disulfide core domain 17
1437060_at 2.143 olfactomedin 4
1438237_at -2.679 reduced expression 2///zinc finger protein 980///zinc finger protein 600
1438692_at -2.545 general transcription factor IIIC, polypeptide 4
1440921_at 1.468 NLR family, pyrin domain containing 12
1442339_at 3.861 stefin A2 like 1
1445780_at -1.766
1448291_at 1.782 matrix metallopeptidase 9
1448756_at 2.229 S100 calcium binding protein A9 (calgranulin B)
1449184_at 1.172 peptidoglycan recognition protein 1
1449366_at 1.413 matrix metallopeptidase 8
1449399_a_at 1.583 interleukin 1 beta
1449909_at 3.032 predicted gene 5483///RIKEN cDNA 2010005H15 gene
1449991_at 1.094 CD244 natural killer cell receptor 2B4
1450639_at 1.177 predicted gene 14085///solute carrier family 28 (sodium-coupled nucleoside transporter),
1450989_at -2.066 teratocarcinoma-derived growth factor 1
1451858_at 1.304 MAS-related GPR, member A2A///MAS-related GPR, member A2B
1452732_at 1.213 aspartic peptidase, retroviral-like 1
1457933_at -2.144 major facilitator superfamily domain containing 2B
1460197_a_at 1.09 STEAP family member 4

Venn Diagram of all the 3 Sample

types

UMAP Plot