Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Network Comparison Type Value Type Gene Interaction Map description green red Filtered network_comparison
Results: HTML CSV LaTeX Showing element 451 to 500 of 29840 in total
Interaction Map  : High confidence
Rank
Network Comparison Type
Value Type
description
green
red
Filtered
network_comparison
29 Divided Ranked phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 11625 7395 0 1.57201
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 243.678 187.458 1 1.29991
Squared chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] 457.521 143.692 3.18404
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 141.427 5.18438 0 27.2794
Rooted microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] 7.34614 17.7955 2.42243
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] 43.1914 26.0288 1 1.65937
Subtracted Measured melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 18263 23693.7 5430.7
regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] 2399.76 3248.95 0 849.19
Ranked ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 8257 13730.5 5473.5
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 336.075 267.139 1 68.936
Squared galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470] 64272.5 72128.6 0 7856.1
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 129762 219048 1 89286
Rooted cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 1.80368 11.3774 0 9.57372
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 192.165 210.928 1 18.763
30 Divided Measured dystrophin. [swissprot;acc:p11532] 111.739 427.217 0 3.82335
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 895.633 1834.59 1 2.04837
Ranked beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 11625 7395 0 1.57201
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] 243.678 187.457 1 1.29991
Squared cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519] 457.521 143.692 3.18404
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 141.944 6.25494 0 22.6931
Rooted microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 43.1914 26.0288 1 1.65937
ptd016 protein. [refseq;acc:nm_016125] 12.5698 5.47723 0 2.29492
Subtracted Measured cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 4102.97 3265.25 837.72
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 18263 23693.7 1 5430.7
Ranked guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 336.075 267.14 68.935
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 8257 13730.5 0 5473.5
Squared segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 31089.6 23310.5 7779.1
trophinin. [swissprot;acc:q12816] 129762 219048 1 89286
Rooted cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 79.5099 60.8022 18.7077
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 9.43398 0 0 9.43398
31 Divided Measured dok-like protein. [refseq;acc:nm_024872] 0.00001 35 3500000
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 895.697 1834.63 1 2.04827
Ranked leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735] 5266.67 8082.33 0 1.53462
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] 243.677 187.458 1 1.2999
Squared beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 25146.6 9924.76 2.53372
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 103.726 5.54059 0 18.7211
Rooted potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 27.8029 12.1655 2.28539
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] 43.1914 26.0288 1 1.65937
Subtracted Measured melanoma antigen, family b, 6. [refseq;acc:nm_173523] 18263 23693.7 5430.7
spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] 2637 1833 0 804
Ranked guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 336.075 267.14 1 68.935
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 6248 11627 0 5379
Squared 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 192141 106226 1 85915
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 27772 35446.2 0 7674.2
Rooted homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 9.43398 0 9.43398
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 58.7986 40.0958 1 18.7028
32 Divided Measured cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] 184 598 0 3.25
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 895.893 1834.73 1 2.04793
Ranked importin 9. [refseq;acc:nm_018085] 8691.76 13292.2 0 1.52929
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] 243.673 187.462 1 1.29985

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/