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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Gene Rank description Network Comparison Type Value Type Interaction Map green Filtered network_comparison red
Results: HTML CSV LaTeX Showing element 501 to 550 of 66312 in total
Filtered  : 1
Rank
description
Network Comparison Type
Value Type
Interaction Map
green
network_comparison
red
32 guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] Subtracted Ranked High confidence 336.074 68.932 267.142
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] Divided Measured 895.893 2.04793 1834.73
implantation-associated protein. [refseq;acc:nm_032121] Subtracted Low confidence 5058.5 1780.5 3278
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Divided Squared 61881.5 1.33073 82347.8
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Subtracted Measured High confidence 18263 5430.7 23693.7
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Divided Rooted Low confidence 168.796 1.1597 145.551
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Measured 43368.8 1.19275 36360.3
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Subtracted Squared High confidence 192141 85915 106226
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Divided Ranked Low confidence 232.49 1.17505 273.188
regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924] Subtracted 219.841 27.927 247.768
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] Divided High confidence 243.673 1.29985 187.462
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Subtracted Rooted Low confidence 49.1529 10.7377 38.4152
33 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] Ranked 200.55 27.597 228.147
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Squared 56522.1 20794.2 77316.3
dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985] Divided Ranked 246.125 1.17068 210.241
guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] Subtracted High confidence 336.073 68.929 267.144
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Divided Measured 896.972 2.04611 1835.3
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Squared Low confidence 61881.5 1.33073 82347.8
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Subtracted Measured High confidence 18263 5430.7 23693.7
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Squared 192141 85915 106226
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Rooted 43.561 17.8623 25.6987
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Divided 43.1914 1.65937 26.0288
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Low confidence 88.6244 1.15738 76.5734
septin 6. [swissprot;acc:q14141] Subtracted Measured 14773.7 1767.9 13005.8
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154] Divided Ranked High confidence 242.742 1.28647 188.688
spermatogenesis associated 6. [refseq;acc:nm_019073] Squared 25146.6 2.53372 9924.76
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Subtracted Rooted Low confidence 49.2633 10.6955 38.5678
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Divided Measured 43368.8 1.19275 36360.3
34 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] Squared High confidence 25146.6 2.53372 9924.76
bcl2-related ovarian killer. [refseq;acc:nm_032515] Subtracted Rooted Low confidence 61.2591 10.6492 50.6099
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Measured 7251 1758.96 5492.04
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Rooted High confidence 122.878 17.63 140.508
glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] Ranked Low confidence 200.532 26.839 227.371
guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] High confidence 336.073 68.929 267.144
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] Divided Measured 907.546 2.02382 1836.71
Rooted 24.3678 1.65305 40.2812
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Subtracted Squared Low confidence 61881.5 20466.3 82347.8
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Divided 1.33073
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Subtracted Measured High confidence 18263 5430.7 23693.7
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Squared 192141 85915 106226
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Divided Measured Low confidence 6352.4 1.1897 5339.5
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Ranked 133.876 1.16197 155.56
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Rooted 56.755 1.15698 49.0544
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] Ranked High confidence 242.453 1.28235 189.07
35 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Squared 192141 1.80879 106226
apg3p; pc3-96 protein. [refseq;acc:nm_022488] Subtracted Rooted 122.878 17.63 140.508
cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Ranked Low confidence 240.822 26.626 267.448
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Divided Measured 39358.1 1.18866 33111.4
guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] Subtracted Ranked High confidence 335.359 67.723 267.636
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] Divided Measured 907.564 2.02378 1836.71

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/