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 Network Comparison Type description Value Type Filtered Interaction Map network_comparison red green
Results: HTML CSV LaTeX Showing element 551 to 600 of 77072 in total
Rank
Network Comparison Type
description
Value Type
Filtered
Interaction Map
network_comparison
red
green
18 Divided camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] Rooted 0 Low confidence 2.28266 9.94987 4.3589
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Measured 1 1.32027 5492.04 7251
dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Rooted High confidence 1.72261 21.4476 36.9459
early hematopoietic zinc finger. [refseq;acc:nm_015461] Ranked 0 Low confidence 1.52187 5850.23 8903.28
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] High confidence 1.68629 22286 13216
jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433] 1 Low confidence 1.2352 305.303 247.169
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Squared 1.42416 332411 473408
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Rooted 1.25937 44.4168 55.937
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] Measured High confidence 2.75351 677.5 1865.5
Squared 7.58176 108.641 823.69
Subtracted anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5] Measured 0 1244.3 15411.3 14167
clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675] Squared 13265.1 43393.5 56658.6
cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] Rooted 1 21.035 203.673 182.638
elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] Ranked 0 Low confidence 4611.4 16116.4 11505
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] High confidence 6668.71 7509.39 14178.1
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 1 69.316 266.865 336.181
homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719] Measured Low confidence 2108.6 15464.1 17572.7
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] Rooted 0 9.43398 0 9.43398
homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016] Squared 1 37292 122475 159767
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] High confidence 89286 219048 129762
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Measured 6086.8 24255.7 18168.9
mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 0 Low confidence 801 859 58
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Ranked 1 40.698 273.188 232.49
transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] Rooted 0 High confidence 12.4097 12.4097 0
trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] 1 Low confidence 15.7049 32.2231 47.928
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Squared 0 8769.19 9955.21 18724.4
19 Divided 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] Measured High confidence 11.6763 305.45 26.1599
1 Low confidence 1.29112 3032.56 3915.4
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 0 4.3268 153 662
glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Ranked 1 High confidence 1.32082 185.678 245.247
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0 1.68629 22286 13216
l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338] Rooted Low confidence 2.15887 3.94084 8.50775
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] High confidence 6.52932 9.20014 60.0707
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] Measured 1 2.75351 677.5 1865.5
Squared 7.58176 108.641 823.69
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Ranked 0 Low confidence 1.5182 3208.8 4871.6
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] Squared 22.6931 6.25494 141.944
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Rooted 1 1.24916 53.5555 66.8994
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] High confidence 1.69507 25.6987 43.561
serpin b12. [swissprot;acc:q96p63] Squared 0 813.196 23.5744 0.0289898
trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] Ranked 1 Low confidence 1.23387 304.548 246.824
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Squared 1.42416 332411 473408
Subtracted alpha 2 globin. [refseq;acc:nm_000517] Ranked 0 4500.9 11486.2 15987.1
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Measured 1 High confidence 6085.1 24250 18164.9
cytohesin 4. [swissprot;acc:q9uia0] Rooted 21.035 203.673 182.638
dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] Measured 0 1211 1593 2804
fos-related antigen 2. [swissprot;acc:p15408] Low confidence 798.71 3205.98 2407.27
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] Ranked 1 High confidence 69.313 266.865 336.178
histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773] Low confidence 40.211 188.298 228.509
homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] Measured 2108.6 15464.1 17572.7

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/