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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 912 to 961 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
228 Rooted hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 137.446 120.823 1.13758
229 Measured myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] 9035 7279.6 1.24114
Ranked breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 226.401 202.094 1.12028
Squared mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [swissprot;acc:p53778] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 137.446 120.823 1.13758
230 Measured myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] 9035 7279.6 1.24114
Ranked cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 239.35 267.915 1.11934
Squared sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1] 42411.6 55802.1 1.31573
Rooted necdin. [swissprot;acc:q99608] 137.446 120.823 1.13758
231 Measured myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 9035 7279.6 1.24114
Ranked likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] 239.336 267.881 1.11927
Squared udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [swissprot;acc:q9h3h5] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 137.446 120.823 1.13758
232 Measured dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 9035 7279.6 1.24114
Ranked smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] 239.336 267.879 1.11926
Squared rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [swissprot;acc:q96qb1] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 137.446 120.823 1.13758
233 Measured myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] 9035 7279.6 1.24114
Ranked lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 239.32 267.842 1.11918
Squared map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137] 42411.6 55802.1 1.31573
Rooted melanoma antigen, family b, 6. [refseq;acc:nm_173523] 137.446 120.823 1.13758
234 Measured ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] 5181.2 6410.58 1.23728
Ranked chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 287.41 256.835 1.11905
Squared neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 137.446 120.823 1.13758
235 Measured ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 5181.2 6410.58 1.23728
Ranked phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439] 227.357 254.15 1.11785
Squared nitrogen fixation cluster-like. [refseq;acc:nm_014301] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 137.446 120.823 1.13758
236 Measured spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] 4723.53 5828.46 1.23392
Ranked pp3111 protein. [refseq;acc:nm_022156] 227.357 254.15 1.11785
Squared star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 137.446 120.823 1.13758
237 Measured u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 4567.04 5631.2 1.23301
Ranked syntaxin 18. [swissprot;acc:q9p2w9] 227.357 254.15 1.11785
Squared star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 137.446 120.823 1.13758
238 Measured protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 27642.5 22440.4 1.23182
Ranked rd protein. [swissprot;acc:p18615] 227.357 254.15 1.11785
Squared neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 137.446 120.823 1.13758
239 Measured carboxypeptidase b precursor. [refseq;acc:nm_020361] 7711.38 6265.8 1.23071
Ranked glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 227.357 254.15 1.11785
Squared mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 137.446 120.823 1.13758
240 Measured mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] 7711.36 6265.79 1.23071
Ranked androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] 227.357 254.15 1.11785
Squared mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [swissprot;acc:q16539] 42411.6 55802.1 1.31573
Rooted melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 137.446 120.823 1.13758
241 Measured plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872] 7711.31 6265.76 1.23071

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/