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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Rank Gene Hugo Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 917 to 966 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
230 CSRP1 Ranked cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 239.35 267.915 1.11934
MYH1 Measured myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] 9035 7279.6 1.24114
NDN Rooted necdin. [swissprot;acc:q99608] 137.446 120.823 1.13758
SPHK1 Squared sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [swissprot;acc:q9nya1] 42411.6 55802.1 1.31573
231 no value Measured myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 9035 7279.6 1.24114
DPAGT1 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
MAGED1 Rooted melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 137.446 120.823 1.13758
SHCBP1 Ranked likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] 239.336 267.881 1.11927
232 CSRP2 smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] 267.879 1.11926
DLC1 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
MAGEF1 Rooted melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 137.446 120.823 1.13758
MYH7B Measured dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 9035 7279.6 1.24114
233 CSRP3 Ranked lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 239.32 267.842 1.11918
MAGEB6B Rooted melanoma antigen, family b, 6. [refseq;acc:nm_173523] 137.446 120.823 1.13758
MAPKAPK2 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
MYH13 Measured myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] 9035 7279.6 1.24114
234 no value Rooted melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 137.446 120.823 1.13758
CHRAC1 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
CHRNA6 Squared neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825] 42411.6 55802.1 1.31573
RPS6KC1 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
235 no value ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
ISCU Squared nitrogen fixation cluster-like. [refseq;acc:nm_014301] 42411.6 55802.1 1.31573
MAGEA9 Rooted melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 137.446 120.823 1.13758
PAH Ranked phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439] 227.357 254.15 1.11785
236 DUS1L pp3111 protein. [refseq;acc:nm_022156]
MAGEA8 Rooted melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 137.446 120.823 1.13758
STARD13 Squared star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8] 42411.6 55802.1 1.31573
TXNL4A 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
237 LSM5 u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 4567.04 5631.2 1.23301
MAGEC1 Rooted melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 137.446 120.823 1.13758
STARD8 Squared star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502] 42411.6 55802.1 1.31573
STX18 Ranked syntaxin 18. [swissprot;acc:q9p2w9] 227.357 254.15 1.11785
238 no value rd protein. [swissprot;acc:p18615]
CHRNA2 Squared neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822] 42411.6 55802.1 1.31573
MAGEA4 Rooted melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 137.446 120.823 1.13758
PPP1R7 Measured protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 27642.5 22440.4 1.23182
239 no value Rooted melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 137.446 120.823 1.13758
CPA6 Measured carboxypeptidase b precursor. [refseq;acc:nm_020361] 7711.38 6265.8 1.23071
GSTO1 Ranked glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 227.357 254.15 1.11785
MAPKAPK3 Squared mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635] 42411.6 55802.1 1.31573
240 AIG1 Ranked androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] 227.357 254.15 1.11785
CPA3 Measured mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] 7711.36 6265.79 1.23071
MAGEA10 Rooted melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 137.446 120.823 1.13758
MAPK14 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
241 ATP5F1 Ranked atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] 227.357 254.15 1.11785
CHRNA4 Squared neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681] 42411.6 55802.1 1.31573
CPB2 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
MAGEB4 Rooted melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 137.446 120.823 1.13758
242 CHRNA3 Squared neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297] 42411.6 55802.1 1.31573
DNAJC12 Ranked j domain containing protein 1. [swissprot;acc:q9ukb3] 227.357 254.15 1.11785

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
- Hugo is the HGNC identifier if it exists
- 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/