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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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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 5308 to 5357 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
2654 cytoskeleton related vitamin a responsive protein; glutamate transporter eeac1-associated protein; dermal papilla derived protein 11; putative mapk activating protein pm27. [refseq;acc:nm_006407] Divided 7118.22 7055.43 1.0089
2655 nf-kappab inhibitor epsilon (nf-kappa-bie) (i-kappa-b-epsilon) (ikappabepsilon) (ikb-epsilon) (ikbe). [swissprot;acc:o00221] 8290.91 8220.11 1.00861
rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513] Subtracted 5339.06 5395.25 56.19
2656 iron-responsive element binding protein 1 (ire-bp 1) (iron regulatory protein 1) (irp1) (ferritin repressor protein) (aconitate hydratase) (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:p21399] 8222.61 8169.38 53.23
zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596] Divided 4191.15 4226.86 1.00852
2657 dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [swissprot;acc:q9h1d9] Subtracted 4000.73 3947.54 53.19
sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7] Divided 5327.58 5371.47 1.00824
2658 b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749] 8278.73 8211.05
ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [refseq;acc:nm_016183] Subtracted 3640.58 3688.96 48.38
2659 mct-1 protein. [refseq;acc:nm_014060] 4778.28 4732.13 46.15
nuclear factor nf-kappa-b p105 subunit (dna-binding factor kbf1) (ebp- 1) [contains: nuclear factor nf-kappa-b p50 subunit]. [swissprot;acc:p19838] Divided 8277.7 8210.29 1.00821
2660 mitochondrial ribosomal protein l22. [refseq;acc:nm_014180] Subtracted 4778.28 4732.13 46.15
nf-kappab inhibitor beta (nf-kappa-bib) (i-kappa-b-beta) (ikappabbeta) (ikb-beta) (ikb-b) (thyroid receptor interacting protein 9) (tr- interacting protein 9). [swissprot;acc:q15653] Divided 8277.6 8210.21 1.00821
2661 nuclear factor nf-kappa-b p100/p49 subunits (h2tf1) (oncogene lyt-10) (lyt10) [contains: nuclear factor nf-kappa-b p52 subunit]. [swissprot;acc:q00653] 8277.66 8210.26
sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7] Subtracted 5327.58 5371.47 43.89
2662 60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 7780.98 7741.14 39.84
dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9] Divided 4300.46 4334.66 1.00795
2663 microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] 4608.54 4576.35 1.00703
sin3 associated polypeptide p30; sin3-associated polypeptide, 30kd. [refseq;acc:nm_003864] Subtracted 7780.98 7741.14 39.84
2664 bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001] Divided 4608.91 4576.78 1.00702
clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172] Subtracted 7780.98 7741.14 39.84
2665 anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5] Divided 8936.97 8999.55 1.007
atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [refseq;acc:nm_033450] Subtracted 7780.98 7741.14 39.84
2666 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] Divided 4591.08 4621.88 1.00671
lysosomal alpha-mannosidase precursor (ec 3.2.1.24) (mannosidase, alpha b) (lysosomal acid alpha-mannosidase) (laman) (mannosidase alpha class 2b member 1). [swissprot;acc:o00754] Subtracted 7780.98 7741.14 39.84
2667 dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [swissprot;acc:p52436] Divided 4071.9 4099.01 1.00666
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] Subtracted 7780.98 7741.14 39.84
2668 iron-responsive element binding protein 1 (ire-bp 1) (iron regulatory protein 1) (irp1) (ferritin repressor protein) (aconitate hydratase) (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:p21399] Divided 8222.61 8169.38 1.00652
ubiquitin-specific protease otubain 2. [refseq;acc:nm_023112] Subtracted 7350.69 7390.45 39.76
2669 dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743] Divided 4336.58 4310.3 1.0061
zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596] Subtracted 4191.15 4226.86 35.71
2670 creatine kinase, sarcomeric mitochondrial precursor (ec 2.7.3.2) (s- mtck) (mib-ck) (basic-type mitochondrial creatine kinase). [swissprot;acc:p17540] 8971.66 9006.92 35.26
dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159] Divided 4336.62 4310.35 1.00609
2671 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] Subtracted 8972.87 9007.71 34.84
muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446] Divided 4338.79 4313.52 1.00586
2672 dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [swissprot;acc:p28715] Subtracted 3377.01 3411.47 34.46
ubiquitin-specific protease otubain 2. [refseq;acc:nm_023112] Divided 7350.69 7390.45 1.00541
2673 60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 7780.98 7741.14 1.00515
dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9] Subtracted 4300.46 4334.66 34.2
2674 creatine kinase, m chain (ec 2.7.3.2) (m-ck). [swissprot;acc:p06732] 8980.12 9013.33 33.21
sin3 associated polypeptide p30; sin3-associated polypeptide, 30kd. [refseq;acc:nm_003864] Divided 7780.98 7741.14 1.00515
2675 clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172]
peptidyl prolyl isomerase h; cyclophilin h. [refseq;acc:nm_006347] Subtracted 8979.61 9012.31 32.7
2676 atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [refseq;acc:nm_033450] Divided 7780.98 7741.14 1.00515
prp18 pre-mrna processing factor 18 homolog. [refseq;acc:nm_003675] Subtracted 8979.61 9012.31 32.7
2677 j domain protein c21orf55. [swissprot;acc:q9nx36] 8979.78 9012.42 32.64
lysosomal alpha-mannosidase precursor (ec 3.2.1.24) (mannosidase, alpha b) (lysosomal acid alpha-mannosidase) (laman) (mannosidase alpha class 2b member 1). [swissprot;acc:o00754] Divided 7780.98 7741.14 1.00515
2678 microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] Subtracted 4608.54 4576.35 32.19
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] Divided 7780.98 7741.14 1.00515
2679 bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001] Subtracted 4608.91 4576.78 32.13

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/