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 Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 6886 to 6935 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
1722 Ranked 40s ribosomal protein s13. [swissprot;acc:q02546] 220.899 223.813 1.01319
Squared ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9] 25925.4 28590.5 1.1028
Rooted fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [refseq;acc:nm_014281] 67.0685 69.2221 1.03211
1723 Measured cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517] 5458.12 5830.76 1.06827
Ranked putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544] 212.36 215.147 1.01312
Squared 60s ribosomal protein l7. [swissprot;acc:p18124] 14660 16166.6 1.10277
Rooted multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [swissprot;acc:q13155] 67.0685 69.2221 1.03211
1724 Measured mln64 n-terminal domain homolog (stard3 n-terminal like protein). [swissprot;acc:o95772] 5458.12 5830.76 1.06827
Ranked inositol polyphosphate multikinase. [refseq;acc:nm_152230] 217.676 220.53 1.01311
Squared dual specificity mitogen-activated protein kinase kinase 1 (ec 2.7.1.-) (map kinase kinase 1) (mapkk 1) (erk activator kinase 1) (mapk/erk kinase 1) (mek1). [swissprot;acc:q02750] 27318.5 30123.9 1.10269
Rooted elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576] 62.3398 64.3408 1.0321
1725 Measured glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744] 6051.06 6463.65 1.06818
Ranked afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [swissprot;acc:q9y4w6] 217.676 220.53 1.01311
Squared similar to kinase suppressor of ras (fragment). [sptrembl;acc:q8ivt5] 27318.5 30123.9 1.10269
Rooted centaurin gamma 2. [swissprot;acc:q9upq3] 61.1276 63.0891 1.03209
1726 Measured peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [swissprot;acc:o75521] 7048.79 7527.42 1.0679
Ranked alpha-(1,6)-fucosyltransferase (ec 2.4.1.68) (glycoprotein 6-alpha-l- fucosyltransferase) (gdp-fucose--glycoprotein fucosyltransferase) (gdp-l-fuc:n-acetyl-beta-d-glucosaminide alpha1,6-fucosyltransferase) (alpha1-6fuct) (fucosyltransferase 8). [swissprot;acc:q9byc5] 217.676 220.53 1.01311
Squared dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [swissprot;acc:p36507] 27318.5 30123.9 1.10269
Rooted general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [swissprot;acc:o60763] 61.1276 63.0891 1.03209
1727 Measured phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [swissprot;acc:q9nry7] 6260.43 6685.05 1.06783
Ranked inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218] 210.366 213.118 1.01308
Squared ras-related protein rab-37. [swissprot;acc:q96ax2] 13960 15382.4 1.10189
Rooted centaurin gamma 1. [swissprot;acc:q99490] 61.1276 63.0891 1.03209
1728 Measured ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6] 5475.44 5127.66 1.06782
Ranked inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [swissprot;acc:o14732] 210.358 213.103 1.01305
Squared ras-related protein rab-26. [swissprot;acc:q9ulw5] 13960 15382.4 1.10189
Rooted centaurin gamma 3. [swissprot;acc:q96p47] 61.1276 63.0891 1.03209
1729 Measured phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6] 6259.8 6684.31 1.06782
Ranked autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 187.582 190.028 1.01304
Squared dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387] 13960 15382.4 1.10189
Rooted protein 4.1 (band 4.1) (p4.1) (epb4.1) (4.1r). [swissprot;acc:p11171] 70.2384 72.4913 1.03208
1730 Measured phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [swissprot;acc:q9nrq2] 6259.8 6684.3 1.06781
Ranked chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60] 215.336 212.567 1.01303
Squared structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945] 18074.5 19915.8 1.10187
Rooted spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6] 70.2391 72.4922 1.03208
1731 Measured lamin b2. [swissprot;acc:q03252] 5840.77 6236.53 1.06776
Ranked aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [refseq;acc:nm_052853] 215.336 212.567 1.01303
Squared sr rich protein. [refseq;acc:nm_032870] 35530.1 32245.4 1.10187
Rooted band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2] 70.2389 72.4919 1.03208
1732 Measured proteasome subunit beta type 7 precursor (ec 3.4.25.1) (proteasome subunit z) (macropain chain z) (multicatalytic endopeptidase complex chain z). [swissprot;acc:q99436] 5781.8 6173.1 1.06768
Ranked aarf domain containing kinase 4. [refseq;acc:nm_024876] 215.336 212.567 1.01303
Squared chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192] 18074.5 19915.8 1.10187
Rooted band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491] 70.2384 72.4914 1.03208
1733 Measured elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720] 5874.83 6272.26 1.06765
Ranked aarf domain containing kinase 1. [refseq;acc:nm_020421] 215.336 212.567 1.01303
Squared mitogen-activated protein kinase kinase kinase 7 interacting protein 1 (tak1-binding protein 1). [swissprot;acc:q15750] 28523.1 31428.2 1.10185
Rooted 45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5] 70.2391 72.4922 1.03208
1734 Measured zinc-finger protein zpr1 (zinc finger protein 259). [swissprot;acc:o75312] 5874.83 6272.26 1.06765
Ranked nucleolar protein family a, member 2; component of the h/aca snornp. [refseq;acc:nm_017838] 221.921 219.081 1.01296
Squared hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 26278.9 28944.8 1.10145

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/