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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Filtered Value Type Rank Gene description green Network Comparison Type Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 19268 in total
Filtered  : 1
Value Type  : Ranked
Rank
description
green
Network Comparison Type
Interaction Map
red
network_comparison
123 segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] 190.094 Divided Low confidence 202.96 1.06768
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 193.056 Subtracted High confidence 227.032 33.976
striatin. [swissprot;acc:o43815] 200.796 Low confidence 214.085 13.289
124 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 206.997 220.268 13.271
high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] 171.595 Divided High confidence 208.52 1.21519
natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281] 210.566 Low confidence 224.763 1.06742
presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 252.234 Subtracted High confidence 285.684 33.45
125 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 227.616 Divided Low confidence 213.243 1.0674
high-mobility group 20a. [refseq;acc:nm_018200] 171.778 High confidence 208.588 1.21429
prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490] 206.997 Subtracted Low confidence 220.268 13.271
s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991] 252.234 High confidence 285.684 33.45
126 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 114 Divided 94 1.21277
f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315] 252.234 Subtracted 285.684 33.45
lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 179.639 Divided Low confidence 191.688 1.06707
nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 213.661 Subtracted 226.892 13.231
127 adenomatous polyposis coli protein (apc protein). [swissprot;acc:p25054] 235.538 222.31 13.228
cullin homolog 2 (cul-2). [swissprot;acc:q13617] 252.234 High confidence 285.684 33.45
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 114 Divided 94 1.21277
vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267] 190.88 Low confidence 203.678 1.06705
128 adenomatous polyposis coli like. [refseq;acc:nm_005883] 235.547 Subtracted 222.34 13.207
associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 114 Divided High confidence 94 1.21277
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 252.234 Subtracted 285.684 33.45
striatin. [swissprot;acc:o43815] 200.796 Divided Low confidence 214.085 1.06618
129 cullin homolog 1 (cul-1). [swissprot;acc:q13616] 252.234 Subtracted High confidence 285.684 33.45
goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4] 235.572 Divided Low confidence 220.969 1.06609
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 114 High confidence 94 1.21277
transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995] 205.431 Subtracted Low confidence 218.561 13.13
130 neuronal protein np25. [swissprot;acc:q9ui15] 205.57 218.66 13.09
palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] 276.059 High confidence 242.735 33.324
protein hspc134 (protein cda04). [swissprot;acc:q9by43] 114 Divided 94 1.21277
striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166] 211.529 Low confidence 225.495 1.06602
131 egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] 276.018 Subtracted High confidence 242.718 33.3
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] 242.562 Divided 294.053 1.21228
striatin 4 (zinedin). [swissprot;acc:q9nrl3] 200.825 Low confidence 213.878 1.065
Subtracted 13.053
132 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 206.997 Divided 220.268 1.06411
dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 196.695 Subtracted High confidence 229.406 32.711
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 189.965 Low confidence 203.016 13.051
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 290 Divided High confidence 350 1.2069
133 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 194.72 Subtracted 226.887 32.167
prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490] 206.997 Divided Low confidence 220.268 1.06411
segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] 189.985 Subtracted 203.007 13.022
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 290 Divided High confidence 350 1.2069
134 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 194.79 Subtracted 226.884 32.094
transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995] 205.431 Divided Low confidence 218.561 1.06391
transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802] 205.4 Subtracted 218.36 12.96
135 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 290 Divided High confidence 350 1.2069
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 231.407 Subtracted 263.215 31.808
neuronal protein np25. [swissprot;acc:q9ui15] 205.57 Divided Low confidence 218.66 1.06368

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/