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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 825 to 874 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
207 dc11 protein. [refseq;acc:nm_020186] Divided 0 7479 6716 1.11361
eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] Subtracted 1 237.312 212.363 24.949
presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] Divided 285.684 252.234 1.13261
suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] Subtracted 0 11064.2 9897.84 1166.36
208 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 1 240.782 265.717 24.935
c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] Divided 0 11846.3 10638.4 1.11354
protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] Subtracted 19939 18778 1161
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] Divided 1 285.684 252.234 1.13261
209 brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567] Subtracted 240.782 265.717 24.935
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] Divided 285.684 252.234 1.13261
small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578] 0 775 696 1.11351
tigger transposable element derived 6. [refseq;acc:nm_030953] Subtracted 12360 11200.2 1159.8
210 cullin homolog 2 (cul-2). [swissprot;acc:q13617] Divided 1 285.684 252.234 1.13261
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 0 17144.8 15405.6 1.11289
rna-binding protein. [refseq;acc:nm_019027] Subtracted 1 237.302 212.41 24.892
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] 0 12364.7 11207.7 1157
211 apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 1 237.302 212.41 24.892
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Divided 285.684 252.234 1.13261
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 0 10367 9320.25 1.11231
tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] Subtracted 12364.8 11207.9 1156.9
212 cullin homolog 1 (cul-1). [swissprot;acc:q13616] Divided 1 285.684 252.234 1.13261
kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] Subtracted 0 12394.7 11240.2 1154.5
metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832] Divided 18241.7 16405 1.11196
ns1-associated protein 1. [refseq;acc:nm_006372] Subtracted 1 237.302 212.41 24.892
213 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 0 11867.6 13019 1151.4
heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] 1 237.302 212.41 24.892
pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] Divided 210.693 186.95 1.127
protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] 0 9379.47 8436.39 1.11179
214 lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 1 191.644 170.192 1.12605
mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] Subtracted 241.282 266.12 24.838
probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879] Divided 0 7621.99 8473.85 1.11176
tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] Subtracted 14898.9 16041.6 1142.7
215 eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637] 1 237.292 212.457 24.835
myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] Divided 112 126 1.125
myosin vi. [swissprot;acc:q9um54] 0 10121.5 11250.5 1.11154
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Subtracted 7955.61 6817.49 1138.12
216 high mobility group protein 1 (hmg-1). [swissprot;acc:p09429] 5677.96 4546.87 1131.09
maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] Divided 10559.7 11732 1.11102
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] 1 112 126 1.125
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Subtracted 226.471 201.769 24.702
217 60s ribosomal protein l26. [swissprot;acc:q02877] 242.326 267.008 24.682
baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392] Divided 0 7101.79 6406.18 1.10858
dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4] Subtracted 5677.89 4547.43 1130.46
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] Divided 1 112 126 1.125
218 60s ribosomal protein l35. [swissprot;acc:p42766] Subtracted 242.333 266.999 24.666
high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6] 0 5677.86 4547.66 1130.2
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Divided 19355 17469.2 1.10795
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] 1 112 126 1.125
219 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] Subtracted 242.339 266.986 24.647
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] Divided 112 126 1.125

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/