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.


Navigation/Query Panel:
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 Value Type Gene description Network Comparison Type Filtered Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 4158 to 4207 of 25824 in total
Filtered  : 1
Interaction Map  : High confidence
Rank
Value Type
description
Network Comparison Type
red
green
network_comparison
520 Squared paxillin. [swissprot;acc:p49023] Divided 22387.1 26827.3 1.19834
Rooted breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872] 61.1902 66.6503 1.08923
cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493] Subtracted 93.5619 88.4001 5.1618
521 Measured probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] 6143.52 6950.75 807.23
u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] Divided 5390.78 6142.07 1.13937
Ranked exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3] 215.237 230.07 1.06891
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Subtracted 218.702 204.582 14.12
Squared carboxypeptidase a5. [refseq;acc:nm_080385] Divided 53174 44377.4 1.19822
keratin associated protein 1.5. [refseq;acc:nm_031957] Subtracted 31100.2 36086.5 4986.3
Rooted cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253] Divided 61.1902 66.6503 1.08923
nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182] Subtracted 49.5225 54.6817 5.1592
522 Measured calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194] 6148.94 6955.76 806.82
glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] Divided 9634.98 10976.2 1.1392
Ranked pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] 222.893 208.523 1.06891
splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519] Subtracted 229.709 215.631 14.078
Squared carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086] Divided 53174 44377.4 1.19822
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] Subtracted 31100.1 36086.4 4986.3
Rooted dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864] 51.7959 56.9253 5.1294
septin 10 isoform 1. [refseq;acc:nm_144710] Divided 113.733 123.871 1.08914
523 Measured aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] 10640.2 12117.8 1.13887
dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762] Subtracted 5865.79 6671.23 805.44
Ranked exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868] Divided 215.237 230.07 1.06891
histone h2b.c (h2b/c). [swissprot;acc:q99880] Subtracted 247.47 233.441 14.029
Squared keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690] 31100.2 36086.5 4986.3
neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837] Divided 53174 44377.4 1.19822
Rooted ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921] 66.377 72.2842 1.08899
zinc finger-like protein 9. [refseq;acc:nm_033414] Subtracted 49.3451 54.4606 5.1155
524 Measured aquaporin 5. [swissprot;acc:p55064] Divided 10640 12117.6 1.13887
nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] Subtracted 5206.9 6010.04 803.14
Ranked exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5] Divided 215.237 230.07 1.06891
histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778] Subtracted 247.47 233.441 14.029
Squared aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154] Divided 53174 44377.4 1.19822
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] Subtracted 31100.2 36086.5 4986.3
Rooted brain protein 44. [swissprot;acc:o95563] Divided 113.374 123.463 1.08899
membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9] Subtracted 49.3451 54.4606 5.1155
525 Measured lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] Divided 10639.8 12117.3 1.13887
nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5] Subtracted 5207.03 6010.1 803.07
Ranked exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4] Divided 215.237 230.07 1.06891
histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106] Subtracted 247.47 233.441 14.029
Squared carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] Divided 53174 44377.4 1.19822
star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2] Subtracted 31100.1 36086.4 4986.3
Rooted guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915] 49.3451 54.4606 5.1155
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Divided 113.374 123.463 1.08899
526 Measured aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] 10639.9 12117.4 1.13886
nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [swissprot;acc:q9ubu9] Subtracted 5207.78 6010.45 802.67
Ranked histone h2b. [refseq;acc:nm_175055] 247.47 233.441 14.029
nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182] Divided 250.538 234.401 1.06884
Squared electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117] 31189.6 37352.8 1.1976
keratin associated protein 4.4. [refseq;acc:nm_032524] Subtracted 31100.2 36086.5 4986.3
Rooted atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] 49.0882 54.2027 5.1145

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/