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 [...,...].
Gene Rank Value Type description Network Comparison Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1551 to 1600 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
Network Comparison Type
red
network_comparison
green
194 Rooted cyclin g2. [swissprot;acc:q16589] Subtracted 116.707 10.663 106.044
eap30 subunit of ell complex. [refseq;acc:nm_007241] Divided 59.6399 1.1486 51.9242
195 Measured cyclin g1 (cyclin g). [swissprot;acc:p51959] 17738.5 1.26743 13995.6
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Subtracted 3074.57 1492.94 4567.51
Ranked cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3] 241.373 25.979 267.352
huntingtin interacting protein c. [refseq;acc:nm_012272] Divided 227.971 1.13748 200.417
Squared neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825] Subtracted 42411.6 13390.5 55802.1
translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571] Divided 71062.4 1.34373 95488.9
Rooted cyclin g1 (cyclin g). [swissprot;acc:p51959] Subtracted 116.707 10.663 106.044
liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] Divided 59.6399 1.1486 51.9242
196 Measured aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] Subtracted 10640.2 1477.6 12117.8
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537] Divided 17738.5 1.26742 13995.7
Ranked forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 263.215 1.13745 231.407
hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] Subtracted 272.781 25.889 246.892
Squared calsyntenin-1 precursor. [swissprot;acc:o94985] Divided 71062.4 1.34373 95488.9
nitrogen fixation cluster-like. [refseq;acc:nm_014301] Subtracted 42411.6 13390.5 55802.1
Rooted glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329] Divided 59.6399 1.1486 51.9242
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172] Subtracted 116.707 10.663 106.044
197 Measured aquaporin 5. [swissprot;acc:p55064] 10640 1477.6 12117.6
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172] Divided 17738.5 1.26742 13995.7
Ranked 60s ribosomal protein l32. [swissprot;acc:p02433] Subtracted 241.13 25.839 266.969
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Divided 263.215 1.13745 231.407
Squared star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8] Subtracted 42411.6 13390.5 55802.1
succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] Divided 71062.4 1.34373 95488.9
Rooted gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 59.6399 1.1486 51.9242
luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] Subtracted 55.2859 10.6429 65.9288
198 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 1477.5 12117.4
b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] Divided 17710.9 1.26708 13977.7
Ranked 40s ribosomal protein s29. [swissprot;acc:p30054] Subtracted 241.849 25.793 267.642
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] Divided 263.191 1.13741 231.394
Squared protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467] 71062.2 1.34373 95488.6
star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502] Subtracted 42411.6 13390.5 55802.1
Rooted b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] 116.576 10.628 105.948
glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] Divided 59.6399 1.1486 51.9242
199 Measured lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] Subtracted 10639.8 1477.5 12117.3
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] Divided 4916.8 1.26455 3888.18
Ranked 40s ribosomal protein s11. [swissprot;acc:p04643] Subtracted 241.399 25.689 267.088
palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] Divided 242.735 1.13729 276.059
Squared neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822] Subtracted 42411.6 13390.5 55802.1
thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7] Divided 71062.2 1.34373 95488.6
Rooted luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Subtracted 55.297 10.6266 65.9236
source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862] Divided 61.2893 1.14842 70.3856
200 Measured aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972] Subtracted 10635.3 1476.1 12111.4
crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] Divided 4808.79 1.26315 6074.21
Ranked 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] Subtracted 241.808 25.527 267.335
egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] Divided 242.718 1.1372 276.018
Squared gk001 protein. [refseq;acc:nm_020198] 71062.2 1.34373 95488.6
mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635] Subtracted 42411.6 13390.5 55802.1
Rooted oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Divided 61.2893 1.14842 70.3856
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] Subtracted 63.5827 10.4971 53.0856

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/