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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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 Gene Hugo description Network Comparison Type Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 4914 to 4963 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
network_comparison
green
2457 ZBTB7B kruppel-related zinc finger protein hckrox. [refseq;acc:nm_015872] Subtracted 206.088 0.668 206.756
2458 PEX7 peroxisomal targeting signal 2 receptor (pts2 receptor) (peroxin-7). [swissprot;acc:o00628] 206.084 206.752
SLC13A2 solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] Divided 204.683 1.00314 205.326
2459 CDS1 phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903] 204.653 1.00309 205.286
NSF vesicle-fusing atpase (ec 3.6.4.6) (vesicular-fusion protein nsf) (n- ethylmaleimide sensitive fusion protein) (nem-sensitive fusion protein). [swissprot;acc:p46459] Subtracted 213.588 0.668 212.92
2460 no value pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790] Divided 235.812 1.00308 235.088
ZBTB20 zinc finger protein 288 (dendritic-derived btb/poz zinc finger protein). [swissprot;acc:q9hc78] Subtracted 206.086 0.667 206.753
2461 NOB1 nin one binding protein; adenocarcinoma antigen recognized by t lymphocytes 4. [refseq;acc:nm_014062] 231.414 0.654 230.76
SLC20A2 solute carrier family 20 (phosphate transporter), member 2; glvr-2; pit-2; gibbon ape leukemia virus receptor 2; murine leukemia virus, amphotropic; receptor. [refseq;acc:nm_006749] Divided 235.812 1.00308 235.088
2462 FDPS farnesyl pyrophosphate synthetase (fpp synthetase) (fps) (farnesyl diphosphate synthetase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10)]. [swissprot;acc:p14324]
TNS3 tumor endothelial marker 6; thyroid specific ptb domain protein; tensin 3. [refseq;acc:nm_022748] Subtracted 218.218 0.654 217.564
2463 CDS2 phosphatidate cytidylyltransferase 2 (ec 2.7.7.41) (cdp-diglyceride synthetase 2) (cdp-diglyceride pyrophosphorylase 2) (cdp- diacylglycerol synthase 2) (cds 2) (ctp:phosphatidate cytidylyltransferase 2) (cdp-dag synthase 2) (cdp-dg synthetase 2). [swissprot;acc:o95674] 204.717 205.371
PCDH15 protocadherin 15 precursor. [swissprot;acc:q96qu1] Divided 235.812 1.00308 235.088
2464 MAPK8IP3 c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6] Subtracted 218.644 0.653 217.991
SLC20A1 solute carrier family 20 (phosphate transporter), member 1; glvr-1; pit-1; gibbon ape leukemia virus receptor 1. [refseq;acc:nm_005415] Divided 235.812 1.00308 235.088
2465 LMBR1L lipocalin-interacting membrane receptor. [refseq;acc:nm_018113]
TENC1 c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319] Subtracted 218.219 0.648 217.571
2466 GLI1 zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [swissprot;acc:p08151] Divided 235.812 1.00308 235.088
PSMC3 26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [swissprot;acc:p17980] Subtracted 216.64 0.645 217.285
2467 SCAMP2 secretory carrier-associated membrane protein 2. [swissprot;acc:o15127] 204.688 205.333
SUFU suppressor of fused. [refseq;acc:nm_016169] Divided 235.812 1.00308 235.088
2468 GLI3 zinc finger protein gli3. [swissprot;acc:p10071]
SCAMP3 secretory carrier-associated membrane protein 3. [swissprot;acc:o14828] Subtracted 204.688 0.645 205.333
2469 LMBR1 limb region 1 protein; limb region 1. [refseq;acc:nm_022458] Divided 235.812 1.00308 235.088
SCAMP1 secretory carrier-associated membrane protein 1. [swissprot;acc:o15126] Subtracted 204.688 0.644 205.332
2470 PGC gastricsin precursor (ec 3.4.23.3) (pepsinogen c). [swissprot;acc:p20142] Divided 235.812 1.00308 235.088
SLC13A4 solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4] Subtracted 204.683 0.643 205.326
2471 GLI2 zinc finger protein gli2 (tax helper protein). [swissprot;acc:p10070] Divided 235.812 1.00308 235.088
SLC13A3 solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9] Subtracted 204.683 0.643 205.326
2472 SLC13A1 solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2]
TNS3 tumor endothelial marker 6; thyroid specific ptb domain protein; tensin 3. [refseq;acc:nm_022748] Divided 218.218 1.00301 217.564
2473 MAPK8IP3 c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6] 218.644 1.003 217.991
SLC13A2 solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] Subtracted 204.683 0.643 205.326
2474 CDS1 phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903] 204.653 0.633 205.286
PSMC3 26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [swissprot;acc:p17980] Divided 216.64 1.00298 217.285
2475 TENC1 c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319] 218.219 217.571
XYLB xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108] Subtracted 211.205 0.628 210.577
2476 PRR5 rho-gtpase-activating protein 8. [swissprot;acc:q9nsg0] 218.093 0.627 218.72
XYLB xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108] Divided 211.205 1.00298 210.577
2477 ARHGAP1 rho-gtpase-activating protein 1 (gtpase-activating protein rhoogap) (rho-related small gtpase protein activator) (cdc42 gtpase-activating protein) (p50-rhogap). [swissprot;acc:q07960] Subtracted 218.093 0.627 218.72
MRPL30 mitochondrial ribosomal protein l30 isoform a. [refseq;acc:nm_145212] Divided 216.177 1.00289 216.801
2478 KLC2 kinesin light chain 2 (klc 2). [swissprot;acc:q9h0b6] Subtracted 218.093 0.627 218.72
PSMC6 26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524] Divided 216.177 1.00289 216.801
2479 KIF5B kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [swissprot;acc:p33176] Subtracted 218.093 0.627 218.72
PRR5 rho-gtpase-activating protein 8. [swissprot;acc:q9nsg0] Divided 1.00287
2480 ARHGAP1 rho-gtpase-activating protein 1 (gtpase-activating protein rhoogap) (rho-related small gtpase protein activator) (cdc42 gtpase-activating protein) (p50-rhogap). [swissprot;acc:q07960]
KIF5C kinesin heavy chain isoform 5c (kinesin heavy chain neuron-specific 2). [swissprot;acc:o60282] Subtracted 0.627
2481 KIF5A neuronal kinesin heavy chain (nkhc) (kinesin heavy chain isoform 5a) (kinesin heavy chain neuron-specific 1). [swissprot;acc:q12840]
KLC2 kinesin light chain 2 (klc 2). [swissprot;acc:q9h0b6] Divided 1.00287
2482 KIF5B kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [swissprot;acc:p33176]

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
- Hugo is the HGNC identifier if it exists
- 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/