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.


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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 601 to 650 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
301 beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] High confidence 150.982 166.372 1.10193
large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5] Low confidence 205.154 196.72 1.04287
302 60s ribosomal protein l26. [swissprot;acc:q02877] High confidence 242.326 267.008 1.10185
xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736] Low confidence 209.12 200.548 1.04274
303 60s ribosomal protein l35. [swissprot;acc:p42766] High confidence 242.333 266.999 1.10179
homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] Low confidence 210.057 201.45 1.04273
304 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] High confidence 242.339 266.986 1.1017
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Low confidence 209.232 200.662 1.04271
305 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 210.05 201.454 1.04267
mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] High confidence 242.339 266.986 1.1017
306 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 242.153 266.673 1.10126
small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356] Low confidence 202.122 193.867 1.04258
307 phosphorylase b kinase gamma catalytic chain, skeletal muscle isoform (ec 2.7.1.38) (phosphorylase kinase gamma subunit 1). [swissprot;acc:q16816] 217.957 227.209 1.04245
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] High confidence 242.153 266.673 1.10126
308 60s ribosomal protein l34. [swissprot;acc:p49207]
homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] Low confidence 210.018 201.475 1.0424
309 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 200.213 192.103 1.04222
protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] High confidence 242.153 266.673 1.10126
310 nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795] Low confidence 205.75 197.484 1.04186
protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] High confidence 242.153 266.673 1.10126
311 protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] 242.627 267.151 1.10108
ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968] Low confidence 192.088 184.374 1.04184
312 60s ribosomal protein l3-like. [swissprot;acc:q92901] High confidence 242.195 266.663 1.10103
u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661] Low confidence 202.051 193.937 1.04184
313 ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] 202.05 193.94 1.04182
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] High confidence 232.473 211.207 1.10069
314 methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] 244.126 268.604 1.10027
splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] Low confidence 202.057 193.952 1.04179
315 methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579] High confidence 244.126 268.604 1.10027
tankyrase 1 (ec 2.4.2.30) (tank1) (tankyrase i) (tnks-1) (trf1- interacting ankyrin-related adp-ribose polymerase). [swissprot;acc:o95271] Low confidence 214.067 205.509 1.04164
316 potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389] 209.583 201.251 1.0414
protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] High confidence 242.694 267.017 1.10022
317 potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470] Low confidence 209.58 201.251 1.04139
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] High confidence 224.445 204.044 1.09998
318 mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001] 242.011 266.18 1.09987
potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459] Low confidence 209.579 201.251 1.04138
319 60s ribosomal protein l19. [swissprot;acc:p14118] High confidence 240.73 264.729 1.09969
heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082] Low confidence 212.752 204.328 1.04123
320 epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830] High confidence 241.892 265.96 1.0995
phosphorylase b kinase gamma catalytic chain, testis/liver isoform (ec 2.7.1.38) (phk-gamma-t) (phosphorylase kinase gamma subunit 2) (psk-c3). [swissprot;acc:p15735] Low confidence 217.756 226.722 1.04117
321 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] High confidence 241.892 265.959 1.09949
glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5] Low confidence 207.402 199.219 1.04108
322 cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [refseq;acc:nm_007006] 212.262 203.991 1.04055
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] High confidence 86.7483 78.8995 1.09948
323 60s ribosomal protein l23a. [swissprot;acc:p29316] 241.884 265.945 1.09947
integrin beta-1 binding protein 2 (melusin) (mstp015). [swissprot;acc:q9ukp3] Low confidence 212.262 203.991 1.04055
324 40s ribosomal protein s23. [swissprot;acc:p39028] High confidence 243.944 268.195 1.09941
rab3 gtpase-activating protein, non-catalytic subunit. [refseq;acc:nm_012414] Low confidence 212.262 203.991 1.04055
325 28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235] High confidence 243.944 268.195 1.09941
source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862] Low confidence 199.905 192.123 1.04051

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/