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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 582 to 631 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
291 NFYB nuclear transcription factor y subunit beta (nf-y protein chain b) (nf-yb) (ccaat-binding transcription factor subunit a) (cbf-a) (caat- box dna binding protein subunit b). [swissprot;acc:p25208] Divided 251.679 228.037 1.10368
292 HNRPM heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272] Subtracted 234.146 256.627 22.481
RPS15A 40s ribosomal protein s15a. [swissprot;acc:p39027] Divided 241.411 266.414 1.10357
293 no value 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 240.782 265.717 1.10356
HS3ST6 c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5] Subtracted 219.421 196.978 22.443
294 BCCIP 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] Divided 240.782 265.717 1.10356
HS3ST3A1 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042] Subtracted 219.421 196.978 22.443
295 HS3ST3B1 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]
SCYE1 multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904] Divided 223.273 202.423 1.103
296 HS3ST2 heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043] Subtracted 219.421 196.978 22.443
MRPL4 mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] Divided 241.282 266.12 1.10294
297 no value 60s ribosomal protein l7. [swissprot;acc:p18124] 235.727 259.984 1.1029
DCPS mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026] Subtracted 219.421 196.978 22.443
298 CAPN2 calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655] Divided 268.632 243.588 1.10281
E2F1 transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094] Subtracted 266.421 244.236 22.185
299 CAPN1 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] Divided 268.635 243.592 1.10281
E2F2 transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] Subtracted 266.421 244.236 22.185
300 DDX56 probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93] 257.017 234.945 22.072
PITRM1 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] Divided 150.959 166.351 1.10196
301 ALG1 beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 150.982 166.372 1.10193
MAGED4 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Subtracted 88.2482 110.265 22.0168
302 MAGEE2 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
RPL26 60s ribosomal protein l26. [swissprot;acc:q02877] Divided 242.326 267.008 1.10185
303 no value melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Subtracted 88.2482 110.265 22.0168
RPL35 60s ribosomal protein l35. [swissprot;acc:p42766] Divided 242.333 266.999 1.10179
304 no value 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 242.339 266.986 1.1017
MAGEA11 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Subtracted 88.2482 110.265 22.0168
305 MAGEA2B melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]
MRPL2 mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] Divided 242.339 266.986 1.1017
306 no value 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 242.153 266.673 1.10126
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Subtracted 88.2482 110.265 22.0168
307 MAGEA6 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
SRR serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] Divided 242.153 266.673 1.10126
308 NDN necdin. [swissprot;acc:q99608] Subtracted 88.2482 110.265 22.0168
RPL34 60s ribosomal protein l34. [swissprot;acc:p49207] Divided 242.153 266.673 1.10126
309 MAGED1 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Subtracted 88.2482 110.265 22.0168
SEC61A2 protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] Divided 242.153 266.673 1.10126
310 MAGEF1 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Subtracted 88.2482 110.265 22.0168
SEC61A1 protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] Divided 242.153 266.673 1.10126
311 EIF1B protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] 242.627 267.151 1.10108
MAGEB6B melanoma antigen, family b, 6. [refseq;acc:nm_173523] Subtracted 88.2482 110.265 22.0168
312 no value melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
RPL3L 60s ribosomal protein l3-like. [swissprot;acc:q92901] Divided 242.195 266.663 1.10103
313 MAGEA9 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Subtracted 88.2482 110.265 22.0168
RRM2B ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Divided 232.473 211.207 1.10069
314 MAGEA8 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Subtracted 88.2482 110.265 22.0168
METAP1 methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] Divided 244.126 268.604 1.10027
315 MAGEC1 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Subtracted 88.2482 110.265 22.0168
METAP2 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] Divided 244.126 268.604 1.10027
316 EIF1 protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] 242.694 267.017 1.10022

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/