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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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 [...,...].
Filtered green network_comparison Value Type Interaction Map description Network Comparison Type Rank red Gene
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 77072 in total
Filtered  : 0
green
network_comparison
Value Type
Interaction Map
description
Network Comparison Type
Rank
red
50 1.66667 Measured Low confidence transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084] Divided 80 30
20 High confidence Subtracted 426
Low confidence 743
50.3308 1.02076 Squared similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Divided 739 51.3755
1.0447 Subtracted 802
50.3885 1.05014 Rooted hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433] Divided 526 52.915
2.5265 Subtracted 320
50.4997 1.03076 High confidence ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930] Divided 424 48.9929
1.5068 Subtracted 317
50.7408 3.12432 Squared protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Divided 69 16.2406
34.5002 Subtracted 355
50.7888 1.06535 Rooted Low confidence cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Divided 460 47.6732
3.1156 Subtracted 268
51 1.0625 Measured High confidence hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Divided 354 48
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 350
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 363
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 364
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 352
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 362
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 353
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 351
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 358
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 355
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 360
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 359
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 365
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 361
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 356
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 366
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 357
3 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Subtracted 471
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 467
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 481
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 482
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 469
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 480
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 470
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 468
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 475
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 472
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 477
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 476
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 483
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 478
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 473
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 484
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 474
51.3517 1.19943 Rooted spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] Divided 135 42.8135
8.5382 Subtracted 41
51.7359 1.03118 Low confidence ganglioside induced differentiation associated protein 2; likely ortholog of mouse ganglioside-induced differentiation-associated-protein 2. [refseq;acc:nm_017686] Divided 622 50.1714

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/