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

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/