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 Value Type Gene Rank Interaction Map description network_comparison Network Comparison Type red
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 77072 in total
Filtered  : 0
green
Value Type
Rank
Interaction Map
description
network_comparison
Network Comparison Type
red
50 Measured 81 High confidence transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084] 1.66667 Divided 30
426 20 Subtracted
743 Low confidence
50.3308 Squared 739 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 1.02076 Divided 51.3755
802 1.0447 Subtracted
50.3885 Rooted 320 hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433] 2.5265 52.915
526 1.05014 Divided
50.4997 317 High confidence ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930] 1.5068 Subtracted 48.9929
424 1.03076 Divided
50.7408 Squared 69 protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] 3.12432 16.2406
355 34.5002 Subtracted
50.7888 Rooted 268 Low confidence cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 3.1156 47.6732
460 1.06535 Divided
51 Measured 350 High confidence melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 1.0625 48
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]
467 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 3 Subtracted
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 Rooted 41 spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] 8.5382 42.8135
135 1.19943 Divided
51.7359 451 Low confidence ganglioside induced differentiation associated protein 2; likely ortholog of mouse ganglioside-induced differentiation-associated-protein 2. [refseq;acc:nm_017686] 1.5645 Subtracted 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/