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.


Navigation/Query Panel:
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 network_comparison Gene Interaction Map red Network Comparison Type Rank description
Results: HTML CSV LaTeX Showing element 301 to 350 of 77072 in total
Filtered  : 0
Value Type  : Squared
green
network_comparison
Interaction Map
red
Network Comparison Type
Rank
description
0.615621 0.070296 High confidence 0.545325 Subtracted 472 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]
473 melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
474 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
475 melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]
476 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
477 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
478 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]
479 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
480 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
481 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
482 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]
483 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]
484 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
485 melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
486 melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]
487 melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]
488 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]
1.12891 Divided 348 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]
349 melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
350 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
351 melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]
352 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
353 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
354 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]
355 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
356 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
357 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
358 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]
359 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]
360 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
361 melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
362 melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]
363 melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]
364 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]
0.664852 0.374911 Low confidence 0.289941 Subtracted 819 acidic leucine-rich nuclear phosphoprotein 32 family member c (tumorigenic protein pp32r1). [swissprot;acc:o43423]
820 acidic leucine-rich nuclear phosphoprotein 32 family member d (tumorigenic protein pp32r2). [swissprot;acc:o95626]
2.29306 Divided 94 acidic leucine-rich nuclear phosphoprotein 32 family member c (tumorigenic protein pp32r1). [swissprot;acc:o43423]
95 acidic leucine-rich nuclear phosphoprotein 32 family member d (tumorigenic protein pp32r2). [swissprot;acc:o95626]
0.697197 0.653614 High confidence 0.0435834 Subtracted 454 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]
Low confidence 812
15.9968 High confidence Divided 34
Low confidence 22
0.742249 0.324734 High confidence 0.417515 Subtracted 462 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
463 serpin b11. [swissprot;acc:q96p15]
464 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
Low confidence 823 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
824 serpin b11. [swissprot;acc:q96p15]
825 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
1.77778 High confidence Divided 137 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
138 serpin b11. [swissprot;acc:q96p15]

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/