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 [...,...].
Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 625 to 674 of 12912 in total 
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	Value Type	description	red	green	network_comparison	
157	Measured	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	23693.7	18263	1.29736	
157	Ranked	transcription factor lbx1. [source:swissprot;acc:p52954]	249.663	298.263	1.19466	
157	Squared	brain protein 44. [source:swissprot;acc:o95563]	89182.8	125229	1.40418	
157	Rooted	eukaryotic translation initiation factor 4 gamma, 3. [source:refseq;acc:nm_003760]	52.7582	61.9123	1.17351	
158	Measured	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	23693.7	18263	1.29736	
158	Ranked	mosaic protein lgn. [source:swissprot;acc:p81274]	249.663	298.263	1.19466	
158	Squared	septin 7 (cdc10 protein homolog). [source:swissprot;acc:q16181]	89182.8	125229	1.40418	
158	Rooted	breast cancer antiestrogen resistance 3. [source:refseq;acc:nm_003567]	56.3507	66.1252	1.17346	
159	Measured	necdin. [source:swissprot;acc:q99608]	23693.7	18263	1.29736	
159	Ranked	regulator of g-protein signaling 17 (rgs17). [source:swissprot;acc:q9ugc6]	249.663	298.263	1.19466	
159	Squared	septin 6. [source:swissprot;acc:q14141]	88953.6	124854	1.40359	
159	Rooted	rna-binding protein. [source:refseq;acc:nm_019027]	52.7642	61.9019	1.17318	
160	Measured	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	23693.7	18263	1.29736	
160	Ranked	guanine nucleotide-binding protein g(o), alpha subunit 1. [source:swissprot;acc:p09471]	249.663	298.263	1.19466	
160	Squared	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	173408	242989	1.40126	
160	Rooted	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [source:refseq;acc:nm_014576]	52.7642	61.9019	1.17318	
161	Measured	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	23693.7	18263	1.29736	
161	Ranked	rap1 gtpase-activating protein 1 (rap1gap). [source:swissprot;acc:p47736]	249.663	298.263	1.19466	
161	Squared	homeobox protein hox-b4 (hox-2f) (hox-2.6). [source:swissprot;acc:p17483]	173408	242989	1.40126	
161	Rooted	ns1-associated protein 1. [source:refseq;acc:nm_006372]	52.7642	61.9019	1.17318	
162	Measured	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	23693.7	18263	1.29736	
162	Ranked	nostrin. [source:refseq;acc:nm_052946]	209.299	249.187	1.19058	
162	Squared	homeobox protein hox-c5 (hox-3d) (cp11). [source:swissprot;acc:q00444]	173408	242989	1.40126	
162	Rooted	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [source:swissprot;acc:o43390]	52.7642	61.9019	1.17318	
163	Measured	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	23693.7	18263	1.29736	
163	Ranked	eap30 subunit of ell complex. [source:refseq;acc:nm_007241]	209.299	249.187	1.19058	
163	Squared	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	173408	242989	1.40126	
163	Rooted	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [source:swissprot;acc:q04637]	52.7702	61.8915	1.17285	
164	Measured	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	23693.7	18263	1.29736	
164	Ranked	liv-1 protein, estrogen regulated. [source:refseq;acc:nm_012319]	209.299	249.187	1.19058	
164	Squared	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [source:swissprot;acc:p09016]	173408	242989	1.40126	
164	Rooted	mad protein (max dimerizer). [source:swissprot;acc:q05195]	55.646	65.1534	1.17086	
165	Measured	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	23693.7	18263	1.29736	
165	Ranked	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [source:swissprot;acc:q05329]	209.299	249.187	1.19058	
165	Squared	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [source:swissprot;acc:p09067]	173408	242989	1.40126	
165	Rooted	max interacting protein 1 (mxi1 protein). [source:swissprot;acc:p50539]	55.6486	65.1478	1.1707	
166	Measured	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	23693.7	18263	1.29736	
166	Ranked	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [source:swissprot;acc:q99747]	209.299	249.187	1.19058	
166	Squared	homeobox protein hox-a5 (hox-1c). [source:swissprot;acc:p20719]	173408	242989	1.40126	
166	Rooted	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [source:swissprot;acc:q14582]	55.6495	65.1458	1.17064	
167	Measured	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	23693.7	18263	1.29736	
167	Ranked	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [source:swissprot;acc:q99259]	209.299	249.187	1.19058	
167	Squared	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	173408	242989	1.40126	
167	Rooted	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [source:refseq;acc:nm_031300]	55.65	65.1448	1.17062	
168	Measured	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	23693.7	18263	1.29736	
168	Ranked	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	82.5916	98.0548	1.18722	
168	Squared	retinal short-chain dehydrogenase/reductase 3. [source:refseq;acc:nm_016246]	173408	242989	1.40126	
168	Rooted	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [source:swissprot;acc:p43331]	56.3709	65.8949	1.16895	
169	Measured	melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	23693.7	18263	1.29736	
169	Ranked	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	82.5916	98.0548	1.18722	

Legend:
- Rank is the rank after comparing the two networks
- 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/