MK5 Microarray Data

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.

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Rank	Gene	Value Type	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 686 to 735 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	red	green	network_comparison
172	Ranked	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	174.667	205.556	1.17685
	Squared	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	121579	87259.3	1.39331
	Rooted	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	56.7592	65.9889	1.16261
173	Measured	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	4579.34	5940.64	1.29727
	Ranked	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	227.032	193.056	1.17599
	Squared	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]	82624.3	115061	1.39258
	Rooted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	145.551	168.796	1.1597
174	Measured	mad protein (max dimerizer). [swissprot;acc:q05195]	4455.95	5774.03	1.2958
	Ranked	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	335	286	1.17133
	Squared	sedlin. [swissprot;acc:o14582]	112820	157033	1.39189
	Rooted	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	145.551	168.796	1.1597
175	Measured	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	4456.67	5773.77	1.29553
	Ranked	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	199.949	234.187	1.17123
	Squared	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	112820	157033	1.39189
	Rooted	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	145.551	168.796	1.1597
176	Measured	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	4456.93	5773.67	1.29544
	Ranked	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	275.754	235.908	1.1689
	Squared	bet3 homolog. [swissprot;acc:o43617]	112820	157033	1.39189
	Rooted	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	145.551	168.796	1.1597
177	Measured	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	4457.06	5773.63	1.29539
	Ranked	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	229.406	196.695	1.1663
	Squared	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	78383	108483	1.38401
	Rooted	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	145.551	168.796	1.1597
178	Measured	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	21591.5	27904.5	1.29238
	Ranked	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	226.887	194.72	1.1652
	Squared	carboxypeptidase b precursor. [refseq;acc:nm_020361]	25326.4	18354.1	1.37988
	Rooted	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	45.7414	52.932	1.1572
179	Measured	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	21591.5	27904.5	1.29238
	Ranked	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	226.884	194.79	1.16476
	Squared	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]	25326.3	18354.1	1.37987
	Rooted	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	50.272	43.4634	1.15665
180	Measured	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	21591.5	27904.5	1.29238
	Ranked	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	256.228	298.438	1.16474
	Squared	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	25326.2	18354.1	1.37987
	Rooted	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	50.2801	43.4779	1.15645
181	Measured	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	4068.56	5252.6	1.29102
	Ranked	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	229.818	267.265	1.16294
	Squared	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	55630.4	76083.7	1.36766
	Rooted	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	57.4432	66.3307	1.15472
182	Measured	rna-binding protein. [refseq;acc:nm_019027]	4069.83	5252.17	1.29051
	Ranked	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	277.546	240.461	1.15422
	Squared	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	61733.5	45224.1	1.36506
	Rooted	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	57.45	66.332	1.1546
183	Measured	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	4069.83	5252.17	1.29051
	Ranked	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	228.306	198.011	1.153
	Squared	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	79779.8	108084	1.35478
	Rooted	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	57.4586	66.3336	1.15446
184	Measured	ns1-associated protein 1. [refseq;acc:nm_006372]	4069.83	5252.17	1.29051
	Ranked	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	274.027	237.79	1.15239
	Squared	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	72886.3	98544.5	1.35203

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.