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

Results: HTML CSV LaTeX

Showing element 2051 to 2100 of 3228 in total

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

description	Rank	green	network_comparison	red
polybromo 1. [refseq;acc:nm_018165]	2591	219.696	1.00147	220.02
polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]	784	235.131	1.04789	224.385
polyhomeotic like 3; early development regulator 3; polyhomeotic 3. [refseq;acc:nm_024947]	2809	0.00001	1	0.00001
polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	435	205.286	1.07909	221.522
polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999]	2095	227.53	1.00763	229.266
polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	429	259.038	1.08064	239.709
polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	451	257.705	1.07785	239.092
polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863]	1204	213.607	1.02535	219.022
polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780]	953	205.466	1.03512	198.494
polypeptide n-acetylgalactosaminyltransferase 2; udp-galnac transferase 2. [refseq;acc:nm_004481]	1811	214.35	1.01168	216.854
polyposis locus protein 1 (tb2 protein). [swissprot;acc:q00765]	1412	210.42	1.02095	206.102
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393]	1414
polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	1382	213.876	1.02148	218.47
polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599]	1394	213.875
ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	918	205.292	1.03731	212.952
porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	2708	227.66	1.0006	227.796
possible global transcription activator snf2l1. [swissprot;acc:p28370]	2594	219.696	1.00147	220.02
possible global transcription activator snf2l2 (snf2-alpha). [swissprot;acc:p51531]	2596
possible global transcription activator snf2l4 (snf2-beta) (brg-1 protein) (mitotic growth and transcription activator) (brahma protein homolog 1). [swissprot;acc:p51532]	2593
postsynaptic protein cript; hspc139 protein. [refseq;acc:nm_014171]	3034	0.00001	1	0.00001
potassium channel modulatory factor 1; potassium channel modulatory factor; differentially expressed in branching tubulogenesis 91; zinc finger, zz domain containing 1. [refseq;acc:nm_020122]	2119	222.788	1.00696	221.248
potassium channel tetramerisation domain containing 3; ny-ren-45 antigen. [refseq;acc:nm_016121]	2975	0.00001	1	0.00001
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	145	319.546	1.20293	265.639
potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	475	210.816	1.07547	226.727
potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	474	210.818	1.07576	226.789
potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	476	210.814	1.07527	226.681
potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	123	327.601	1.21681	269.23
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	120	327.709	1.21699	269.278
potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	122	327.642	1.21688	269.248
potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	718	211.685	1.05402	223.121
potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	714
potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196]	1843	210.113	1.01115	212.455
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	1820	217.926	1.01164	220.462
pp1201 protein. [refseq;acc:nm_022152]	1627	214.2	1.01515	217.446
pp3111 protein. [refseq;acc:nm_022156]	236	254.15	1.11785	227.357
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	641	230.596	1.05938	217.67
pre-b-cell leukemia transcription factor 4. [refseq;acc:nm_025245]	1787	203.874	1.01206	206.332
pre-b-cell leukemia transcription factor-1 (homeobox protein pbx1) (homeobox protein prl). [swissprot;acc:p40424]	1779
pre-b-cell leukemia transcription factor-2 (homeobox protein pbx2) (g17 protein). [swissprot;acc:p40425]	1786
pre-b-cell leukemia transcription factor-3 (homeobox protein pbx3). [swissprot;acc:p40426]	1781
pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]	2635	166.393	1.00132	166.612
pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	1445	136.922	1.02003	134.233
pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]	1743	215.402	1.01288	218.176
pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	473	209.651	1.07637	225.661
pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	594	210.136	1.06256	223.282
prefoldin subunit 1. [swissprot;acc:o60925]	1645	214.149	1.01451	217.256
prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9]	1310	221.26	1.02341	226.439
prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765]	1309
prefoldin subunit 4 (protein c-1). [swissprot;acc:q9nqp4]	3130	0.00001	1	0.00001
prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [swissprot;acc:q99471]	977	221.421	1.03402	228.953

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.