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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Gene Rank Filtered description Value Type Network Comparison Type green Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
Filtered
description
green
Interaction Map
red
network_comparison
138 1 glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 7313.38 Low confidence 6709 1.09008
kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] 2094.3 High confidence 2755.15 1.31555
139 0 amiloride-sensitive cation channel 3 isoform a; testis sodium channel 1; proton-gated cation channel subunit; modulatory subunit of asic2a; amiloride-sensitive cation channel 3, testis. [refseq;acc:nm_004769] 191.025 Low confidence 147.185 1.29786
associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 561.038 High confidence 736.737 1.31317
1 60s ribosomal protein l37a. [swissprot;acc:p12751] 6277.91 Low confidence 5762.4 1.08946
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] 2099.49 High confidence 2759.61 1.31442
140 0 amiloride-sensitive sodium channel gamma-subunit (epithelial na+ channel gamma subunit) (gamma enac) (nonvoltage-gated sodium channel 1 gamma subunit) (scneg) (gamma nach). [swissprot;acc:p51170] 191.013 Low confidence 147.188 1.29775
vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670] 1222.89 High confidence 934.726 1.30829
1 kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] 2100.27 2760.28 1.31425
ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968] 8310.74 Low confidence 7628.44 1.08944
141 0 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 891.114 High confidence 1161.88 1.30385
sarcoplasmic/endoplasmic reticulum calcium atpase 1 (ec 3.6.3.8) (calcium pump 1) (serca1) (sr ca(2+)-atpase 1) (calcium-transporting atpase sarcoplasmic reticulum type, fast twitch skeletal muscle isoform) (endoplasmic reticulum class 1/2 ca(2+) atpase). [swissprot;acc:o14983] 83.5883 Low confidence 108.441 1.29732
1 brachyury protein (t protein). [swissprot;acc:o15178] 6720.84 6171.76 1.08897
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 5782.08 High confidence 4405.4 1.3125
142 0 presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] 1139 874 1.3032
solute carrier family 26, member 11. [refseq;acc:nm_173626] 462.96 Low confidence 598.037 1.29177
1 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 7090.37 High confidence 9276.47 1.30832
ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480] 11757.7 Low confidence 10803 1.08837
143 0 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 336.584 261.105 1.28908
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 144 High confidence 187 1.29861
1 3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952] 11639.5 Low confidence 10696.6 1.08815
beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 7089.65 High confidence 9275.1 1.30826
144 0 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 965.202 Low confidence 749.494 1.2878
uridine kinase-like 1. [swissprot;acc:q9nwz5] 821.711 High confidence 633.433 1.29723
1 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 8370.25 Low confidence 7692.29 1.08814
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] 4362.61 High confidence 3349.9 1.30231
145 0 likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 372.961 287.903 1.29544
lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] 430.121 Low confidence 553.827 1.28761
1 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 8366.42 7693.93 1.08741
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 12889.1 High confidence 16771.5 1.30122
146 0 adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813] 835.57 Low confidence 1073.89 1.28522
cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 377.574 High confidence 291.639 1.29466
1 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 8508.5 11068 1.30082
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 11612.9 Low confidence 10685.5 1.08679
147 0 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 378.206 High confidence 292.152 1.29455
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 1681.67 Low confidence 1310 1.28372
1 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 11611.2 10684.1 1.08677
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 8508.5 High confidence 11068 1.30082
148 0 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 379.474 293.178 1.29435
williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] 322.947 Low confidence 409.972 1.26947
1 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 8508.5 High confidence 11068 1.30082
defender against cell death 1 (dad-1). [swissprot;acc:p46966] 7491.39 Low confidence 6893.42 1.08675
149 0 cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 379.474 High confidence 293.178 1.29435
glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 945.391 Low confidence 745.137 1.26875
1 neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 8508.5 High confidence 11068 1.30082
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 11587.2 Low confidence 10665 1.08647
150 0 metaxin 1. [swissprot;acc:q13505] 723.368 High confidence 933.395 1.29035
williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158] 323.433 Low confidence 410.28 1.26852
1 protein hspc134 (protein cda04). [swissprot;acc:q9by43] 8508.5 High confidence 11068 1.30082
serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350] 7751.87 Low confidence 7136.14 1.08628

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/