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.


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Rank Gene description Hugo Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
Value Type
green
red
network_comparison
138 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] UBAC1 Squared 322755 468498 1.45156
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] PPP2CA Ranked 234.204 194.372 1.20493
139 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] APBA1 225.68 271.752 1.20415
g2/mitotic-specific cyclin b2. [swissprot;acc:o95067] CCNB2 Squared 56211.1 81592.1 1.45153
nuclear protein ukp68. [refseq;acc:nm_024824] ZC3H14 Rooted 66.2416 54.9787 1.20486
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] KCNIP4 Measured 2099.49 2759.61 1.31442
140 cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941] CDK2 Squared 56190.6 81527.6 1.45091
filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457] FLNB Rooted 66.7332 55.6161 1.19989
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] KCNIP2 Measured 2100.27 2760.28 1.31425
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] RRAGA Ranked 49 59 1.20408
141 g2/mitotic-specific cyclin b1. [swissprot;acc:p14635] CCNB1 Squared 56188.5 81520.8 1.45084
ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] RRAGC Ranked 49 59 1.20408
rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] REV1 Rooted 66.7332 55.6161 1.19989
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] SNRPD2 Measured 5782.08 4405.4 1.3125
142 cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493] CDC2 Squared 56175.2 81478.9 1.45044
metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] PITRM1 Measured 7090.37 9276.47 1.30832
protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] PRMT1 Rooted 66.7332 55.6161 1.19989
ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] RRAGB Ranked 49 59 1.20408
143 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] ANLN
beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] ALG1 Measured 7089.65 9275.1 1.30826
protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] PRMT8 Rooted 66.7332 55.6161 1.19989
protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316] PPP1R13B Squared 86848.2 124319 1.43145
144 kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] KCNIP1 Ranked 319.651 265.686 1.20312
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] UNC84A Measured 4362.61 3349.9 1.30231
tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625] TP53BP2 Squared 86277.9 123324 1.42938
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] SNRP70 Rooted 66.7332 55.6161 1.19989
145 filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] no value
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Squared 442993 310840 1.42515
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] KCNIP4 Ranked 319.546 265.639 1.20293
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] no value Measured 12889.1 16771.5 1.30122
146 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] STAMBPL1 8508.5 11068 1.30082
huntingtin interacting protein c. [refseq;acc:nm_012272] PRPF40B Rooted 66.0298 55.0737 1.19894
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] KCNIP2 Ranked 319.531 265.632 1.20291
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] RRAGA Squared 146848 103496 1.41888
147 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] FOXP4 Rooted 50.4237 42.0574 1.19893
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] no value Ranked 42.3003 50.7983 1.2009
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] CHMP2A Measured 8508.5 11068 1.30082
ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] RRAGC Squared 146848 103496 1.41888
148 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] STAMBP Measured 8508.5 11068 1.30082
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] FOXP1 Rooted 50.424 42.0577 1.19892
ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] RRAGB Squared 146848 103496 1.41888
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] UNC84A Ranked 247.559 296.677 1.19841
149 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] ANLN Squared 146848 103496 1.41888
atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] no value Ranked 170 142 1.19718
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] FOXP3 Rooted 50.4323 42.0684 1.19882
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] VPS24 Measured 8508.5 11068 1.30082
150 myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] MYO5B Ranked 46 55 1.19565
pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] CLP1 Squared 85473.4 121200 1.41799
protein hspc134 (protein cda04). [swissprot;acc:q9by43] CHMP4A Measured 8508.5 11068 1.30082
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] PPP2CA Rooted 53.0856 63.5827 1.19774

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
- Hugo is the HGNC identifier if it exists
- 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/