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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3080 to 3129 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
red  : 0.00001
green  : 0.00001
network_comparison  : 1
Rank
Hugo
description
3080 no value nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]
3081 PTPMT1 nadh-ubiquinone oxidoreductase 30 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-30kd) (ci-30kd). [swissprot;acc:o75489]
3082 CRYAB alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [swissprot;acc:p02511]
3083 GLRB glycine receptor beta chain precursor (glycine receptor 58 kda subunit). [swissprot;acc:p48167]
3084 MAP2K1IP1 mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [swissprot;acc:q9uha4]
3085 UGT2B10 udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]
3086 no value udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855]
3087 ALDOC fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [swissprot;acc:p09972]
3088 YWHAE 14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655]
3089 PRKAR1A camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [swissprot;acc:p10644]
3090 EZH1 enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800]
3091 MLX transcription factor-like protein 4 (max-like bhlhzip protein) (bigmax protein) (mlx). [swissprot;acc:q9uh92]
3092 DRG2 developmentally regulated gtp-binding protein 2 (drg 2). [swissprot;acc:p55039]
3093 no value ptd016 protein. [refseq;acc:nm_016125]
3094 UBE2S ubiquitin-conjugating enzyme e2-24 kda (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2-epf5). [swissprot;acc:q16763]
3095 C10orf137 erythroid differentiation-related factor 1. [refseq;acc:nm_015608]
3096 NPM3 nucleoplasmin 3. [swissprot;acc:o75607]
3097 SEC23IP sec23-interacting protein p125; phospholipase. [refseq;acc:nm_007190]
3098 EZH2 enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910]
3099 CAV1 caveolin-1. [swissprot;acc:q03135]
3100 no value presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341]
3101 gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [swissprot;acc:p13284]
3102 C19orf56 protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]
3103 LIG1 dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]
3104 SNORD23 glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]
3105 TGFB1 transforming growth factor beta 1 precursor (tgf-beta 1). [swissprot;acc:p01137]
3106 PTOV1 prostate tumor overexpressed gene 1; prostate tumor over expressed gene 1. [refseq;acc:nm_017432]
3107 LYL1 lyl-1 protein (lymphoblastic leukemia derived sequence 1). [swissprot;acc:p12980]
3108 SNX16 sorting nexin 16. [swissprot;acc:p57768]
3109 WISP1 wnt1 inducible signaling pathway protein 1 isoform 1 precursor; wnt-1 signaling pathway protein 1; wnt1 signaling pathway protein 1; wnt-1 inducible signaling pathway protein 1. [refseq;acc:nm_003882]
3110 RAB2A ras-related protein rab-2a. [swissprot;acc:p08886]
3111 STK3 serine/threonine protein kinase 3 (ec 2.7.1.37) (ste20-like kinase mst2) (mst-2) (mammalian ste20-like protein kinase 2) (serine/threonine protein kinase krs-1). [swissprot;acc:q13188]
3112 RAB11A ras-related protein rab-11a (rab-11) (24kg) (yl8). [swissprot;acc:p24410]
3113 NUTF2 nuclear transport factor 2 (ntf-2) (placental protein 15) (pp15). [swissprot;acc:p13662]
3114 TSC22D1 regulatory protein tsc-22 (tgfb stimulated clone 22 homolog). [swissprot;acc:q15714]
3115 STK24 serine/threonine protein kinase 24 (ec 2.7.1.37) (ste20-like kinase mst3) (mst-3) (mammalian ste20-like protein kinase 3). [swissprot;acc:q9y6e0]
3116 CAB39L mo25-like protein. [swissprot;acc:q9h9s4]
3117 FNDC3A ba203i16.1 (hypothetical protein kiaa0970). [sptrembl;acc:q9h1w1]
3118 SMS spermine synthase (ec 2.5.1.22) (spermidine aminopropyltransferase) (spmsy). [swissprot;acc:p52788]
3119 no value rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]
3120 SCML2 sex comb on midleg-like 2; sex comb on midleg like 2. [refseq;acc:nm_006089]
3121 GLRA2 glycine receptor alpha-2 chain precursor. [swissprot;acc:p23416]
3122 PRPS2 ribose-phosphate pyrophosphokinase ii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase ii) (ppribp) (prs-ii). [swissprot;acc:p11908]
3123 VAPA vesicle-associated membrane protein-associated protein a (vamp- associated protein a) (vamp-a) (vap-a) (33 kda vamp-associated protein) (vap-33). [swissprot;acc:q9p0l0]
3124 SAMHD1 sam domain and hd domain-containing protein 1 (dendritic cell-derived ifng-induced protein) (dcip) (monocyte protein 5) (mop-5). [swissprot;acc:q9y3z3]
3125 POFUT1 gdp-fucose protein o-fucosyltransferase 1 precursor (ec 2.4.1.221) (peptide o-fucosyltransferase) (o-fuct-1). [swissprot;acc:q9h488]
3126 PLCB4 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 4 (ec 3.1.4.11) (phosphoinositide phospholipase c) (plc-beta-4) (phospholipase c-beta-4). [swissprot;acc:q15147]
3127 SEC23B protein transport protein sec23b (sec23-related protein b). [swissprot;acc:q15437]
3128 BMP7 bone morphogenetic protein 7 precursor (bmp-7) (osteogenic protein 1) (op-1). [swissprot;acc:p18075]
3129 CSTF1 cleavage stimulation factor, 50 kda subunit (cstf 50 kda subunit) (cf-1 50 kda subunit). [swissprot;acc:q05048]

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/