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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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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 313 to 362 of 473 in total
Value Type  : Measured
Network Comparison Type  : Subtracted
Interaction Map  : High confidence
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0
Rank
description
3068 headcase homolog; hhdc for homolog of drosophila headcase. [refseq;acc:nm_016217]
3069 bone morphogenetic protein 5 precursor (bmp-5). [swissprot;acc:p22003]
3070 mam domain containing glycosylphosphatidylinositol anchor 1; glycosyl-phosphatidyl-inositol-mam. [refseq;acc:nm_153487]
3071 serine/threonine kinase 38; serine threonine protein kinase. [refseq;acc:nm_007271]
3072 pak1 interacting protein 1; pak1-interacting protein; pak/plc-interacting protein 1. [refseq;acc:nm_017906]
3073 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
3074 tu12b1-ty protein. [refseq;acc:nm_016575]
3075 ubiquitin carboxyl-terminal hydrolase 5 (ec 3.1.2.15) (ubiquitin thiolesterase 5) (ubiquitin-specific processing protease 5) (deubiquitinating enzyme 5) (isopeptidase t). [swissprot;acc:p45974]
3076 placental protein 11 precursor (ec 3.4.21.-) (pp11). [swissprot;acc:p21128]
3077 h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
3078 camp responsive element binding protein-like 2. [refseq;acc:nm_001310]
3079 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]
3080 nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]
3081 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 alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [swissprot;acc:p02511]
3083 glycine receptor beta chain precursor (glycine receptor 58 kda subunit). [swissprot;acc:p48167]
3084 mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [swissprot;acc:q9uha4]
3085 udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]
3086 udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855]
3087 fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [swissprot;acc:p09972]
3088 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 camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [swissprot;acc:p10644]
3090 enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800]
3091 transcription factor-like protein 4 (max-like bhlhzip protein) (bigmax protein) (mlx). [swissprot;acc:q9uh92]
3092 developmentally regulated gtp-binding protein 2 (drg 2). [swissprot;acc:p55039]
3093 ptd016 protein. [refseq;acc:nm_016125]
3094 ubiquitin-conjugating enzyme e2-24 kda (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2-epf5). [swissprot;acc:q16763]
3095 erythroid differentiation-related factor 1. [refseq;acc:nm_015608]
3096 nucleoplasmin 3. [swissprot;acc:o75607]
3097 sec23-interacting protein p125; phospholipase. [refseq;acc:nm_007190]
3098 enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910]
3099 caveolin-1. [swissprot;acc:q03135]
3100 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 protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]
3103 dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]
3104 glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]
3105 transforming growth factor beta 1 precursor (tgf-beta 1). [swissprot;acc:p01137]
3106 prostate tumor overexpressed gene 1; prostate tumor over expressed gene 1. [refseq;acc:nm_017432]
3107 lyl-1 protein (lymphoblastic leukemia derived sequence 1). [swissprot;acc:p12980]
3108 sorting nexin 16. [swissprot;acc:p57768]
3109 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 ras-related protein rab-2a. [swissprot;acc:p08886]
3111 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 ras-related protein rab-11a (rab-11) (24kg) (yl8). [swissprot;acc:p24410]
3113 nuclear transport factor 2 (ntf-2) (placental protein 15) (pp15). [swissprot;acc:p13662]
3114 regulatory protein tsc-22 (tgfb stimulated clone 22 homolog). [swissprot;acc:q15714]
3115 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 mo25-like protein. [swissprot;acc:q9h9s4]
3117 ba203i16.1 (hypothetical protein kiaa0970). [sptrembl;acc:q9h1w1]

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/