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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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 description Gene Hugo Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2708 to 2757 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
red
green
network_comparison
2708 porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397] HMBS 227.796 227.66 1.0006
2709 importin 7; ran-binding protein 7. [refseq;acc:nm_006391] no value 220.521 220.395 1.00057
2710 importin 8; ran-binding protein 8. [refseq;acc:nm_006390] IPO8
2711 brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5] ARFGEF2
2712 hsgcn1 (fragment). [sptrembl;acc:q99736] GCN1L1
2713 brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6] ARFGEF1
2714 similar to trna synthetase class ii. [refseq;acc:nm_152268] PARS2 220.224 220.348 1.00056
2715 basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] no value 216.018 215.903 1.00053
2716 salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162] PRB4
2717 microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] MAPRE2 216.521 216.634 1.00052
2718 histidine-rich membrane protein ke4. [swissprot;acc:q92504] SLC39A7 216.52 216.632
2719 microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691] MAPRE1
2720 microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8] MAPRE3 216.633
2721 bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814] EPRS 221.022 221.116 1.00043
2722 transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3] TBL2 219.308 219.214
2723 lamin b2. [swissprot;acc:q03252] no value 219.323 219.413 1.00041
2724 heat shock protein hsp 90-beta (hsp 84) (hsp 90). [swissprot;acc:p08238] HSP90AB1 221.053 220.963
2725 doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602] DCX 216.496 216.569 1.00034
2726 rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873] RAD17 221.001 220.927 1.00033
2727 atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956] no value
2728 atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010] XRCC5
2729 ubiquitin-specific protease otubain 1. [refseq;acc:nm_017670] OTUB1 202.123 202.06 1.00031
2730 complement component 1, q subcomponent binding protein, mitochondrial precursor (glycoprotein gc1qbp) (gc1q-r protein) (hyaluronan-binding protein 1) (p32) (p33). [swissprot;acc:q07021] C1QBP 212.922 212.985 1.0003
2731 sirtuin 1; sir2-like 1; sirtuin type 1; sir2alpha; sirtuin silent mating type information regulation 2 homolog 1 (s. cerevisiae). [refseq;acc:nm_012238] SIRT1
2732 general control of amino acid synthesis protein 5-like 2 (ec 2.3.1.-) (histone acetyltransferase gcn5) (hsgcn5). [swissprot;acc:q92830] GCN5L2 202.233 202.175 1.00029
2733 p300/cbp-associated factor (ec 2.3.1.-) (p/caf) (histone acetylase pcaf). [swissprot;acc:q92831] PCAF 202.229 202.172 1.00028
2734 ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] no value 219.95 220.007 1.00026
2735 heat shock protein hsp 90-alpha (hsp 86). [swissprot;acc:p07900] HSP90AA2 220.943 220.887 1.00025
2736 transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] no value 198.278 198.321 1.00022
2737 transcription factor maff (v-maf musculoaponeurotic fibrosarcoma oncogene homolog f) (u-maf). [swissprot;acc:q9ulx9] MAFF
2738 transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] no value
2739 cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614] CHL1
2740 neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] no value
2741 transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594] TAF9
2742 nuclear factor erythroid 2 related factor 1 (nf-e2 related factor 1) (nfe2-related factor 1) (nuclear factor, erythroid derived 2, like 1) (transcription factor 11) (transcription factor hbz17) (transcription factor lcr-f1) (locus control region-factor 1). [swissprot;acc:q14494] NFE2L1
2743 nuclear factor (erythroid-derived 2)-like 3; nf-e2-related factor 3. [refseq;acc:nm_004289] NFE2L3
2744 transcriptional adaptor 3-like isoform a. [refseq;acc:nm_006354] TADA3L 201.476 201.514 1.00019
2745 frg1 protein (fshd region gene 1 protein). [swissprot;acc:q14331] FRG1
2746 transcriptional adapter 2-like (ada2-like protein) (kl04p). [swissprot;acc:o75478] TADA2L
2747 bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263] BRD7 201.477 1.00018
2748 small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765] SGTA 189.563 189.531 1.00017
2749 hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712] HGS 190.522 190.496 1.00014
2750 conserved oligomeric golgi complex component 7. [swissprot;acc:p83436] COG7
2751 proteasome subunit alpha type 1 (ec 3.4.25.1) (proteasome component c2) (macropain subunit c2) (multicatalytic endopeptidase complex subunit c2) (proteasome nu chain) (30 kda prosomal protein) (pros-30). [swissprot;acc:p25786] PSMA1 215.338 215.312 1.00012
2752 p53-related protein kinase (ec 2.7.1.-) (nori-2). [swissprot;acc:q96s44] TP53RK 221.7 221.716 1.00007
2753 serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549] AGXT 208.859 208.846 1.00006
2754 5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [swissprot;acc:p49914] MTHFS 210.638 210.642 1.00002
2755 deoxyhypusine synthase (ec 2.5.1.46) (dhs). [swissprot;acc:p49366] DHPS 212.403 212.401 1.00001
2756 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] no value 0.00001 0.00001 1
2757 nucleosome assembly protein 1-like 1 (nap-1 related protein). [swissprot;acc:p55209] NAP1L1

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/