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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1663 to 1712 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
832 guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Divided 4489.72 4965.35 1.10594
histone deacetylase 2 (hd2). [swissprot;acc:q92769] Subtracted 5929.48 6531.48 602
833 multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279] 5929.55 6531.52 601.97
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] Divided 4489.72 4965.35 1.10594
834 atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705] 5623.18 6218.77 1.10592
dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8] Subtracted 5929.55 6531.52 601.97
835 28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2] Divided 5623.18 6218.77 1.10592
histone deacetylase 1 (hd1). [swissprot;acc:q13547] Subtracted 5929.61 6531.55 601.94
836 atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] Divided 4049 4477.43 1.10581
ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781] Subtracted 6229.69 6829.58 599.89
837 cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830] Divided 4063.64 4492.98 1.10565
kinesin family member c3. [refseq;acc:nm_005550] Subtracted 5995.49 6595.35 599.86
838 glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057] 6520.28 7119.28 599
pbk1 protein. [sptrembl;acc:o76021] Divided 4064.23 4493.36 1.10559
839 arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320] 7093.86 7842.67 1.10556
proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [swissprot;acc:o43272] Subtracted 6520.28 7119.28 599
840 hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712] 10300 9701.33 598.67
poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] Divided 5786.67 6395.78 1.10526
841 conserved oligomeric golgi complex component 7. [swissprot;acc:p83436] Subtracted 10300 9701.33 598.67
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] Divided 5786.67 6395.78 1.10526
842 atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705] Subtracted 5623.18 6218.77 595.59
loh1cr12. [refseq;acc:nm_058169] Divided 5195.48 5741.63 1.10512
843 28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2] Subtracted 5623.18 6218.77 595.59
unr protein. [swissprot;acc:o75534] Divided 5195.48 5741.63 1.10512
844 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] Subtracted 3641.89 4236.95 595.06
preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387] Divided 6276.97 6934.8 1.1048
845 dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]
mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95] Subtracted 5797.88 6391.75 593.87
846 biotin--protein ligase (ec 6.3.4.-) (biotin apo-protein ligase) [includes: biotin--[methylmalonyl-coa-carboxyltransferase] ligase (ec 6.3.4.9); biotin--[propionyl-coa-carboxylase [atp-hydrolyzing]] ligase (ec 6.3.4.10) (holocarboxylase synthetase) (hcs); biotin--[methylcrotonoyl-coa-carboxylase] ligase (ec 6.3.4.11); biotin--[acetyl-coa-carboxylase] ligase (ec 6.3.4.15)]. [swissprot;acc:p50747] Divided 5607.43 6194.98 1.10478
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] Subtracted 5797.88 6391.75 593.87
847 cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639] Divided 6776.85 7485.55 1.10458
nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567] Subtracted 5797.88 6391.75 593.87
848 phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903] 6441.56 7034.86 593.3
wd-repeat protein bing4. [swissprot;acc:o15213] Divided 4066.56 4491.65 1.10453
849 dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531] 6194.15 6839.37 1.10417
solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4] Subtracted 6439.63 7032.19 592.56
850 propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166] Divided 6194.15 6839.37 1.10417
solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9] Subtracted 6439.66 7032.22 592.56
851 casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138] Divided 4307.12 4755.03 1.10399
solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2] Subtracted 6439.63 7032.19 592.56
852 casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784] Divided 4307.12 4755.03 1.10399
solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] Subtracted 6439.66 7032.22 592.56
853 apoptosis antagonizing transcription factor. [refseq;acc:nm_012138] Divided 4078.45 4502.32 1.10393
secretory carrier-associated membrane protein 1. [swissprot;acc:o15126] Subtracted 6439.35 7031.8 592.45
854 secretory carrier-associated membrane protein 2. [swissprot;acc:o15127] 6439.3 7031.73 592.43
uba/ubx 33.3 kda protein. [swissprot;acc:q04323] Divided 6562.98 7242.37 1.10352
855 ero1-like. [refseq;acc:nm_014584]
secretory carrier-associated membrane protein 3. [swissprot;acc:o14828] Subtracted 6439.3 7031.73 592.43
856 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 5734.15 6326.41 592.26
heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849] Divided 5210.58 5749.33 1.1034

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/