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 [...,...].
Network Comparison Type Gene red Value Type Rank green Interaction Map description Filtered network_comparison
Results: HTML CSV LaTeX Showing element 2080 to 2129 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
red
Rank
green
description
network_comparison
5910.06 1476 6355.08 rna (guanine-7-) methyltransferase. [refseq;acc:nm_003799] 1.0753
5910.12 2214 6199.28 chromosome 11 open reading frame2; chromosome 11 open reading frame2. [refseq;acc:nm_013265] 1.04893
2215 kinesin-like protein kif13a (kinesin-like protein rbkin). [swissprot;acc:q9h1h9]
2216 conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [swissprot;acc:q14746]
2217 kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]
5910.54 1112 6440.58 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 1.08968
1113 phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]
1114 phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259]
5912.84 881 6517.69 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 1.10229
882 vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase ac39 subunit) (v-atpase 40 kda accessory protein) (p39) (32 kda accessory protein). [swissprot;acc:p12953]
883 adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]
5913.73 1208 6423.98 meiotic recombination protein dmc1/lim15 homolog. [swissprot;acc:q14565] 1.08628
5915.42 1120 6443.77 heat shock factor binding protein 1. [swissprot;acc:o75506] 1.08932
5916.05 1529 6350.53 dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075] 1.07344
1530 adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [swissprot;acc:q9p2n4]
1531 dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [swissprot;acc:o00273]
1532 ankyrin 3 (ank-3) (ankyrin g). [swissprot;acc:q12955]
1533 ankyrin 2 (brain ankyrin) (ankyrin b) (ankyrin, nonerythroid). [swissprot;acc:q01484]
1534 adp-ribosylation factor-like protein 3. [swissprot;acc:p36405]
1535 unc-119 protein homolog (retinal protein 4) (hrg4). [swissprot;acc:q13432]
1536 26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [swissprot;acc:p48556]
5916.13 1710 6321.77 camp-dependent protein kinase type ii-alpha regulatory chain. [swissprot;acc:p13861] 1.06857
5917.22 1711 6322.72 protein kinase pkx1 (ec 2.7.1.-). [swissprot;acc:p51817] 1.06853
5917.23 1712 6322.73 camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612]
1713 camp-dependent protein kinase, beta-catalytic subunit (ec 2.7.1.37) (pka c-beta). [swissprot;acc:p22694]
1714 camp-dependent protein kinase, alpha-catalytic subunit (ec 2.7.1.37) (pka c-alpha). [swissprot;acc:p17612]
5918.48 1715 6323.83 camp-dependent protein kinase type ii-beta regulatory chain. [swissprot;acc:p31323] 1.06849
5920.55 1628 6337.28 glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 1.07039
5923.66 1576 6349.04 mitochondrial ribosomal protein l30 isoform a. [refseq;acc:nm_145212] 1.07181
1577 26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]
5925.65 1736 6326.43 twinkle; likely ortholog of mouse t7 gp4-like protein with intramitochondrial nucleoid localization. [refseq;acc:nm_021830] 1.06763
1737 rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703]
5926.76 1527 6362.33 26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [swissprot;acc:p17980] 1.07349
5929.48 897 6531.48 histone deacetylase 2 (hd2). [swissprot;acc:q92769] 1.10153
5929.55 898 6531.52 multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279] 1.10152
899 dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]
5929.61 901 6531.55 histone deacetylase 1 (hd1). [swissprot;acc:q13547] 1.10151
5932.05 2536 6071.35 sorting nexin 1. [swissprot;acc:q13596] 1.02348
5933.25 1584 6358.78 glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [swissprot;acc:p23378] 1.07172
5934.08 2014 6281.2 kinesin-like protein kif3b (microtubule plus end-directed kinesin motor 3b) (hh0048). [swissprot;acc:o15066] 1.0585
5934.68 2021 6281.49 kinesin-like protein kif3c. [swissprot;acc:o14782] 1.05844
5935.71 2642 5876.22 vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1] 1.01012
2643 microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]
5938.56 1521 6376.76 26s protease regulatory subunit 4 (p26s4). [swissprot;acc:q03527] 1.07379
5939.71 1639 6354.79 putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544] 1.06988
5939.85 1976 6294.91 splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519] 1.05978
5941.24 1962 6297.78 c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6] 1.06001
5941.29 1752 6339.93 copper-transporting atpase 1 (ec 3.6.3.4) (copper pump 1) (menkes disease-associated protein). [swissprot;acc:q04656] 1.0671
5941.83 1754 6340.32 copper-transporting atpase 2 (ec 3.6.3.4) (copper pump 2) (wilson disease-associated protein). [swissprot;acc:p35670] 1.06707
5942.49 426 6853.15 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] 1.15325

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/