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 [...,...].
Gene Rank description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 6408 to 6457 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
red
green
network_comparison
1602 spectrin beta chain, brain 1 (spectrin, non-erythroid beta chain 1) (beta-ii spectrin) (fodrin beta chain). [swissprot;acc:q01082] Divided High confidence 5232.14 5605.8 1.07142
1603 glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292] Subtracted Low confidence 8109.57 8377.54 267.97
membrane associated progesterone receptor component 1 (mpr). [swissprot;acc:o00264] Divided 8000.22 8269.25 1.03363
phosphoacetylglucosamine mutase (ec 5.4.2.3) (pagm) (acetylglucosamine phosphomutase) (n-acetylglucosamine-phosphate mutase) (phosphoglucomutase 3). [swissprot;acc:o95394] High confidence 5232.14 5605.8 1.07142
porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397] Subtracted 4913.07 5337.95 424.88
1604 malonyl-coa decarboxylase, mitochondrial precursor (ec 4.1.1.9) (mcd). [swissprot;acc:o95822] Divided 6176.82 6617.91 1.07141
phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [swissprot;acc:q9nry7] Subtracted 6260.43 6685.05 424.62
proprotein convertase subtilisin/kexin type 9 preproprotein; neural apoptosis regulated convertase 1; hypercholesterolemia, autosomal dominant 3. [refseq;acc:nm_174936] Divided Low confidence 7973.26 8241.35 1.03362
protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312] Subtracted 8107.9 8375.85 267.95
1605 itchy homolog e3 ubiquitin protein ligase; atrophin-1 interacting protein 4; itchy (mouse homolog) e3 ubiquitin protein ligase; nfe2-associated polypeptide 1; ubiquitin protein ligase itch. [refseq;acc:nm_031483] Divided High confidence 6176.82 6617.91 1.07141
phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6] Subtracted 6259.8 6684.31 424.51
structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945] Divided Low confidence 7880.71 8145.66 1.03362
vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348] Subtracted 7994.67 8262.61 267.94
1606 5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126] Divided High confidence 5232.99 5606.53 1.07138
heat shock factor protein 2 (hsf 2) (heat shock transcription factor 2) (hstf 2). [swissprot;acc:q03933] Low confidence 8141.09 8414.68 1.03361
phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [swissprot;acc:q9nrq2] Subtracted High confidence 6259.8 6684.3 424.5
protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] Low confidence 7913.43 8181.32 267.89
1607 prolyl 4-hydroxylase alpha-1 subunit precursor (ec 1.14.11.2) (4-ph alpha-1) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-1 subunit). [swissprot;acc:p13674]
putative ribosomal rna methyltransferase 1 (ec 2.1.1.-) (rrna (uridine-2'-o-)-methyltransferase) (jm23 protein). [swissprot;acc:q9uet6] Divided High confidence 5232.99 5606.53 1.07138
sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] Subtracted 4379.28 4803.59 424.31
syntaxin 18. [swissprot;acc:q9p2w9] Divided Low confidence 7839.44 8102.81 1.0336
1608 androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]
prolyl 4-hydroxylase alpha-2 subunit precursor (ec 1.14.11.2) (4-ph alpha-2) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-2 subunit). [swissprot;acc:o15460] Subtracted 7913.43 8181.32 267.89
transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] High confidence 7019.78 7444.06 424.28
ubiquitin. [swissprot;acc:p02248] Divided 6158.22 6597.55 1.07134
1609 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832] 5826.74 6242.44
heat shock factor protein 4 (hsf 4) (heat shock transcription factor 4) (hstf 4) (hhsf4). [swissprot;acc:q9ulv5] Low confidence 8141.75 8415.33 1.0336
mitochondrial ribosomal protein l24. [refseq;acc:nm_024540] Subtracted 7744.34 8012.17 267.83
serine/threonine-protein kinase dcamkl1 (ec 2.7.1.-) (doublecortin- like and cam kinase-like 1). [swissprot;acc:o15075] High confidence 6297.05 6721.08 424.03
1610 eif-5a2 protein. [refseq;acc:nm_020390] Divided 6222.4 6665.83 1.07126
ikappab kinase complex-associated protein (ikk complex-associated protein) (p150). [swissprot;acc:o95163] Low confidence 7843.41 8106.95 1.0336
neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825] Subtracted 7897.8 8165.6 267.8
proto-oncogene tyrosine-protein kinase fes/fps (ec 2.7.1.112) (c-fes). [swissprot;acc:p07332] High confidence 6079.19 6503.12 423.93
1611 cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642] Divided 5497.73 5132.35 1.07119
cysteine and histidine-rich domain (chord)-containing, zinc binding protein 1; chord domain-containing protein 1; cysteine and histidine-rich domain (chord)-containing, zinc-binding protein 1. [refseq;acc:nm_012124] Subtracted Low confidence 7849.85 8117.63 267.78
m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304] Divided 7703.86 7962.64 1.03359
molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [swissprot;acc:o96007] Subtracted High confidence 6079.19 6503.12 423.93
1612 anaphase-promoting complex subunit 10; anaphase-promoting complex 10. [refseq;acc:nm_014885]
eukaryotic translation initiation factor 5a (eif-5a) (eif-4d) (rev- binding factor). [swissprot;acc:p10159] Divided 6212.98 6655.12 1.07116
neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297] Subtracted Low confidence 7897.68 8165.45 267.77
zinc finger protein 277. [swissprot;acc:q9nrm2] Divided 7691.32 7949.57 1.03358
1613 60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914] Subtracted High confidence 6079.19 6503.12 423.93
dolichyl-p-mannose:man7glcnac2-pp-dolichyl mannosyltransferase. [refseq;acc:nm_024105] Low confidence 7998.64 8266.4 267.76
igf-ii mrna-binding protein 1. [refseq;acc:nm_006546] Divided 7815.17 8077.42 1.03356
mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] High confidence 6035.6 6464.5 1.07106
1614 craniofacial development protein 1; phosphoprotein (bucentaur). [refseq;acc:nm_006324] Subtracted Low confidence 7998.64 8266.4 267.76
nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946] Divided High confidence 6035.6 6464.5 1.07106
proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [swissprot;acc:p16591] Subtracted 6079.19 6503.12 423.93
ras-related protein rab-5a. [swissprot;acc:p20339] Divided Low confidence 7968.53 8235.92 1.03356
1615 early growth response protein 1 (egr-1) (krox-24 protein) (zif268) (nerve growth factor-induced protein a) (ngfi-a) (transcription factor etr103) (zinc finger protein 225) (at225). [swissprot;acc:p18146] Subtracted 8114.75 8382.5 267.75

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/