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 Network Comparison Type Hugo description Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 425 to 474 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
Network Comparison Type
Hugo
description
Interaction Map
red
green
network_comparison
107 Divided FAM89B mouse mammary turmor virus receptor homolog 1. [refseq;acc:nm_152832] Low confidence 227.429 211.97 1.07293
HOMER1 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] High confidence 252.309 201.998 1.24907
Subtracted PTPRA vacuolar protein sorting 16 (hvps16). [swissprot;acc:q9h269] Low confidence 203.948 189.652 14.296
SNF8 eap30 subunit of ell complex. [refseq;acc:nm_007241] High confidence 209.299 249.187 39.888
108 Divided DLGAP3 disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886] Low confidence 197.731 212.069 1.07251
HOMER3 homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] High confidence 252.296 201.995 1.24902
Subtracted no value disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] Low confidence 197.752 212.031 14.279
SLC39A6 liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] High confidence 209.299 249.187 39.888
109 Divided GNB4 guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 266.933 333.281 1.24856
NEURL neuralized-like. [refseq;acc:nm_004210] Low confidence 232.704 216.996 1.07239
Subtracted CREG1 cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] 197.762 212.013 14.251
GAD2 glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329] High confidence 209.299 249.187 39.888
110 Divided no value disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] Low confidence 197.752 212.031 1.07221
DTX2 deltex 2. [refseq;acc:nm_020892] High confidence 333.144 267.393 1.2459
Subtracted CREG2 cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] Low confidence 197.763 212.011 14.248
NAPG gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] High confidence 209.299 249.187 39.888
111 Divided DTX1 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 332.925 267.274 1.24563
VPS33A vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1] Low confidence 203.914 190.189 1.07217
Subtracted DLGAP1 disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] 197.779 211.983 14.204
GAD1 glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] High confidence 209.299 249.187 39.888
112 Divided CREG1 cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] Low confidence 197.762 212.013 1.07206
PBK t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] High confidence 332.874 267.246 1.24557
Subtracted DLGAP4 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] Low confidence 197.779 211.983 14.204
POLE4 dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33] High confidence 275.754 235.908 39.846
113 Divided CREG2 cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] Low confidence 197.763 212.011 1.07205
KHDRBS3 kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] High confidence 332.874 267.246 1.24557
Subtracted PPP2CA serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] 194.372 234.204 39.832
SLC11A2 natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281] Low confidence 224.763 210.566 14.197
114 Divided DLGAP1 disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] 197.779 211.983 1.07182
KHDRBS1 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] High confidence 332.874 267.246 1.24557
Subtracted B9D1 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 229.818 267.265 37.447
MRPS17 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Low confidence 58 44 14
115 Divided DLGAP4 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] 197.779 211.983 1.07182
KHDRBS2 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] High confidence 332.874 267.246 1.24557
Subtracted HAT1 histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 277.546 240.461 37.085
SLC25A43 mitochondrial solute carrier protein. [refseq;acc:nm_145305] Low confidence 58 44 14
116 Divided GNB3 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] High confidence 268.565 334.483 1.24545
VPS18 vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] Low confidence 204.161 190.791 1.07008
Subtracted no value testican-3 precursor. [swissprot;acc:q9bq16] 220.395 234.389 13.994
HMG20B high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] High confidence 208.52 171.595 36.925
117 Divided F13A1 coagulation factor xiii a chain precursor (ec 2.3.2.13) (protein- glutamine gamma-glutamyltransferase a chain) (transglutaminase a chain). [swissprot;acc:p00488] Low confidence 226.395 211.713 1.06935
NEURL neuralized-like. [refseq;acc:nm_004210] High confidence 332.326 266.948 1.24491
Subtracted ABRA striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166] Low confidence 225.495 211.529 13.966
HMG20A high-mobility group 20a. [refseq;acc:nm_018200] High confidence 208.588 171.778 36.81
118 Divided NDUFA12 nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] 284.753 228.934 1.24382
TGM1 protein-glutamine gamma-glutamyltransferase k (ec 2.3.2.13) (transglutaminase k) (tgase k) (tgk) (tg(k)) (transglutaminase 1) (epidermal tgase). [swissprot;acc:p22735] Low confidence 226.395 211.713 1.06935
Subtracted OSR1 odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] High confidence 274.027 237.79 36.237
SPOCK1 testican-1 precursor (spock protein). [swissprot;acc:q08629] Low confidence 220.254 234.111 13.857
119 Divided NDUFS4 nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] High confidence 318.982 259.004 1.23157
SLC11A1 natural resistance-associated macrophage protein 1 (nramp 1). [swissprot;acc:p49279] Low confidence 225.666 211.107 1.06897

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/