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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Gene Rank Value Type description green Interaction Map Network Comparison Type Filtered network_comparison red
Results: HTML CSV LaTeX Showing element 451 to 500 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
description
green
Interaction Map
Network Comparison Type
network_comparison
red
113 natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281] 210.566 Low confidence Subtracted 14.197 224.763
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] 234.204 High confidence 39.832 194.372
114 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 44 Low confidence 14 58
b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 267.265 High confidence 37.447 229.818
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] 211.983 Low confidence Divided 1.07182 197.779
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] 267.246 High confidence 1.24557 332.874
115 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] 211.983 Low confidence 1.07182 197.779
histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 240.461 High confidence Subtracted 37.085 277.546
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 267.246 Divided 1.24557 332.874
mitochondrial solute carrier protein. [refseq;acc:nm_145305] 44 Low confidence Subtracted 14 58
116 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 334.483 High confidence Divided 1.24545 268.565
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] 171.595 Subtracted 36.925 208.52
testican-3 precursor. [swissprot;acc:q9bq16] 234.389 Low confidence 13.994 220.395
vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] 190.791 Divided 1.07008 204.161
117 coagulation factor xiii a chain precursor (ec 2.3.2.13) (protein- glutamine gamma-glutamyltransferase a chain) (transglutaminase a chain). [swissprot;acc:p00488] 211.713 1.06935 226.395
high-mobility group 20a. [refseq;acc:nm_018200] 171.778 High confidence Subtracted 36.81 208.588
neuralized-like. [refseq;acc:nm_004210] 266.948 Divided 1.24491 332.326
striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166] 211.529 Low confidence Subtracted 13.966 225.495
118 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] 228.934 High confidence Divided 1.24382 284.753
odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] 237.79 Subtracted 36.237 274.027
protein-glutamine gamma-glutamyltransferase k (ec 2.3.2.13) (transglutaminase k) (tgase k) (tgk) (tg(k)) (transglutaminase 1) (epidermal tgase). [swissprot;acc:p22735] 211.713 Low confidence Divided 1.06935 226.395
testican-1 precursor (spock protein). [swissprot;acc:q08629] 234.111 Subtracted 13.857 220.254
119 adiponectin receptor 2. [refseq;acc:nm_024551] 246.371 High confidence 35.211 281.582
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] 259.004 Divided 1.23157 318.982
natural resistance-associated macrophage protein 1 (nramp 1). [swissprot;acc:p49279] 211.107 Low confidence 1.06897 225.666
testican-2 precursor. [swissprot;acc:q92563] 234.047 Subtracted 13.825 220.222
120 nanos (fragment). [sptrembl;acc:q8wy41] 217.479 13.819 203.66
nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] 192.715 High confidence 34.484 227.199
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 327.709 Divided 1.21699 269.278
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 189.965 Low confidence 1.0687 203.016
121 cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] 327.655 High confidence 1.2169 269.254
nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] 192.823 Subtracted 34.379 227.202
segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] 189.985 Low confidence Divided 1.06854 203.007
vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1] 190.189 Subtracted 13.725 203.914
122 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] 234.187 High confidence 34.238 199.949
nanos (fragment). [sptrembl;acc:q8wy41] 217.479 Low confidence Divided 1.06785 203.66
potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980] 327.642 High confidence 1.21688 269.248
vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] 190.791 Low confidence Subtracted 13.37 204.161
123 potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] 327.601 High confidence Divided 1.21681 269.23
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] 190.094 Low confidence 1.06768 202.96
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 193.056 High confidence Subtracted 33.976 227.032
striatin. [swissprot;acc:o43815] 200.796 Low confidence 13.289 214.085
124 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 206.997 13.271 220.268
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] 171.595 High confidence Divided 1.21519 208.52
natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281] 210.566 Low confidence 1.06742 224.763
presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 252.234 High confidence Subtracted 33.45 285.684
125 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 227.616 Low confidence Divided 1.0674 213.243
high-mobility group 20a. [refseq;acc:nm_018200] 171.778 High confidence 1.21429 208.588
prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490] 206.997 Low confidence Subtracted 13.271 220.268
s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991] 252.234 High confidence 33.45 285.684

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/