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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Rank Value Type green description Network Comparison Type Interaction Map network_comparison Filtered red
Results: HTML CSV LaTeX Showing element 451 to 500 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
green
description
Network Comparison Type
Interaction Map
network_comparison
red
113 234.204 serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] Subtracted High confidence 39.832 194.372
267.246 kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] Divided 1.24557 332.874
114 44 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Subtracted Low confidence 14 58
211.983 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] Divided 1.07182 197.779
267.246 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] High confidence 1.24557 332.874
267.265 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] Subtracted 37.447 229.818
115 44 mitochondrial solute carrier protein. [refseq;acc:nm_145305] Low confidence 14 58
211.983 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] Divided 1.07182 197.779
240.461 histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] Subtracted High confidence 37.085 277.546
267.246 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Divided 1.24557 332.874
116 171.595 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] Subtracted 36.925 208.52
190.791 vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] Divided Low confidence 1.07008 204.161
234.389 testican-3 precursor. [swissprot;acc:q9bq16] Subtracted 13.994 220.395
334.483 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] Divided High confidence 1.24545 268.565
117 171.778 high-mobility group 20a. [refseq;acc:nm_018200] Subtracted 36.81 208.588
211.529 striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166] Low confidence 13.966 225.495
211.713 coagulation factor xiii a chain precursor (ec 2.3.2.13) (protein- glutamine gamma-glutamyltransferase a chain) (transglutaminase a chain). [swissprot;acc:p00488] Divided 1.06935 226.395
266.948 neuralized-like. [refseq;acc:nm_004210] High confidence 1.24491 332.326
118 211.713 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 1.06935 226.395
228.934 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] High confidence 1.24382 284.753
234.111 testican-1 precursor (spock protein). [swissprot;acc:q08629] Subtracted Low confidence 13.857 220.254
237.79 odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] High confidence 36.237 274.027
119 211.107 natural resistance-associated macrophage protein 1 (nramp 1). [swissprot;acc:p49279] Divided Low confidence 1.06897 225.666
234.047 testican-2 precursor. [swissprot;acc:q92563] Subtracted 13.825 220.222
246.371 adiponectin receptor 2. [refseq;acc:nm_024551] High confidence 35.211 281.582
259.004 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] Divided 1.23157 318.982
120 189.965 segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] Low confidence 1.0687 203.016
192.715 nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] Subtracted High confidence 34.484 227.199
217.479 nanos (fragment). [sptrembl;acc:q8wy41] Low confidence 13.819 203.66
327.709 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] Divided High confidence 1.21699 269.278
121 189.985 segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] Low confidence 1.06854 203.007
190.189 vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1] Subtracted 13.725 203.914
192.823 nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] High confidence 34.379 227.202
327.655 cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] Divided 1.2169 269.254
122 190.791 vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] Subtracted Low confidence 13.37 204.161
217.479 nanos (fragment). [sptrembl;acc:q8wy41] Divided 1.06785 203.66
234.187 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] Subtracted High confidence 34.238 199.949
327.642 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] Divided 1.21688 269.248
123 190.094 segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Low confidence 1.06768 202.96
193.056 small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Subtracted High confidence 33.976 227.032
200.796 striatin. [swissprot;acc:o43815] Low confidence 13.289 214.085
327.601 potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] Divided High confidence 1.21681 269.23
124 171.595 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] 1.21519 208.52
206.997 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] Subtracted Low confidence 13.271 220.268
210.566 natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281] Divided 1.06742 224.763
252.234 presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] Subtracted High confidence 33.45 285.684
125 171.778 high-mobility group 20a. [refseq;acc:nm_018200] Divided 1.21429 208.588
206.997 prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490] Subtracted Low confidence 13.271 220.268
227.616 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] Divided 1.0674 213.243
252.234 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] Subtracted 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/