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 Network Comparison Type description Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 151 to 200 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
green
network_comparison
76 Divided serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154] 4599.26 3058.57 1.50373
Subtracted homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] 20446.1 24136.4 3690.3
77 Divided serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] 4612.39 3093.6 1.49095
Subtracted homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 20446.1 24136.4 3690.3
78 Divided cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 4800.81 7132.71 1.48573
Subtracted homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016] 20446.1 24136.4 3690.3
79 Divided protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 3074.57 4567.51 1.48558
Subtracted homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067] 20446.1 24136.4 3690.3
80 Divided nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] 4133.47 5945.32 1.43834
Subtracted homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719] 20446.1 24136.4 3690.3
81 Divided nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] 4136.36 5943.56 1.43691
Subtracted homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 20446.1 24136.4 3690.3
82 Divided small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 4172.91 5954.48 1.42694
Subtracted retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246] 20446.1 24136.4 3690.3
83 Divided proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 4932.27 7033.29 1.42597
Subtracted protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 21644.2 18098.7 3545.5
84 Divided jun dimerization protein. [refseq;acc:nm_130469] 4932.27 7033.29 1.42597
Subtracted type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210] 21632.5 18090 3542.5
85 Divided fos-related antigen 2. [swissprot;acc:p15408] 4941.95 7037.11 1.42395
Subtracted ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050] 21370.8 17896.5 3474.3
86 Divided protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 4942.49 7037.32 1.42384
Subtracted serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] 21370.8 17896.5 3474.3
87 Divided fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 4944.3 7038.04 1.42347
Subtracted pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913] 20287.2 17083.8 3203.4
88 Divided potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 2411.93 1695.45 1.42259
Subtracted transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116] 16074 12888.4 3185.6
89 Divided cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] 2414.22 1698.12 1.4217
Subtracted leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [swissprot;acc:q9uq13] 16071.6 12886.8 3184.8
90 Divided 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] 2414.77 1698.75 1.4215
Subtracted ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211] 16071.6 12886.8 3184.8
91 Divided potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] 2416.53 1700.8 1.42082
Subtracted transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112] 16070.4 12886 3184.4
92 Divided dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 4117.67 5801.04 1.40882
Subtracted transforming protein n-ras. [swissprot;acc:p01111] 16069.8 12885.6 3184.2
93 Divided formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 4245.52 5942.75 1.39977
Subtracted sedlin. [swissprot;acc:o14582] 17396.9 20483.9 3087
94 Divided huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 4247.86 5941.88 1.39879
Subtracted synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] 17396.9 20483.9 3087
95 Divided son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] 2397.19 3343.62 1.39481
Subtracted bet3 homolog. [swissprot;acc:o43617] 17396.9 20483.9 3087
96 Divided lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 4110.14 5694.99 1.3856
Subtracted septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] 16177.9 19235.4 3057.5
97 Divided amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] 2820.51 3897.1 1.3817
Subtracted septin 10 isoform 1. [refseq;acc:nm_144710] 16067.4 19094.4 3027
98 Divided presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 2353.63 3225.65 1.3705
Subtracted brain protein 44. [swissprot;acc:o95563] 15999.1 19007.1 3008
99 Divided 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] 2353.63 3225.65 1.3705
Subtracted septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] 15999.1 19007.1 3008
100 Divided f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315] 2353.63 3225.65 1.3705
Subtracted septin 6. [swissprot;acc:q14141] 15959.9 18957.1 2997.2

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/