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 Value Type Rank green Filtered Network Comparison Type description network_comparison Interaction Map red
Results: HTML CSV LaTeX Showing element 851 to 900 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
green
Filtered
description
network_comparison
Interaction Map
red
213 5553.79 1 nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983] 1.24896 High confidence 4446.72
8326.47 putative alpha-mannosidase c20orf31 precursor (ec 3.2.1.-). [swissprot;acc:q9bv94] 1.07056 Low confidence 7777.65
214 1968.26 0 zinc finger protein 20 (zinc finger protein kox13) (dkfzp572p0920). [swissprot;acc:p17024] 1.19453 2351.15
5086.49 1 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 1.24827 High confidence 4074.83
9804.73 core1 udp-galactose:n-acetylgalactosamine-alpha-r beta 1,3-galac. [refseq;acc:nm_020156] 1.07014 Low confidence 10492.4
15605.1 0 similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] 1.18447 High confidence 13174.7
215 1968.36 zinc finger protein 11b (fragment). [swissprot;acc:q06732] 1.19453 Low confidence 2351.26
9804.73 1 neurochondrin. [refseq;acc:nm_014284] 1.07014 10492.4
12888.4 transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116] 1.24717 High confidence 16074
15605.1 0 zinc finger protein 277. [swissprot;acc:q9nrm2] 1.18447 13174.7
216 1968.26 zinc finger protein 208. [swissprot;acc:o43345] 1.19453 Low confidence 2351.15
9597.94 1 protein phosphatase 1, regulatory (inhibitor) subunit 12a; myosin phosphatase, target subunit 1. [refseq;acc:nm_002480] 1.06962 8973.23
12886.8 leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [swissprot;acc:q9uq13] 1.24714 High confidence 16071.6
14756 0 ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 1.18256 12478
217 771.309 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 1.17199 903.967
1968.32 zinc finger protein 136. [swissprot;acc:p52737] 1.19453 Low confidence 2351.22
8153.06 1 oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059] 1.06811 7633.16
12886.8 ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211] 1.24714 High confidence 16071.6
218 1968.39 0 zinc finger protein 84 (zinc finger protein hpf2). [swissprot;acc:p51523] 1.19453 Low confidence 2351.3
3118.3 tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258] 1.16907 High confidence 3645.5
7759.2 1 nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2] 1.06774 Low confidence 7266.93
12886 transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112] 1.24712 High confidence 16070.4
219 1968.53 0 zinc finger protein 347 (zinc finger 1111). [swissprot;acc:q96se7] 1.19452 Low confidence 2351.45
7572.88 nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] 1.16896 High confidence 8852.4
8171.53 1 u1 small nuclear ribonucleoprotein a (u1 snrnp a protein). [swissprot;acc:p09012] 1.06769 Low confidence 7653.44
12885.6 transforming protein n-ras. [swissprot;acc:p01111] 1.24711 High confidence 16069.8
220 1968.53 0 zinc finger protein 157 (hzf22). [swissprot;acc:p51786] 1.19452 Low confidence 2351.45
10028.6 1 n-acetylglutamate synthase. [refseq;acc:nm_153006] 1.06734 9395.91
21730 0 small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578] 1.16178 High confidence 18704
33356.5 1 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 1.24361 41482.5
221 1643 0 putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] 1.15998 1905.84
1968.53 zinc finger protein 92 (zinc finger protein htf12) (fragment). [swissprot;acc:q03936] 1.19452 Low confidence 2351.45
9831.19 1 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 1.06715 10491.4
33356.5 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 1.24361 High confidence 41482.5
222 1735.23 0 40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 1.15728 1499.4
1968.45 zinc finger protein 132. [swissprot;acc:p52740] 1.19452 Low confidence 2351.36
10196.2 1 phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617] 1.06695 9556.43
33356.5 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 1.24361 High confidence 41482.5
223 650.724 0 hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 1.15407 750.981
1968.53 zinc finger protein 211 (zinc finger protein c2h2-25). [swissprot;acc:q13398] 1.19452 Low confidence 2351.45
8107.39 1 tropomyosin alpha 3 chain (tropomyosin 3) (tropomyosin gamma). [swissprot;acc:p06753] 1.06672 7600.32
33356.5 cytohesin 4. [swissprot;acc:q9uia0] 1.24361 High confidence 41482.5
224 1968.77 0 zinc finger protein 226. [swissprot;acc:q9nyt6] 1.19451 Low confidence 2351.71
2206.07 60s ribosomal protein l7. [swissprot;acc:p18124] 1.15183 High confidence 1915.27
5839.8 1 malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298] 1.06662 Low confidence 6228.87
33356.5 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 1.24361 High confidence 41482.5
225 1968.59 0 zinc finger protein 93 (zinc finger protein htf34). [refseq;acc:nm_145312] 1.19451 Low confidence 2351.51
7279.6 1 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 1.24114 High confidence 9035
7608 0 polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] 1.15181 8763
8109.6 1 tropomyosin 1 alpha chain (alpha-tropomyosin). [swissprot;acc:p09493] 1.06649 Low confidence 7604

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/