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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 301 to 350 of 3730 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
red
green
network_comparison
151 myosin vc (myosin 5c). [swissprot;acc:q9nqx4] 1 55 46 1.19565
u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695] 0 7502.08 6461.83 1.16098
152 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 1 55 46 1.19565
similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] 0 11438 13277.1 1.16079
153 chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 1 249.663 298.263 1.19466
tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258] 0 7879.3 6789.92 1.16044
154 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 10883 12622.8 1.15986
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 1 249.663 298.263 1.19466
155 polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 0 12759.4 11028.8 1.15692
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 1 249.663 298.263 1.19466
156 regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]
tubby protein homolog. [swissprot;acc:p50607] 0 12303.7 10641.7 1.15618
157 transcription factor lbx1. [swissprot;acc:p52954] 1 249.663 298.263 1.19466
transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084] 0 18079 15652 1.15506
158 mosaic protein lgn. [swissprot;acc:p81274] 1 249.663 298.263 1.19466
putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] 0 10060.2 11616.4 1.15469
159 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 5813.32 6706.32 1.15361
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] 1 249.663 298.263 1.19466
160 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 0 11732 13530.6 1.15331
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] 1 249.663 298.263 1.19466
161 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 0 5781.93 6660.63 1.15197
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] 1 249.663 298.263 1.19466
162 nostrin. [refseq;acc:nm_052946] 209.299 249.187 1.19058
putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] 0 12301.4 10680.5 1.15176
163 eap30 subunit of ell complex. [refseq;acc:nm_007241] 1 209.299 249.187 1.19058
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 0 8409.21 9668.79 1.14979
164 dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 11971.7 10412.4 1.14975
liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] 1 209.299 249.187 1.19058
165 glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]
ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [swissprot;acc:p21108] 0 13255.4 15183.2 1.14544
166 gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 1 209.299 249.187 1.19058
my016 protein. [sptrembl;acc:q9h3k6] 0 5561.19 6366.91 1.14488
167 glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] 1 209.299 249.187 1.19058
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 0 12157.6 13890.3 1.14252
168 fos-related antigen 2. [swissprot;acc:p15408] 7091.75 6217.28 1.14065
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 1 82.5916 98.0548 1.18722
169 alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298] 0 9875.43 11256.8 1.13988
apg3p; pc3-96 protein. [refseq;acc:nm_022488] 1 82.5916 98.0548 1.18722
170 low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 0 11364 12941 1.13877
nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] 1 227.199 192.715 1.17894
171 lamin b2. [swissprot;acc:q03252] 0 12135.4 13802 1.13733
nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] 1 227.202 192.823 1.17829
172 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] 174.667 205.556 1.17685
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 0 12225.7 13893.1 1.13638
173 small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 1 227.032 193.056 1.17599
suppressor of actin 1. [refseq;acc:nm_014016] 0 19088.1 16804.6 1.13589
174 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 1 335 286 1.17133
ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916] 0 13248.5 11666.4 1.13561
175 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] 1 199.949 234.187 1.17123
thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445] 0 13248.5 11666.4 1.13561

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/