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 Network Comparison Type green Interaction Map description red network_comparison Filtered
Results: HTML CSV LaTeX Showing element 401 to 450 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
green
description
red
network_comparison
201 Divided 211.382 splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] 240.133 1.13601
Subtracted 267.346 60s ribosomal protein l11. [swissprot;acc:p39026] 241.828 25.518
202 Divided 228.784 short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4] 201.478 1.13553
Subtracted 266.079 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 240.758 25.321
203 Divided 228.752 ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6] 201.515 1.13516
Subtracted 266.078 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 240.758 25.32
204 Divided 228.752 short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62] 201.515 1.13516
Subtracted 243.588 calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655] 268.632 25.044
205 Divided 200.968 luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 228.1 1.13501
Subtracted 243.592 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] 268.635 25.043
206 Divided 201.006 luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] 228.085 1.13472
Subtracted 266.414 40s ribosomal protein s15a. [swissprot;acc:p39027] 241.411 25.003
207 Divided 252.234 presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 285.684 1.13261
Subtracted 212.363 eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] 237.312 24.949
208 Divided 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] 285.684 1.13261
Subtracted 265.717 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 240.782 24.935
209 Divided 252.234 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] 285.684 1.13261
Subtracted 265.717 brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567] 240.782 24.935
210 Divided 252.234 cullin homolog 2 (cul-2). [swissprot;acc:q13617] 285.684 1.13261
Subtracted 212.41 rna-binding protein. [refseq;acc:nm_019027] 237.302 24.892
211 Divided 252.234 presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 285.684 1.13261
Subtracted 212.41 apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 237.302 24.892
212 Divided 252.234 cullin homolog 1 (cul-1). [swissprot;acc:q13616] 285.684 1.13261
Subtracted 212.41 ns1-associated protein 1. [refseq;acc:nm_006372] 237.302 24.892
213 Divided 186.95 pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 210.693 1.127
Subtracted 212.41 heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] 237.302 24.892
214 Divided 170.192 lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 191.644 1.12605
Subtracted 266.12 mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] 241.282 24.838
215 Divided 126 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 112 1.125
Subtracted 212.457 eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637] 237.292 24.835
216 Divided 126 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] 112 1.125
Subtracted 201.769 small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 226.471 24.702
217 Divided 126 myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] 112 1.125
Subtracted 267.008 60s ribosomal protein l26. [swissprot;acc:q02877] 242.326 24.682
218 Divided 126 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] 112 1.125
Subtracted 266.999 60s ribosomal protein l35. [swissprot;acc:p42766] 242.333 24.666
219 Divided 126 myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] 112 1.125
Subtracted 266.986 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 242.339 24.647
220 Divided 126 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] 112 1.125
Subtracted 266.986 mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] 242.339 24.647
221 Divided 126 myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 112 1.125
Subtracted 267.151 protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] 242.627 24.524
222 Divided 126 dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 112 1.125
Subtracted 266.673 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 242.153 24.52
223 Divided 126 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] 112 1.125
Subtracted 266.673 serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] 242.153 24.52
224 Divided 165.623 oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348] 185.969 1.12285
Subtracted 266.673 60s ribosomal protein l34. [swissprot;acc:p49207] 242.153 24.52
225 Divided 201.769 small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 226.471 1.12243
Subtracted 266.673 protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] 242.153 24.52

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/