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 Hugo Value Type Network Comparison Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 401 to 450 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
red
network_comparison
green
201 60s ribosomal protein l11. [swissprot;acc:p39026] RPL11 Subtracted 241.828 25.518 267.346
splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] SF4 Divided 240.133 1.13601 211.382
202 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] RPS4Y2 Subtracted 240.758 25.321 266.079
short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4] TRPC4 Divided 201.478 1.13553 228.784
203 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] no value Subtracted 240.758 25.32 266.078
ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6] TBC1D10A Divided 201.515 1.13516 228.752
204 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] CAPN2 Subtracted 268.632 25.044 243.588
short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62] TRPC5 Divided 201.515 1.13516 228.752
205 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] CAPN1 Subtracted 268.635 25.043 243.592
luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] LUC7L2 Divided 228.1 1.13501 200.968
206 40s ribosomal protein s15a. [swissprot;acc:p39027] RPS15A Subtracted 241.411 25.003 266.414
luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] LUC7L Divided 228.085 1.13472 201.006
207 eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] EIF4G3 Subtracted 237.312 24.949 212.363
presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] PSEN2 Divided 285.684 1.13261 252.234
208 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] no value Subtracted 240.782 24.935 265.717
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] SKP1A Divided 285.684 1.13261 252.234
209 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] BCCIP Subtracted 240.782 24.935 265.717
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] FBXW7 Divided 285.684 1.13261 252.234
210 cullin homolog 2 (cul-2). [swissprot;acc:q13617] CUL2
rna-binding protein. [refseq;acc:nm_019027] no value Subtracted 237.302 24.892 212.41
211 apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] PSEN1 Divided 285.684 1.13261 252.234
212 cullin homolog 1 (cul-1). [swissprot;acc:q13616] CUL1
ns1-associated protein 1. [refseq;acc:nm_006372] SYNCRIP Subtracted 237.302 24.892 212.41
213 heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] HNRNPR
pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] PLDN Divided 210.693 1.127 186.95
214 lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] LASS2 191.644 1.12605 170.192
mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956] MRPL4 Subtracted 241.282 24.838 266.12
215 eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637] EIF4G1 237.292 24.835 212.457
myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] no value Divided 112 1.125 126
216 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] MYH4
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] SNRPD2 Subtracted 226.471 24.702 201.769
217 60s ribosomal protein l26. [swissprot;acc:q02877] RPL26 242.326 24.682 267.008
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] MYH8 Divided 112 1.125 126
218 60s ribosomal protein l35. [swissprot;acc:p42766] RPL35 Subtracted 242.333 24.666 266.999
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] MYH2 Divided 112 1.125 126
219 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] no value Subtracted 242.339 24.647 266.986
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] MYH3 Divided 112 1.125 126
220 mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] MRPL2 Subtracted 242.339 24.647 266.986
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] MYH1 Divided 112 1.125 126
221 myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] no value
protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] EIF1B Subtracted 242.627 24.524 267.151
222 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] no value 242.153 24.52 266.673
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] MYH7B Divided 112 1.125 126
223 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] MYH13
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] SRR Subtracted 242.153 24.52 266.673
224 60s ribosomal protein l34. [swissprot;acc:p49207] RPL34
oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348] SLC15A2 Divided 185.969 1.12285 165.623
225 protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] SEC61A2 Subtracted 242.153 24.52 266.673
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] SNRPD2 Divided 226.471 1.12243 201.769

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
- Hugo is the HGNC identifier if it exists
- 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/