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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Rank Gene Hugo description Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2075 to 2124 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
Interaction Map
red
green
network_comparison
519 SAMSN1 sam-domain protein samsn-1 (sam domain, sh3 domain and nuclear localisation signals protein 1). [swissprot;acc:q9nsi8] Divided Low confidence 204.278 210.893 1.03238
SLC2A11 solute carrier family 2, facilitated glucose transporter, member 11 (glucose transporter type 11) (glucose transporter type 10). [swissprot;acc:q9byw1] Subtracted 205.551 199.117 6.434
520 GYG1 glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976] Divided 200.014 193.745 1.03236
MEGF10 megf10 protein. [refseq;acc:nm_032446] Subtracted 207.949 201.517 6.432
PRPF19 nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] High confidence 223.356 209.149 14.207
SLC35D2 sqv-7-like protein (fragment). [sptrembl;acc:o95454] Divided 214.754 229.565 1.06897
521 DVL3 segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Subtracted 218.702 204.582 14.12
EXOSC4 exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3] Divided 215.237 230.07 1.06891
SLC2A5 solute carrier family 2, facilitated glucose transporter, member 5 (glucose transporter type 5, small intestine) (fructose transporter). [swissprot;acc:p22732] Subtracted Low confidence 205.548 199.116 6.432
SORBS2 arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] Divided 205.451 199.011 1.03236
522 PLRG1 pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] High confidence 222.893 208.523 1.06891
SASH1 sam and sh3 domain containing 1. [refseq;acc:nm_015278] Low confidence 204.276 210.886 1.03236
SFRS11 splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519] Subtracted High confidence 229.709 215.631 14.078
SLC2A9 solute carrier family 2, facilitated glucose transporter, member 9 (glucose transporter type 9). [swissprot;acc:q9nrm0] Low confidence 205.549 199.117 6.432
523 EXOSC2 exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868] Divided High confidence 215.237 230.07 1.06891
HIST1H2BL histone h2b.c (h2b/c). [swissprot;acc:q99880] Subtracted 247.47 233.441 14.029
RNF7 ring finger protein 7; sensitive to apoptosis gene. [refseq;acc:nm_014245] Divided Low confidence 203.162 196.796 1.03235
SLC2A2 solute carrier family 2, facilitated glucose transporter, member 2 (glucose transporter type 2, liver). [swissprot;acc:p11168] Subtracted 205.543 199.115 6.428
524 AP2M1 clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172] 211.788 218.216
EXOSC3 exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5] Divided High confidence 215.237 230.07 1.06891
HIST2H2BA histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778] Subtracted 247.47 233.441 14.029
SLC2A11 solute carrier family 2, facilitated glucose transporter, member 11 (glucose transporter type 11) (glucose transporter type 10). [swissprot;acc:q9byw1] Divided Low confidence 205.551 199.117 1.03231
525 no value histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106] Subtracted High confidence 247.47 233.441 14.029
solute carrier family 2, facilitated glucose transporter, member 3 (glucose transporter type 3, brain). [swissprot;acc:p11169] Low confidence 205.541 199.114 6.427
EXOSC5 exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4] Divided High confidence 215.237 230.07 1.06891
SLC2A5 solute carrier family 2, facilitated glucose transporter, member 5 (glucose transporter type 5, small intestine) (fructose transporter). [swissprot;acc:p22732] Low confidence 205.548 199.116 1.0323
526 no value histone h2b. [refseq;acc:nm_175055] Subtracted High confidence 247.47 233.441 14.029
RRP1 nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182] Divided 250.538 234.401 1.06884
SLC2A4 solute carrier family 2, facilitated glucose transporter, member 4 (glucose transporter type 4, insulin-responsive). [swissprot;acc:p14672] Subtracted Low confidence 205.54 199.114 6.426
SLC2A9 solute carrier family 2, facilitated glucose transporter, member 9 (glucose transporter type 9). [swissprot;acc:q9nrm0] Divided 205.549 199.117 1.0323
527 no value histone h2b.s (h2b/s). [swissprot;acc:p57053] Subtracted High confidence 247.47 233.441 14.029
DDX31 dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779] Divided 248.56 232.579 1.06871
EIF5 eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] Low confidence 208.004 201.497 1.03229
SLC2A14 glucose transporter 14. [refseq;acc:nm_153449] Subtracted 205.541 199.115 6.426
528 no value histone h2b.d (h2b/d). [swissprot;acc:q99877] High confidence 247.47 233.441 14.029
SLC2A1 solute carrier family 2, facilitated glucose transporter, member 1 (glucose transporter type 1, erythrocyte/brain) (hepg2 glucose transporter). [swissprot;acc:p11166] Low confidence 205.533 199.112 6.421
SLC2A2 solute carrier family 2, facilitated glucose transporter, member 2 (glucose transporter type 2, liver). [swissprot;acc:p11168] Divided 205.543 199.115 1.03228
YME1L1 yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263] High confidence 222.146 237.393 1.06864
529 DDX18 atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] 251.653 235.506 1.06856
HIST3H3 histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695] Subtracted 247.47 233.441 14.029
RNF113B zinc finger protein 183-like 1. [refseq;acc:nm_178861] Divided Low confidence 205.116 198.702 1.03228
Subtracted 6.414
530 no value solute carrier family 2, facilitated glucose transporter, member 3 (glucose transporter type 3, brain). [swissprot;acc:p11169] Divided 205.541 199.114 1.03228
HIST1H2BA testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610] Subtracted High confidence 247.47 233.441 14.029
LSM6 u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8] Divided 227.483 212.994 1.06803
SEPHS2 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Subtracted Low confidence 206.406 200.027 6.379
531 no value histone h2b.e (h2b/e). [swissprot;acc:q99879] High confidence 247.47 233.441 14.029
MICAL2 flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632] Low confidence 206.406 200.027 6.379
PRPF19 nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] Divided High confidence 223.356 209.149 1.06793
SLC2A4 solute carrier family 2, facilitated glucose transporter, member 4 (glucose transporter type 4, insulin-responsive). [swissprot;acc:p14672] Low confidence 205.54 199.114 1.03227

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/