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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2451 to 2500 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
1226 ATP1A1 sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [swissprot;acc:p05023] Low confidence 203.499 198.964 1.02279
UBE2E4P ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357] High confidence 166.846 170.989 1.02483
1227 ATP1A2 sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] Low confidence 203.499 198.964 1.02279
PYCR2 pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328] High confidence 172.365 168.219 1.02465
1228 CALML3 calmodulin-related protein nb-1 (calmodulin-like protein) (clp). [swissprot;acc:p27482] Low confidence 201.109 196.63 1.02278
GCLM glutamate--cysteine ligase regulatory subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs light chain) (glutamate--cysteine ligase modifier subunit). [swissprot;acc:p48507] High confidence 213.079 218.325 1.02462
1229 ARF1 adp-ribosylation factor 1. [swissprot;acc:p32889] Low confidence 202.83 198.315 1.02277
GCLC glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [swissprot;acc:p48506] High confidence 213.079 218.325 1.02462
1230 IL4I1 interleukin-4 induced protein 1 precursor (fig-1 protein). [swissprot;acc:q96rq9] 219.55 214.288 1.02456
ZIC3 zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481] Low confidence 204.929 200.371 1.02275
1231 PGAM4 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] High confidence 212.724 207.637 1.0245
TOMM22 mitochondrial import receptor subunit tom22 homolog (translocase of outer membrane 22 kda subunit homolog) (htom22) (1c9-2). [swissprot;acc:q9ns69] Low confidence 202.8 198.291 1.02274
1232 PYCR1 pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] High confidence 172.543 168.417 1.0245
RAD51 dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609] Low confidence 200.818 196.355 1.02273
1233 no value phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] High confidence 212.724 207.637 1.0245
ZIC1 zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915] Low confidence 204.913 200.361 1.02272
1234 PGAM2 phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259] High confidence 212.724 207.637 1.0245
TIPRL cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] Low confidence 194.777 199.203 1.02272
1235 no value keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] High confidence 219.356 224.723 1.02447
WIPF1 wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] Low confidence 199.238 194.813 1.02271
1236 no value keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] High confidence 219.354 224.699 1.02437
KCTD10 mstp028 protein. [refseq;acc:nm_031954] Low confidence 204.242 199.707 1.02271
1237 no value keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062] High confidence 219.354 224.699 1.02437
PI4K2B phosphatidylinositol 4-kinase type-ii beta; likely ortholog of mouse phosphatidylinositol 4-kinase type 2 beta. [refseq;acc:nm_018323] Low confidence 198.635 194.227 1.0227
1238 no value ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 202.15 197.664
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] High confidence 219.354 224.699 1.02437
1239 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
[pyruvate dehydrogenase [lipoamide]]-phosphatase 2, mitochondrial precursor (ec 3.1.3.43) (pdp 2) (pyruvate dehydrogenase phosphatase, catalytic subunit 2) (pdpc 2). [swissprot;acc:q9p2j9] Low confidence 202.786 198.286 1.02269
1240 dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] 201.458 196.99 1.02268
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] High confidence 219.354 224.7 1.02437
1241 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]
TOP2B dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] Low confidence 201.449 196.981 1.02268
1242 no value keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] High confidence 219.354 224.7 1.02437
KCTD13 polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863] Low confidence 204.227 199.699 1.02267
1243 no value keratin associated protein 1.5. [refseq;acc:nm_031957] High confidence 219.354 224.699 1.02437
TNFAIP1 tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829] Low confidence 204.228 199.7 1.02267
1244 PI4K2A phosphatidylinositol 4-kinase type ii. [refseq;acc:nm_018425] 198.639 194.235
STARD6 star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] High confidence 219.354 224.7 1.02437
1245 KRTAP5-8 keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690] 224.699
PROSC proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903] Low confidence 200.278 195.84 1.02266
1246 no value keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] High confidence 219.354 224.699 1.02437
PPM2C [pyruvate dehydrogenase [lipoamide]]-phosphatase 1, mitochondrial precursor (ec 3.1.3.43) (pdp 1) (pyruvate dehydrogenase phosphatase, catalytic subunit 1) (pdpc 1). [swissprot;acc:q9p0j1] Low confidence 202.791 198.299 1.02265
1247 CNOT8 ccr4-not transcription complex, subunit 8 (caf1-like protein) (califp). [swissprot;acc:q9uff9] 202.14 197.663
STARD5 star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2] High confidence 219.354 224.7 1.02437
1248 KRTAP4-4 keratin associated protein 4.4. [refseq;acc:nm_032524] 224.699
MCM5 dna replication licensing factor mcm5 (cdc46 homolog) (p1-cdc46). [swissprot;acc:p33992] Low confidence 202.294 197.813 1.02265
1249 no value alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] High confidence 219.354 224.7 1.02437
MDN1 midasin (midas-containing protein). [swissprot;acc:q9nu22] Low confidence 202.087 197.614 1.02264
1250 HAAO 3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952] 180.665 176.667 1.02263
LIMS1 pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059] High confidence 219.354 224.7 1.02437

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/