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 Network Comparison Type Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 63974 to 64023 of 66312 in total
Interaction Map  : Low confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
Value Type
red
network_comparison
green
4769 SLC35B1 solute carrier family 35, member b1; udp-galactose transporter related. [refseq;acc:nm_005827] Divided Squared 47854.5 1.0123 47272.9
WASL neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] Subtracted 45702.5 533.3 45169.2
ZBTB20 zinc finger protein 288 (dendritic-derived btb/poz zinc finger protein). [swissprot;acc:q9hc78] Measured 7748.45 100.32 7848.77
4770 IPO13 importin 13; ran binding protein 13. [refseq;acc:nm_014652] Divided 8127.17 1.01251 8228.85
KCNQ3 potassium voltage-gated channel subfamily kqt member 3 (potassium channel alpha subunit kvlqt3) (kqt-like 3). [swissprot;acc:o43525] Subtracted Squared 45564.6 531.2 45033.4
MLL5 myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, drosophila). [refseq;acc:nm_182931] Measured 7836.97 99.33 7936.3
PRAM1 pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Divided Rooted 71.2585 1.01644 72.4297
PSCD1 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] Subtracted 89.3059 1.1675 88.1384
STARD7 star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5] Divided Squared 37051.6 1.0123 36601.5
STX10 syntaxin 10 (syn10). [swissprot;acc:o60499] Ranked 203.126 1.0048 202.155
TOMM70A mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826] Subtracted 204.264 0.931 203.333
4771 KCNQ2 potassium voltage-gated channel subfamily kqt member 2 (neuroblastoma- specific potassium channel alpha subunit kvlqt2) (kqt-like 2). [swissprot;acc:o43526] Squared 45565.5 530.3 45035.2
RPL13A 60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429] Divided Measured 7684.73 1.0125 7780.81
RPL19 60s ribosomal protein l19. [swissprot;acc:p14118] Subtracted Rooted 69.3079 1.1476 70.4555
SASH1 sam and sh3 domain containing 1. [refseq;acc:nm_015278] Divided 72.6632 1.01642 71.4895
SLC12A9 solute carrier family 12 (potassium/chloride transporters), member 9; cation-chloride cotransporter-interacting protein. [refseq;acc:nm_020246] Squared 49409.8 1.01222 50013.5
SNAI2 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Subtracted Measured 7693.28 98.97 7792.25
TTF1 transcription termination factor, rna polymerase i. [refseq;acc:nm_007344] Divided Ranked 200.569 1.00466 199.638
Subtracted 0.931
4772 ACTR8 actin-related protein 8. [swissprot;acc:q9h981] 212.869 0.926 213.795
CDC20 cell division cycle 20; cell division cycle 20, s.cerevisiae homolog. [refseq;acc:nm_001255] Divided Measured 8506.08 1.01248 8612.27
CSRP2 smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] Rooted 69.2723 1.01641 70.4088
EXOSC5 exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4] Ranked 202.127 1.00464 201.193
GNB5 guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] Subtracted Rooted 70.9794 1.1475 72.1269
KCNQ5 potassium voltage-gated channel subfamily kqt member 5 (potassium channel alpha subunit kvlqt5) (kqt-like 5). [swissprot;acc:q9nr82] Squared 45565.9 529.8 45036.1
ORC5L origin recognition complex subunit 5. [swissprot;acc:o43913] Measured 7447.01 98.96 7545.97
VPS41 vacuolar assembly protein vps41 homolog (s53). [swissprot;acc:p49754] Divided Squared 41326.2 1.01215 40830.1
4773 no value tho complex 3. [refseq;acc:nm_032361] 35995.9 1.01209 36431.1
HS6ST1 heparan sulfate 6-o-sulfotransferase; heparan-sulfate 6-sulfotransferase. [refseq;acc:nm_004807] Subtracted Measured 8086.46 98.18 8184.64
MAPKAPK2 map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137] Squared 47375.1 527.5 46847.6
NUCB1 nucleobindin 1 precursor (calnuc). [swissprot;acc:q02818] Divided Measured 7253.07 1.01239 7342.91
PPIC peptidyl-prolyl cis-trans isomerase c (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin c). [swissprot;acc:p45877] Subtracted Ranked 203.794 0.925 202.869
RGS19 regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] Rooted 70.5022 1.1448 71.647
SHCBP1 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] Divided 69.2718 1.0164 70.4081
TOMM70A mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826] Ranked 204.264 1.00458 203.333
4774 no value arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681] Subtracted 203.794 0.925 202.869
COPG coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678] Squared 46251.3 526 45725.3
MGLL monoglyceride lipase; lysophospholipase-like. [refseq;acc:nm_007283] Divided 46715.8 1.01206 46159.1
NUCB2 nucleobindin 2 precursor (dna-binding protein nefa). [swissprot;acc:p80303] Subtracted Measured 7293.48 97.42 7390.9
OSGIN2 protein c8orf1 (ht41). [swissprot;acc:q9y236] Divided Rooted 69.3271 1.01637 70.4623
PPIC peptidyl-prolyl cis-trans isomerase c (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin c). [swissprot;acc:p45877] Ranked 203.794 1.00456 202.869
RGS20 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] Subtracted Rooted 70.5022 1.1448 71.647
VPS4B skd1 protein (vacuolar sorting protein 4b). [swissprot;acc:o75351] Divided Measured 7761.01 1.01236 7856.93
4775 no value arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681] Ranked 203.794 1.00456 202.869
EPN1 epsin 1; eh domain-binding mitotic phosphoprotein. [refseq;acc:nm_013333] Subtracted Squared 45246.5 525.3 45771.8
GULP1 ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315] Divided 46111 1.01205 45561.9
GYS1 glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] Measured 8863.76 1.01235 8973.19
HS6ST2 heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] Subtracted 8093.78 96.82 8190.6
PITRM1 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] Ranked 188.213 0.918 187.295
RGS17 regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] Rooted 70.5022 1.1448 71.647

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/