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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2208 to 2257 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
Network Comparison Type
red
green
network_comparison
276 ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] Squared Subtracted 33100.3 41520.6 8420.3
277 40s ribosomal protein s29. [swissprot;acc:p30054] Ranked Divided 241.849 267.642 1.10665
60s ribosomal protein l4 (l1). [swissprot;acc:p36578] Subtracted 239.277 262.434 23.157
cerebral cell adhesion molecule. [refseq;acc:nm_016174] Squared 62198.5 70599.4 8400.9
mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388] Measured 8600.02 9792.49 1192.47
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] Divided 3119.98 2579.49 1.20953
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Rooted 65.9938 73.9449 1.12048
septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] Subtracted 104.459 113.143 8.684
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] Squared Divided 16120.1 20665.7 1.28198
278 40s ribosomal protein s11. [swissprot;acc:p04643] Ranked 241.399 267.088 1.10642
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Squared 16120.1 20665.7 1.28198
importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] Subtracted 34018.3 42373 8354.7
myelin gene expression factor 2. [refseq;acc:nm_016132] Ranked 235.383 258.476 23.093
peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855] Measured 8600.02 9792.49 1192.47
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Rooted Divided 65.9938 73.9449 1.12048
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Subtracted 57.3527 65.7973 8.4446
transcription factor lbx1. [swissprot;acc:p52954] Measured Divided 3119.98 2579.49 1.20953
279 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] Squared Subtracted 30596.2 38919.9 8323.7
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Rooted 42.0574 50.4237 8.3663
histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576] Ranked Divided 252.644 228.42 1.10605
mosaic protein lgn. [swissprot;acc:p81274] Measured 3119.98 2579.49 1.20953
musashi 2 isoform a. [refseq;acc:nm_138962] Squared 15569.5 19953.6 1.28158
neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] Rooted 66.0989 74.0609 1.12046
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Measured Subtracted 4771.21 5961.43 1190.22
trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606] Ranked 242.66 265.715 23.055
280 1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] Squared 30566.4 38866.5 8300.1
ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] Rooted Divided 57.9068 64.8562 1.12001
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Subtracted 42.0577 50.424 8.3663
metastasis-associated protein mta1. [swissprot;acc:q13330] Ranked Divided 252.512 228.356 1.10578
musashi 1. [refseq;acc:nm_002442] Squared 15569.5 19953.6 1.28158
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] Measured Subtracted 677.5 1865.5 1188
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] Divided 3119.98 2579.49 1.20953
transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] Ranked Subtracted 267.208 244.168 23.04
281 60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815] 242.159 265.104 22.945
60s ribosomal protein l17 (l23). [swissprot;acc:p18621] Divided 241.808 267.335 1.10557
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] Rooted Subtracted 42.0684 50.4323 8.3639
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] Measured Divided 3119.98 2579.49 1.20953
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] Subtracted 677.5 1865.5 1188
nuclear protein ukp68. [refseq;acc:nm_024824] Squared Divided 15569.5 19953.6 1.28158
t-complex associated-testis-expressed 1-like (protein 91/23). [swissprot;acc:p51808] Subtracted 52623.3 44380.3 8243
u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661] Rooted Divided 57.9068 64.8562 1.12001
282 chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [swissprot;acc:q09028] Ranked 252.39 228.297 1.10553
double-strand break repair protein mre11a (mre11 homolog 1). [swissprot;acc:p49959] Squared Subtracted 52623.3 44380.3 8243
nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438] Ranked 242.159 265.104 22.945
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] Measured 677.5 1865.5 1188
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] Divided 3119.98 2579.49 1.20953
splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428] Rooted 57.9819 64.9302 1.11984
stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975] Squared 59704 76460.4 1.28066
transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116] Rooted Subtracted 108.671 100.365 8.306
283 60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7] Ranked 242.37 265.255 22.885

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/