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 762 to 811 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
381	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [source:swissprot;acc:q15545]	1	200.586	183.423	1.09357	
382	actin, cytoplasmic 2 (gamma-actin). [source:swissprot;acc:p02571]	0	10449	10061.8	1.03848	
382	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [source:refseq;acc:nm_024885]	1	200.791	183.66	1.09328	
383	chromodomain y-like protein 2. [source:refseq;acc:nm_152342]	0	10273.1	10665.1	1.03816	
383	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [source:swissprot;acc:q14498]	1	237.862	217.739	1.09242	
384	bystin. [source:swissprot;acc:q13895]	0	10833.3	11244.5	1.03796	
384	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [source:swissprot;acc:q01094]	1	266.421	244.236	1.09083	
385	testis-specific chromodomain protein y protein 2. [source:swissprot;acc:q9y6f7]	0	10302.7	10686.7	1.03727	
385	transcription factor e2f2 (e2f-2). [source:swissprot;acc:q14209]	1	266.421	244.236	1.09083	
386	40s ribosomal protein s14 (pro2640). [source:swissprot;acc:p06366]	1	242.238	264.11	1.09029	
386	testis-specific chromodomain y protein 1. [source:swissprot;acc:q9y6f8]	0	10303.7	10687.4	1.03724	
387	40s ribosomal protein s18 (ke-3) (ke3). [source:swissprot;acc:p25232]	1	242.238	264.11	1.09029	
387	thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [source:swissprot;acc:p23919]	0	10481.8	10869.5	1.03699	
388	peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [source:swissprot;acc:o75521]	0	9953.39	10320.9	1.03692	
388	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [source:swissprot;acc:p08578]	1	227.575	208.756	1.09015	
389	homer, neuronal immediate early gene, 1b. [source:refseq;acc:nm_004272]	0	11794.7	11375.4	1.03686	
389	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [source:swissprot;acc:q15356]	1	227.575	208.756	1.09015	
390	60s ribosomal protein l13, mitochondrial (l13mt). [source:swissprot;acc:q9byd1]	1	241.828	263.62	1.09011	
390	alpha-nac protein. [source:sptrembl;acc:q9h009]	0	14204.4	14724.5	1.03662	
391	40s ribosomal protein s16. [source:swissprot;acc:p17008]	1	241.828	263.62	1.09011	
391	nascent-polypeptide-associated complex alpha polypeptide. [source:refseq;acc:nm_005594]	0	14223.9	14738.5	1.03618	
392	60s ribosomal protein l13a (23 kda highly basic protein). [source:swissprot;acc:p40429]	1	241.83	263.615	1.09008	
392	seven in absentia homolog 1. [source:refseq;acc:nm_003031]	0	9854.67	10201.4	1.03518	
393	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [source:swissprot;acc:o14834]	1	225.719	207.072	1.09005	
393	transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [source:swissprot;acc:p23193]	0	12576	13010	1.03451	
394	60s ribosomal protein l12. [source:swissprot;acc:p30050]	0	10196.9	9857.79	1.0344	
394	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [source:refseq;acc:nm_139159]	1	218.827	238.407	1.08948	
395	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [source:refseq;acc:nm_017743]	1	218.827	238.407	1.08948	
395	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [source:sptrembl;acc:q9nq02]	0	10195.5	9856.7	1.03437	
396	60s ribosomal protein l12 like protein. [source:sptrembl;acc:o60886]	0	10194.8	9856.12	1.03436	
396	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [source:swissprot;acc:o75642]	1	240.801	262.34	1.08945	
397	60s ribosomal protein l10a (csa-19). [source:swissprot;acc:p53025]	0	10006.9	9676.53	1.03414	
397	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [source:swissprot;acc:p49368]	1	110.689	101.613	1.08932	
398	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:p32189]	0	16699.2	17267.9	1.03406	
398	muscle-specific beta 1 integrin binding protein. [source:refseq;acc:nm_014446]	1	218.818	238.358	1.0893	
399	clathrin heavy chain 1 (clh-17). [source:swissprot;acc:q00610]	1	207.889	226.226	1.08821	
399	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14409]	0	16703.1	17271.4	1.03402	
400	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14410]	0	16711	17278.4	1.03395	
400	phosducin-like protein (phlp). [source:swissprot;acc:q13371]	1	207.908	226.218	1.08807	
401	replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [source:swissprot;acc:p27694]	1	207.908	226.218	1.08807	
401	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [source:swissprot;acc:q14186]	0	12305.9	11904.9	1.03368	
402	adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [source:swissprot;acc:q9y6q5]	0	10562.4	10918	1.03367	
402	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [source:swissprot;acc:p15927]	1	207.908	226.218	1.08807	
403	phosducin (phd) (33 kda phototransducing protein) (meka protein). [source:swissprot;acc:p20941]	1	207.908	226.218	1.08807	
403	udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [source:swissprot;acc:o75795]	0	9783.63	10111.2	1.03348	
404	dna repair protein rad52 homolog. [source:swissprot;acc:p43351]	1	207.908	226.218	1.08807	
404	udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [source:swissprot;acc:o75310]	0	9783.63	10111.2	1.03348	
405	clathrin heavy chain 2 (clh-22). [source:swissprot;acc:p53675]	1	207.931	226.209	1.0879	
405	udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [source:swissprot;acc:p06133]	0	9783.63	10111.2	1.03348	
406	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [source:swissprot;acc:q07075]	0	9783.63	10111.2	1.03348	

Legend:
- Rank is the rank after comparing the two networks
- 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/