MK5 Microarray Data

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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Gene	Rank	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 775 to 824 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	network_comparison	green
388	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Subtracted	56.7244	18.6704	75.3948
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Divided	227.575	1.09015	208.756
389	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Subtracted	56.7252	18.6702	75.3954
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Divided	227.575	1.09015	208.756
390	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]		241.828	1.09011	263.62
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Subtracted	56.7841	18.6629	75.447
391	40s ribosomal protein s16. [swissprot;acc:p17008]	Divided	241.828	1.09011	263.62
	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	Subtracted	225.719	18.647	207.072
392	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	Divided	241.83	1.09008	263.615
	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	Subtracted	239.092	18.613	257.705
393	dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [swissprot;acc:q9h1d9]		238.921	18.406	257.327
	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	Divided	225.719	1.09005	207.072
394	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Subtracted	207.889	18.337	226.226
	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	Divided	218.827	1.08948	238.407
395	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]
	phosducin-like protein (phlp). [swissprot;acc:q13371]	Subtracted	207.908	18.31	226.218
396	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	Divided	240.801	1.08945	262.34
	replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [swissprot;acc:p27694]	Subtracted	207.908	18.31	226.218
397	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]
	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	Divided	110.689	1.08932	101.613
398	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]		218.818	1.0893	238.358
	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	Subtracted	207.908	18.31	226.218
399	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Divided	207.889	1.08821	226.226
	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Subtracted	207.908	18.31	226.218
400	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]		207.931	18.278	226.209
	phosducin-like protein (phlp). [swissprot;acc:q13371]	Divided	207.908	1.08807	226.218
401	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	Subtracted	254.434	18.21	236.224
	replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [swissprot;acc:p27694]	Divided	207.908	1.08807	226.218
402	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	Subtracted	231.802	18.181	249.983
	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]	Divided	207.908	1.08807	226.218
403	microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2]	Subtracted	228.468	17.87	246.338
	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	Divided	207.908	1.08807	226.218
404	bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001]	Subtracted	228.463	17.867	246.33
	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Divided	207.908	1.08807	226.218
405	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]		207.931	1.0879	226.209
	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Subtracted	65.4586	17.5875	83.0461
406	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]		237.109	17.558	254.667
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Divided	265.634	1.08731	244.304
407	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]		239.75	1.08673	260.544
	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Subtracted	237.109	17.558	254.667
408	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Divided	255.112	1.08649	234.804
	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Subtracted	237.109	17.558	254.667
409	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Divided	241.045	1.08641	261.874
	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	Subtracted	237.109	17.558	254.667
410	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]
	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	Divided	233.376	1.0864	253.539
411	60s ribosomal protein l18. [swissprot;acc:q07020]	Subtracted	237.109	17.558	254.667
	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]	Divided	233.376	1.0864	253.539
412	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	Subtracted	251.926	17.379	234.547
	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	Divided	240.788	1.08567	261.416

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.