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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 780 to 829 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	network_comparison	green
390	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	ATG4B	Subtracted	56.7841	18.6629	75.447
391	40s ribosomal protein s16. [swissprot;acc:p17008]	RPS16	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]	TXNL4A	Subtracted	225.719	18.647	207.072
392	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	RPL13A	Divided	241.83	1.09008	263.615
	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	POLR3C	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]	POLR3F		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]	TXNL4A	Divided	225.719	1.09005	207.072
394	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	CLTC	Subtracted	207.889	18.337	226.226
	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	DPP9	Divided	218.827	1.08948	238.407
395	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	DPP8
	phosducin-like protein (phlp). [swissprot;acc:q13371]	PDCL	Subtracted	207.908	18.31	226.218
396	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	no value	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]	RPA1	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]	RPA2
	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	CCT3	Divided	110.689	1.08932	101.613
398	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	ITGB1BP3		218.818	1.0893	238.358
	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	PDC	Subtracted	207.908	18.31	226.218
399	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	CLTC	Divided	207.889	1.08821	226.226
	dna repair protein rad52 homolog. [swissprot;acc:p43351]	RAD52	Subtracted	207.908	18.31	226.218
400	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	CLTCL1		207.931	18.278	226.209
	phosducin-like protein (phlp). [swissprot;acc:q13371]	PDCL	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]	MKI67IP	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]	RPA1	Divided	207.908	1.08807	226.218
402	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	NDC80	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]	RPA2	Divided	207.908	1.08807	226.218
403	microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2]	MACF1	Subtracted	228.468	17.87	246.338
	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	PDC	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]	DST	Subtracted	228.463	17.867	246.33
	dna repair protein rad52 homolog. [swissprot;acc:p43351]	RAD52	Divided	207.908	1.08807	226.218
405	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	CLTCL1		207.931	1.0879	226.209
	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	GABARAP	Subtracted	65.4586	17.5875	83.0461
406	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	NETO2		237.109	17.558	254.667
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	no value	Divided	265.634	1.08731	244.304
407	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	MRPS9		239.75	1.08673	260.544
	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	NETO1	Subtracted	237.109	17.558	254.667
408	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	CEBPZ	Divided	255.112	1.08649	234.804
	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	HNRNPU	Subtracted	237.109	17.558	254.667
409	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	POLR1E	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]	RUNX2	Subtracted	237.109	17.558	254.667
410	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	HNRPUL1
	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]	no value	Divided	233.376	1.0864	253.539
411	60s ribosomal protein l18. [swissprot;acc:q07020]	RPL18	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]	GTF2H1	Divided	233.376	1.0864	253.539
412	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	NIP7	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]	UQCRFSL1	Divided	240.788	1.08567	261.416
413	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	POLR1C		240.913	1.08525	261.45
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	TFIP11	Subtracted	223.202	17.302	205.9
414	katanin p60 subunit a 1. [refseq;acc:nm_007044]	KATNA1	Divided	232.431	1.08522	252.238
	max protein. [swissprot;acc:p25912]	MAX	Subtracted	227.828	17.267	210.561
415	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	KATNB1	Divided	232.382	1.08514	252.166

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.