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

Results: HTML CSV LaTeX

Showing element 782 to 831 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	network_comparison	green
391	TXNL4A	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	POLR3C	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]		239.092	18.613	257.705
	RPL13A	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	Divided	241.83	1.09008	263.615
393	POLR3F	dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [swissprot;acc:q9h1d9]	Subtracted	238.921	18.406	257.327
	TXNL4A	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	CLTC	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Subtracted	207.889	18.337	226.226
	DPP9	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	Divided	218.827	1.08948	238.407
395	DPP8	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]
	PDCL	phosducin-like protein (phlp). [swissprot;acc:q13371]	Subtracted	207.908	18.31	226.218
396	no value	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	Divided	240.801	1.08945	262.34
	RPA1	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	CCT3	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	Divided	110.689	1.08932	101.613
	RPA2	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]	Subtracted	207.908	18.31	226.218
398	ITGB1BP3	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	Divided	218.818	1.0893	238.358
	PDC	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	Subtracted	207.908	18.31	226.218
399	CLTC	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Divided	207.889	1.08821	226.226
	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Subtracted	207.908	18.31	226.218
400	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]		207.931	18.278	226.209
	PDCL	phosducin-like protein (phlp). [swissprot;acc:q13371]	Divided	207.908	1.08807	226.218
401	MKI67IP	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
	RPA1	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	NDC80	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	Subtracted	231.802	18.181	249.983
	RPA2	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	MACF1	microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2]	Subtracted	228.468	17.87	246.338
	PDC	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	Divided	207.908	1.08807	226.218
404	DST	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
	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Divided	207.908	1.08807	226.218
405	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]		207.931	1.0879	226.209
	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Subtracted	65.4586	17.5875	83.0461
406	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Divided	265.634	1.08731	244.304
	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	Subtracted	237.109	17.558	254.667
407	MRPS9	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	Divided	239.75	1.08673	260.544
	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Subtracted	237.109	17.558	254.667
408	CEBPZ	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Divided	255.112	1.08649	234.804
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Subtracted	237.109	17.558	254.667
409	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Divided	241.045	1.08641	261.874
	RUNX2	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	no value	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
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	Subtracted	237.109	17.558	254.667
411	GTF2H1	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
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Subtracted	237.109	17.558	254.667
412	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]		251.926	17.379	234.547
	UQCRFSL1	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
413	POLR1C	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]		240.913	1.08525	261.45
	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Subtracted	223.202	17.302	205.9
414	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	Divided	232.431	1.08522	252.238
	MAX	max protein. [swissprot;acc:p25912]	Subtracted	227.828	17.267	210.561
415	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	Divided	232.382	1.08514	252.166
	TAF7	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Subtracted	200.586	17.163	183.423
416	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	Divided	240.6	1.08496	261.041

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.