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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1601 to 1650 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	network_comparison	green
401	no value	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	Divided	Low confidence	205.017	1.03616	197.863
	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Subtracted		200.057	7.119	192.938
	MKI67IP	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]		High confidence	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	CACNG5	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Subtracted	Low confidence	210.292	7.111	203.181
	NDC80	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]		High confidence	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
	TREX2	x-linked protein sts1769. [swissprot;acc:q99871]		Low confidence	211.253	1.03615	203.883
403	ATRIP	three prime repair exonuclease 1 isoform c; deoxyribonuclease iii, dnaq/mutd (e. coli)-like; 3' repair exonuclease 1; atr interacting protein. [refseq;acc:nm_032166]
	HTRA3	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Subtracted		200.049	7.107	192.942
	MACF1	microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2]		High confidence	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
	GRM2	metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416]	Divided	Low confidence	203.081	1.03613	196
	HTRA4	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	Subtracted		200.049	7.107	192.942
	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Divided	High confidence	207.908	1.08807	226.218
405	no value	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]		Low confidence	203.081	1.03613	196
	AP1G1	adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]	Subtracted		207.442	7.103	200.339
	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	Divided	High confidence	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
	HTRA2	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	Subtracted	Low confidence	200.046	7.103	192.943
	LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Divided		201.095	1.03604	194.099
	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	Subtracted	High confidence	237.109	17.558	254.667
407	no value	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]		Low confidence	201.334	7.092	194.242
	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Divided		201.123	1.03604	194.127
	MRPS9	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]		High confidence	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
	GRM2	metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416]	Subtracted	Low confidence	203.081	7.081	196
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]		High confidence	237.109	17.558	254.667
	JPH4	adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	Divided	Low confidence	207.558	1.03591	200.363
409	no value	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]	Subtracted		203.081	7.081	196
	NFU1	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Divided		149.423	1.03582	144.256
	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]		High confidence	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
	ACTR3B	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]	Subtracted	Low confidence	205.594	7.04	198.554
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]		High confidence	237.109	17.558	254.667
	LSM4	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	Divided	Low confidence	202.074	1.03576	195.097
411	C19orf29	ny-ren-24 antigen (fragment). [sptrembl;acc:q9y5a4]	Subtracted		210.727	7.034	203.693
	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	Divided		214.628	1.03575	222.301
	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]		High confidence	233.376	1.0864	253.539
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Subtracted		237.109	17.558	254.667
412	LIMCH1	similar to lim domain only 7 (fragment). [sptrembl;acc:q8n6m2]		Low confidence	210.594	7.033	203.561
	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]		High confidence	251.926	17.379	234.547
	SF3A2	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428]	Divided	Low confidence	201.711	1.03555	194.787
	UQCRFSL1	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]		High confidence	240.788	1.08567	261.416
413	CACNG4	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Subtracted	Low confidence	210.252	7.012	203.24
	KLF5	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887]	Divided		201.711	1.03555	194.787

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.