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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 786 to 835 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
393	TXNL4A	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	High confidence	225.719	207.072	1.09005
394	CRNKL1	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Low confidence	204.815	197.606	1.03648
	DPP9	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	High confidence	218.827	238.407	1.08948
395	no value	rna binding protein. [refseq;acc:nm_032509]	Low confidence	206.88	199.607	1.03644
	DPP8	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	High confidence	218.827	238.407	1.08948
396	no value	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]		240.801	262.34	1.08945
	LEPR	leptin receptor gene-related protein (ob-r gene related protein) (ob- rgrp). [swissprot;acc:o15243]	Low confidence	206.88	199.607	1.03644
397	CCT3	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	High confidence	110.689	101.613	1.08932
	LEPROTL1	leptin receptor overlapping transcript-like 1 (my047 protein). [swissprot;acc:o95214]	Low confidence	206.88	199.607	1.03644
398	ITGB1BP3	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	High confidence	218.818	238.358	1.0893
	YME1L1	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263]	Low confidence	205.997	213.496	1.0364
399	CLTC	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	High confidence	207.889	226.226	1.08821
	GTF3A	transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]	Low confidence	193.291	186.506	1.03638
400	PDCL	phosducin-like protein (phlp). [swissprot;acc:q13371]	High confidence	207.908	226.218	1.08807
	SLC35E1	solute carrier family 35, member e1. [refseq;acc:nm_024881]	Low confidence	203.661	211.03	1.03618
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]		205.017	197.863	1.03616
	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]	High confidence	207.908	226.218	1.08807
402	RPA2	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]
	TREX2	x-linked protein sts1769. [swissprot;acc:q99871]	Low confidence	211.253	203.883	1.03615
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]
	PDC	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]	High confidence	207.908	226.218	1.08807
404	GRM2	metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416]	Low confidence	203.081	196	1.03613
	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]	High confidence	207.908	226.218	1.08807
405	no value	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]	Low confidence	203.081	196	1.03613
	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	High confidence	207.931	226.209	1.0879
406	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]		265.634	244.304	1.08731
	LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Low confidence	201.095	194.099	1.03604
407	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]		201.123	194.127
	MRPS9	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	High confidence	239.75	260.544	1.08673
408	CEBPZ	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]		255.112	234.804	1.08649
	JPH4	adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	Low confidence	207.558	200.363	1.03591
409	NFU1	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]		149.423	144.256	1.03582
	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	High confidence	241.045	261.874	1.08641
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]		233.376	253.539	1.0864
	LSM4	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	Low confidence	202.074	195.097	1.03576
411	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]		214.628	222.301	1.03575
	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	253.539	1.0864
412	SF3A2	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428]	Low confidence	201.711	194.787	1.03555
	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	261.416	1.08567
413	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]	Low confidence	201.711	194.787	1.03555
	POLR1C	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	High confidence	240.913	261.45	1.08525
414	ACTR3B	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]	Low confidence	205.594	198.554	1.03546
	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	High confidence	232.431	252.238	1.08522
415	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]		232.382	252.166	1.08514
	PPP2R5A	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Low confidence	203.463	196.495	1.03546
416	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]		207.442	200.339	1.03545
	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	High confidence	240.6	261.041	1.08496
417	OXA1L	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	Low confidence	211.182	203.991	1.03525
	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	High confidence	233.539	253.197	1.08417
418	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]

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.