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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 764 to 813 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
382	TAF7L	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	High confidence	200.791	183.66	1.09328
383	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Low confidence	205.921	198.554	1.0371
	RBM39	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	High confidence	237.862	217.739	1.09242
384	E2F1	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]		266.421	244.236	1.09083
	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Low confidence	205.918	198.554	1.03709
385	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	High confidence	266.421	244.236	1.09083
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Low confidence	201.176	193.984	1.03708
386	POLE4	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]		205.821	198.494	1.03691
	RPS14	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	High confidence	242.238	264.11	1.09029
387	no value	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]
	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Low confidence	200.057	192.938	1.0369
388	no value	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	High confidence	227.575	208.756	1.09015
	HTRA3	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Low confidence	200.049	192.942	1.03683
389	HTRA4	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]
	SNRPF	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	High confidence	227.575	208.756	1.09015
390	no value	solute carrier family 35, member e2. [refseq;acc:nm_182838]	Low confidence	203.647	211.144	1.03681
	MRPL13	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	High confidence	241.828	263.62	1.09011
391	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]	Low confidence	200.046	192.943	1.03681
	RPS16	40s ribosomal protein s16. [swissprot;acc:p17008]	High confidence	241.828	263.62	1.09011
392	NUBP1	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Low confidence	200.894	193.766	1.03679
	RPL13A	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	High confidence	241.83	263.615	1.09008
393	no value	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Low confidence	201.334	194.242	1.03651
	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

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.