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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 532 to 581 of 8289 in total

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

description	Rank	Hugo	Interaction Map	red	green	network_comparison
adp-ribosylation factor binding protein gga1 (golgi-localized, gamma ear-containing, arf-binding protein 1) (gamma-adaptin related protein 1). [swissprot;acc:q9ujy5]	3022	GGA1	Low confidence	199.98	196.696	1.0167
adp-ribosylation factor binding protein gga2 (golgi-localized, gamma ear-containing, arf-binding protein 2) (gamma-adaptin related protein 2) (vear) (vhs domain and ear domain of gamma-adaptin). [swissprot;acc:q9ujy4]	3016	GGA2		199.984	196.697	1.01671
adp-ribosylation factor binding protein gga3 (golgi-localized, gamma ear-containing, arf-binding protein 3). [swissprot;acc:q9nz52]	3030	GGA3		199.971	196.693	1.01667
adp-ribosylation factor gtpase activating protein 1 (adp-ribosylation factor 1 gtpase activating protein) (arf1 gap) (arf1-directed gtpase- activating protein) (gap protein). [swissprot;acc:q8n6t3]	2156	ARFGAP1	High confidence	200.063	198.71	1.00681
	2704		Low confidence	199.109	195.675	1.01755
adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	2137	ARFGAP3	High confidence	221.248	222.788	1.00696
	3196		Low confidence	200.829	197.655	1.01606
adp-ribosylation factor guanine nucleotide factor 6; hepatocellular carcinoma-associated antigen 67. [refseq;acc:nm_015310]	4149	PSD3		200.724	198.625	1.01057
adp-ribosylation factor-like protein 1. [swissprot;acc:p40616]	2613	ARL1	High confidence	215.497	215.799	1.0014
	4075		Low confidence	200.896	198.695	1.01108
adp-ribosylation factor-like protein 3. [swissprot;acc:p36405]	2520	ARL3	High confidence	215.835	216.341	1.00234
	4553		Low confidence	202.436	200.827	1.00801
adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]	1188	ARL4A	High confidence	218.402	212.904	1.02582
	2587		Low confidence	197.95	194.454	1.01798
adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]	1186	no value	High confidence	218.402	212.904	1.02582
	2585		Low confidence	197.95	194.454	1.01798
adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]	1074	FDX1		191.57	187.103	1.02387
	1105		High confidence	191.139	185.882	1.02828
adrenoleukodystrophy protein (aldp). [swissprot;acc:p33897]	1553	ABCD1	Low confidence	202.418	206.704	1.02117
af-10 protein. [swissprot;acc:p55197]	2101	MLLT10		208.784	204.84	1.01925
af-17 protein. [swissprot;acc:p55198]	2099	MLLT6
af-4 protein (proto-oncogene af4) (fel protein). [swissprot;acc:p51825]	370	AFF1		219.597	211.722	1.0372
af-6 protein. [swissprot;acc:p55196]	1530	MLLT4	High confidence	218.733	214.98	1.01746
	1800		Low confidence	203.545	199.529	1.02013
afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [swissprot;acc:q9y4w6]	1725	AFG3L2	High confidence	217.676	220.53	1.01311
	2773		Low confidence	200.171	196.746	1.01741
aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488]	1586	AKR7A2		190.955	187.021	1.02104
	1969		High confidence	211.633	213.703	1.00978
aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154]	1584	AKR7A3	Low confidence	190.926	186.991	1.02104
	1958		High confidence	211.633	213.703	1.00978
aggrecan core protein precursor (cartilage-specific proteoglycan core protein) (cspcp) (chondroitin sulfate proteoglycan core protein 1). [swissprot;acc:p16112]	2638	ACAN	Low confidence	203.73	200.174	1.01776
ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170]	1157	AIP	High confidence	224.307	230.242	1.02646
	3718		Low confidence	200.599	197.9	1.01364
aladin (adracalin) (gl003). [swissprot;acc:q9nrg9]	4944	AAAS		205.2	204.964	1.00115
alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	1531	GPT		195.485	191.412	1.02128
	2025		High confidence	189.987	191.668	1.00885
alanine aminotransferase 2; glutamic-pyruvate transaminase 2. [refseq;acc:nm_133443]	1514	GPT2	Low confidence	195.292	191.212	1.02134
	2030		High confidence	189.999	191.677	1.00883
alanine--glyoxylate aminotransferase 2, mitochondrial precursor (ec 2.6.1.44) (agt 2) (beta-alanine-pyruvate aminotransferase) (beta- alaat ii). [swissprot;acc:q9byv1]	3990	AGXT2	Low confidence	206.934	209.395	1.01189
alanine-glyoxylate aminotransferase 2-like 1. [refseq;acc:nm_031279]	3727	AGXT2L1		199.247	196.581	1.01356
alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]	633	AARS	High confidence	234.106	248.104	1.05979
	2688		Low confidence	201.799	198.308	1.0176
alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766]	2428	no value	High confidence	192.871	193.555	1.00355
	2504		Low confidence	194.402	190.933	1.01817
alcohol dehydrogenase [nadp+] (ec 1.1.1.2) (aldehyde reductase) (aldo- keto reductase family 1 member a1). [swissprot;acc:p14550]	1910	AKR1A1		201.288	197.387	1.01976
aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	648	ALDH3B1		210.325	216.359	1.02869
	3222		High confidence	0.00001	0.00001	1
aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]	845	ALDH3B2	Low confidence	209.59	215.023	1.02592
	2992		High confidence	0.00001	0.00001	1
aldehyde dehydrogenase family 7 member a1 (ec 1.2.1.3) (antiquitin 1). [swissprot;acc:p49419]	3480	ALDH7A1	Low confidence	201.442	198.465	1.015

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.