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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3730 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	Filtered	Hugo	description	red	green	network_comparison
1	0	ARFGAP3	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	4294	15915	3.70633
	1	UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	10	24	2.4
2	0	STARD3	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	5865	14977	2.55362
	1	no value	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	15	28	1.86667
3	0		nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	4475.84	11083.9	2.47638
	1	PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	15	28	1.86667
4	0	no value	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	8906	21883	2.45711
	1	PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	15	28	1.86667
5	0	no value	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	5510.5	11965.7	2.17144
	1	PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	15	28	1.86667
6	0	UBE3B	ubiquitin protein ligase. [refseq;acc:nm_130466]	7523	15339.2	2.03897
	1	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	15	28	1.86667
7	0	PERLD1	cab2. [refseq;acc:nm_033419]	21866	10950	1.99689
	1	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	215	322	1.49767
8	0	no value	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	11525	21888	1.89918
	1	HBS1L	hbs1-like. [refseq;acc:nm_006620]	215	322	1.49767
9	0	TBL1Y	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	11525	21888	1.89918
	1	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	212	309	1.45755
10	0	FBP2	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	7509.39	14178.1	1.88805
	1	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]	212	309	1.45755
11	0	ATP9A	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	11627	6248	1.86092
	1	RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	337	232	1.45259
12	0	FPGS	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]	9429.18	5208.84	1.81023
	1	RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	337	232	1.45259
13	0	no value	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]	5210.5	9264.5	1.77804
	1	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	288.754	212.554	1.3585
14	0	no value	dystrophin. [swissprot;acc:p11532]	10232.5	18054.8	1.76446
	1	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	56.6768	75.3531	1.32952
15	0	no value	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	19403	11267	1.72211
	1	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	56.7244	75.3948	1.32914
16	0	CCNH	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	12170.7	20670.6	1.69839
	1	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	56.7252	75.3954	1.32913
17	0	no value	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	11543	6812	1.69451
	1	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	56.7841	75.447	1.32866
18	0	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	22286	13216	1.68629
	1	GBE1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	185.678	245.247	1.32082
19	0	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	22286	13216	1.68629
	1	PYGB	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	185.678	245.247	1.32082
20	0	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	22286	13216	1.68629
	1	PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	185.678	245.247	1.32082
21	0	ACRC	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	6313.38	10621.4	1.68236
	1	MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	185.678	245.247	1.32082
22	0	PNPO	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	20989	12479	1.68195
	1	PYGM	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	185.678	245.247	1.32082
23	0	HGS	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	15520.4	9285.44	1.67148
	1	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	58	44	1.31818
24	0	no value	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	13730.5	8257	1.66289
	1	PANK1	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	58	44	1.31818
25	0	no value	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	13730.5	8257	1.66289
	1	PANK2	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	58	44	1.31818

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.