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

Results: HTML CSV LaTeX

Showing element 1562 to 1611 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
391	importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [swissprot;acc:q14974]	Squared	28895.6	35572.8	1.23108
	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]	Rooted	50.3345	45.6718	1.10209
	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	Measured	3658.76	3144.39	1.16358
392	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	Ranked	241.83	263.615	1.09008
	60s ribosomal protein l3-like. [swissprot;acc:q92901]	Rooted	50.3313	45.6913	1.10155
	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Measured	3641.89	4236.95	1.16339
	transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [swissprot;acc:o60907]	Squared	28895.6	35572.8	1.23108
393	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	Rooted	49.8842	45.2875	1.1015
	eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]	Measured	4490.28	5222.25	1.16301
	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	Ranked	225.719	207.072	1.09005
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Squared	28895.6	35572.8	1.23108
394	bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]	Measured	4490.28	5222.25	1.16301
	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	Ranked	218.827	238.407	1.08948
	mad protein (max dimerizer). [swissprot;acc:q05195]	Squared	17248.4	21214	1.22991
	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	Rooted	58.6533	64.5958	1.10132
395	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	Ranked	218.827	238.407	1.08948
	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	Squared	17254.4	21218.1	1.22972
	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	Rooted	50.0423	45.4523	1.10098
	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Measured	4532.73	5269.33	1.16251
396	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398]	Rooted	116.797	106.111	1.10071
	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Squared	17256.5	21219.6	1.22966
	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	Ranked	240.801	262.34	1.08945
	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	Measured	6563.65	7627.29	1.16205
397	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Squared	17257.5	21220.3	1.22963
	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	Measured	5367.04	6233.12	1.16137
	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	Rooted	116.792	106.107	1.1007
	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	Ranked	110.689	101.613	1.08932
398	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	Squared	18929.1	23222.8	1.22683
	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	Ranked	218.818	238.358	1.0893
	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	Rooted	116.707	106.044	1.10055
	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	Measured	5084.26	5904.1	1.16125
399	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Ranked	207.889	226.226	1.08821
	cyclin g2. [swissprot;acc:q16589]	Rooted	116.707	106.044	1.10055
	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	Squared	18929.1	23222.8	1.22683
	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	Measured	5201.41	4479.76	1.16109
400	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]
	cyclin g1 (cyclin g). [swissprot;acc:p51959]	Rooted	116.707	106.044	1.10055
	glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	Squared	39478.8	48419	1.22646
	phosducin-like protein (phlp). [swissprot;acc:q13371]	Ranked	207.908	226.218	1.08807
401	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	Measured	5201.41	4479.76	1.16109
	axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645]	Squared	33044.3	40524.8	1.22638
	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]	Ranked	207.908	226.218	1.08807
	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]	Rooted	116.707	106.044	1.10055
402	endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759]	Squared	39472	48393.1	1.22601
	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	Rooted	50.1918	55.2294	1.10037
	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	Measured	5201.41	4479.76	1.16109
	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]	Ranked	207.908	226.218	1.08807
403	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	Measured	5201.41	4479.76	1.16109
	glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	Squared	39463.9	48362.1	1.22548
	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Rooted	59.6834	65.6741	1.10037

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
- 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.