Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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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 [...,...].

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

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Showing element 501 to 550 of 38536 in total

Filtered

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Value Type

: Measured
Network Comparison Type

: Divided

green	description	network_comparison	Interaction Map	Rank	red
958.726	keratin associated protein 1.5. [refseq;acc:nm_031957]	1.05539	Low confidence	524	1011.83
958.726	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]			525
958.728	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]			526
958.728	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]			522
958.732	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	1.05538		527
958.745	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	1.05537		531
958.745	keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]	1.05537		532
958.748	keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]	1.05538		528	1011.84
958.749	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]	1.05538		529
958.753	similar to peptidylprolyl isomerase a (cyclophilin a); cyclophilin-lc; cyclophilin homolog overexpressed in liver cancer; chromosome 1 amplified sequence 2. [refseq;acc:nm_178230]	1.05537		530
959.463	keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191]	1.05484		536	1012.08
961.098	scribble. [refseq;acc:nm_015356]	1.00278	High confidence	484	958.429
965.202	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	1.2878	Low confidence	144	749.494
969.022	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720]	1.00304		810	966.085
971.37	dystrophin. [swissprot;acc:p11532]	1.00552		794	976.734
975	lamin-like protein in hindiii repetitive element derived dna, 3' end (fragment). [sptrembl;acc:q14755]	1.5625		92	624
	line-1 reverse transcriptase (fragment). [sptrembl;acc:o00172]			93
	putative p150. [sptrembl;acc:o00370]			91
	rna transcribed from l1 repetitive element (shr4) (fragment). [sptrembl;acc:q9y443]			90
975.647	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	1.12024	High confidence	277	870.93
975.647		1.12024	Low confidence	367	870.93
977	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]	1.47595	High confidence	102	1442
977	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7]	1.47595		101	1442
988.882	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	1.06044		369	1048.65
989.438	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	1.06041		370	1049.21
991.072	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	1.11025	Low confidence	391	1100.34
992.083	60s ribosomal protein l21. [swissprot;acc:p46778]	1.73441	High confidence	72	572
994.275	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	1.02465	Low confidence	662	1018.78
1005.42	mitochondrial ribosomal protein l38. [refseq;acc:nm_032478]	1.09699		411	916.527
1006.57	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	1.00558		792	1012.19
1010.2	solute carrier family 4, sodium bicarbonate cotransporter, member 8. [refseq;acc:nm_004858]	1.06023		498	952.812
1011.49	tera protein. [refseq;acc:nm_021238]	1.01291		745	1024.55
1011.67	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	1.37602		112	1392.08
1015.49	scratch; scratch 1. [refseq;acc:nm_031309]	1.00479		798	1020.35
1020.78	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	1.16449		315	876.587
1020.84	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	1.16456		314	876.587
1023.76	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	1.22025	High confidence	189	1249.24
1026.18	glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104]	1.19915	High confidence	199	1230.54
1035.81	60s ribosomal protein l15. [swissprot;acc:p39030]	1.03681	Low confidence	599	1073.94
1036.1	dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313]	1.10804		393	1148.04
1049.11	calponin h2, smooth muscle (neutral calponin). [swissprot;acc:q99439]	1.36592		114	768.061
1060	h2a histone family, member j isoform 1. [refseq;acc:nm_018267]	1.05047		561	1113.5
	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]			559
	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]			558
	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]			560
1061.23	solute carrier family 12 (potassium/chloride transporters), member 9; cation-chloride cotransporter-interacting protein. [refseq;acc:nm_020246]	1.04494		576	1108.92
1063.6	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	1.2107		183	1287.7
1066.67	alpha 2 globin. [refseq;acc:nm_000517]	1.03569		602	1104.74
1067.65	hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096]	1.03559		604	1105.65
1068	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292]	1.75947	High confidence	70	607

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.

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