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.

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

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Showing element 168 to 217 of 502 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 0

Rank	Hugo	description	red	green	network_comparison
168	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]	7091.75	6217.28	1.14065
169	GPT	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	9875.43	11256.8	1.13988
170	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	11364	12941	1.13877
171	no value	lamin b2. [swissprot;acc:q03252]	12135.4	13802	1.13733
172	SNAI2	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	12225.7	13893.1	1.13638
173	no value	suppressor of actin 1. [refseq;acc:nm_014016]	19088.1	16804.6	1.13589
174		ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916]	13248.5	11666.4	1.13561
175		thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445]
176		dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	13068	11528	1.13359
177	KCND2	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	14922.7	13174.5	1.1327
178	no value	integral membrane protein cii-3b. [sptrembl;acc:o75609]	14951.6	13204.2	1.13234
179	MVK	mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]	9473.01	10723.7	1.13203
180	NOVA1	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	8407.67	9516.92	1.13193
181	no value	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]	14864.7	16820.7	1.13159
182	NADK	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544]	11573.8	10231.3	1.13121
183	no value	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	11613	13133.5	1.13093
184		similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	6279.56	5569.42	1.12751
185		zinc finger protein 277. [swissprot;acc:q9nrm2]
186		40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]	11935.1	10592.8	1.12672
187	ADSSL1	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]	9955.22	11213.7	1.12641
188	RPL15	60s ribosomal protein l15. [swissprot;acc:p39030]	11745.2	13203.1	1.12413
189	SALL4	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	10634.4	9465	1.12355
190	no value	high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9]	18809.5	16764.2	1.122
191		sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]
192	CCT6A	t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227]	12715.9	11333.2
193	GTF3A	transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]	10899.5	12217.4	1.12091
194	no value	kappa b-ras 1. [refseq;acc:nm_020345]	12657.7	11299.1	1.12024
195	MRPS22	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650]	13942.8	15586.4	1.11788
196	no value	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	11064.2	9897.84	1.11784
197		importin 4. [refseq;acc:nm_024658]	12337.6	13788.9	1.11763
198	RPL10L	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	11781.5	10545.3	1.11723
199	no value	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	11781.8	10545.7	1.11721
200	MTRF1	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	8786.74	7870.3	1.11644
201	no value	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	16853	15123	1.1144
202		serpin b11. [swissprot;acc:q96p15]
203		cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
204	DPP8	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	15081.8	16802.1	1.11406
205	no value	60s ribosomal protein l23a. [swissprot;acc:p29316]	11844.9	10636.3	1.11363
206		hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934]	7479	6716	1.11361
207		dc11 protein. [refseq;acc:nm_020186]
208		c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	11846.3	10638.4	1.11354
209		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	775	696	1.11351
210	MMS19	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	17144.8	15405.6	1.11289
211	no value	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	10367	9320.25	1.11231
212		metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]	18241.7	16405	1.11196
213	P4HB	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]	9379.47	8436.39	1.11179
214	PET112L	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]	7621.99	8473.85	1.11176
215	no value	myosin vi. [swissprot;acc:q9um54]	10121.5	11250.5	1.11154
216	GSTZ1	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	10559.7	11732	1.11102
217	BIRC5	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	7101.79	6406.18	1.10858

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.