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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1551 to 1600 of 3228 in total 
Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
1551	cleavage and polyadenylation specific factor 6, 68 kd subunit; pre-mrna cleavage factor im (68kd); cleavage and polyadenylation specific factor 6, 68kd subunit; pre-mrna cleavage factor i, 68kd subunit. [source:refseq;acc:nm_007007]	5732.83	6149.86	1.07274	
1552	atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [source:swissprot;acc:o94762]	6025.86	6464.16	1.07274	
1553	secreted modular calcium-binding protein 1. [source:refseq;acc:nm_022137]	5875.75	6302.76	1.07267	
1554	prefoldin subunit 1. [source:swissprot;acc:o60925]	5875.75	6302.76	1.07267	
1555	secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [source:refseq;acc:nm_022138]	5875.75	6302.76	1.07267	
1556	choline dehydrogenase. [source:refseq;acc:nm_018397]	5875.75	6302.76	1.07267	
1557	vacuolar protein sorting 18 (hvps18). [source:swissprot;acc:q9p253]	6018.7	6455.7	1.07261	
1558	vacuolar protein sorting 33b (hvps33b). [source:swissprot;acc:q9h267]	6048.57	6487.65	1.07259	
1559	vacuolar protein sorting 11 (hvps11) (pp3476). [source:swissprot;acc:q9h270]	6048.57	6487.65	1.07259	
1560	vacuolar protein sorting 33a (hvps33a). [source:swissprot;acc:q96ax1]	6048.57	6487.65	1.07259	
1561	vacuolar protein sorting 16 (hvps16). [source:swissprot;acc:q9h269]	6078.43	6519.6	1.07258	
1562	adenylyl cyclase-associated protein 2 (cap 2). [source:swissprot;acc:p40123]	5984.88	6419.11	1.07255	
1563	proteasome subunit beta type 6 precursor (ec 3.4.25.1) (proteasome delta chain) (macropain delta chain) (multicatalytic endopeptidase complex delta chain) (proteasome subunit y). [source:swissprot;acc:p28072]	6221.35	6672.51	1.07252	
1564	proteasome subunit beta type 9 precursor (ec 3.4.25.1) (proteasome chain 7) (macropain chain 7) (multicatalytic endopeptidase complex chain 7) (ring12 protein) (low molecular mass protein 2). [source:swissprot;acc:p28065]	6257.62	6711.4	1.07252	
1565	proteasome subunit alpha type 2 (ec 3.4.25.1) (proteasome component c3) (macropain subunit c3) (multicatalytic endopeptidase complex subunit c3). [source:swissprot;acc:p25787]	6343.76	6803.44	1.07246	
1566	protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [source:refseq;acc:nm_002481]	5846.67	6269.41	1.0723	
1567	26s protease regulatory subunit 6b (mip224) (mb67 interacting protein) (tat-binding protein-7) (tbp-7). [source:swissprot;acc:p43686]	5822.25	6242.94	1.07226	
1568	protein phosphatase 1, regulatory (inhibitor) subunit 12a; myosin phosphatase, target subunit 1. [source:refseq;acc:nm_002480]	5845.22	6267.34	1.07222	
1569	traf and tnf receptor-associated protein; ets1-associated protein 2. [source:refseq;acc:nm_016614]	5819.37	6239.55	1.0722	
1570	n-acetylglutamate synthase. [source:refseq;acc:nm_153006]	5162.27	5534.71	1.07215	
1571	26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [source:swissprot;acc:p51665]	5851.64	6273.4	1.07208	
1572	proteasome subunit alpha type 1 (ec 3.4.25.1) (proteasome component c2) (macropain subunit c2) (multicatalytic endopeptidase complex subunit c2) (proteasome nu chain) (30 kda prosomal protein) (pros-30). [source:swissprot;acc:p25786]	6068.03	6504.59	1.07194	
1573	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [source:swissprot;acc:p07099]	11785.4	10995.3	1.07186	
1574	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [source:swissprot;acc:o76031]	5106.13	5472.96	1.07184	
1575	dna polymerase delta p38 subunit. [source:refseq;acc:nm_015584]	5106.13	5472.96	1.07184	
1576	mitochondrial ribosomal protein l30 isoform a. [source:refseq;acc:nm_145212]	5923.66	6349.04	1.07181	
1577	26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [source:swissprot;acc:q92524]	5923.66	6349.04	1.07181	
1578	proteasome subunit alpha type 4 (ec 3.4.25.1) (proteasome component c9) (macropain subunit c9) (multicatalytic endopeptidase complex subunit c9) (proteasome subunit l). [source:swissprot;acc:p25789]	6213.27	6659.39	1.0718	
1579	26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232]	5842.44	6261.87	1.07179	
1580	glycogenin-1 (ec 2.4.1.186). [source:swissprot;acc:p46976]	6376.12	6833.59	1.07175	
1581	adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [source:swissprot;acc:p55263]	6376.12	6833.59	1.07175	
1582	protein x 0001. [source:refseq;acc:nm_016302]	6376.12	6833.59	1.07175	
1583	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [source:swissprot;acc:o15488]	6376.12	6833.59	1.07175	
1584	glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [source:swissprot;acc:p23378]	5933.25	6358.78	1.07172	
1585	26s proteasome non-atpase regulatory subunit 13 (26s proteasome regulatory subunit s11) (26s proteasome regulatory subunit p40.5). [source:swissprot;acc:q9unm6]	5858.48	6278.32	1.07166	
1586	ubiquitin-like protein smt3c precursor (ubiquitin-homology domain protein pic1) (ubiquitin-like protein ubl1) (ubiquitin-related protein sumo-1) (gap modifying protein 1) (gmp1) (sentrin). [source:swissprot;acc:q93068]	5784.36	6198.73	1.07164	
1587	udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [source:swissprot;acc:o60701]	5784.36	6198.73	1.07164	
1588	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [source:refseq;acc:nm_015477]	3600.99	3360.33	1.07162	
1589	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [source:swissprot;acc:o43583]	3600.99	3360.33	1.07162	
1590	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [source:refseq;acc:nm_014281]	6364.01	6819.38	1.07155	
1591	multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [source:swissprot;acc:q13155]	6364.01	6819.38	1.07155	
1592	26s proteasome non-atpase regulatory subunit 11 (26s proteasome regulatory subunit s9) (26s proteasome regulatory subunit p44.5). [source:swissprot;acc:o00231]	5853.1	6271.79	1.07153	
1593	proliferating cell nuclear antigen (pcna) (cyclin). [source:swissprot;acc:p12004]	4977.77	5333.78	1.07152	
1594	transportin-sr; importin 12. [source:refseq;acc:nm_012470]	5184.94	5555.76	1.07152	
1595	proteasome subunit beta type 8 precursor (ec 3.4.25.1) (proteasome component c13) (macropain subunit c13) (multicatalytic endopeptidase complex subunit c13). [source:swissprot;acc:p28062]	6351.32	6805.39	1.07149	
1596	enigma protein; lim domain protein. [source:refseq;acc:nm_005451]	5665.34	6070.32	1.07148	
1597	eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [source:swissprot;acc:o15371]	5665.34	6070.32	1.07148	
1598	lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [source:swissprot;acc:p36776]	5068.17	5430.41	1.07147	
1599	40s ribosomal protein s24 (s19). [source:swissprot;acc:p16632]	5184.45	5554.97	1.07147	
1600	14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [source:swissprot;acc:p52758]	6336.22	6788.96	1.07145	

Legend:
- Rank is the rank after comparing the two networks
- 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.
- http://analysis.yellowcouch.org/