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

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Showing element 375 to 424 of 515 in total

Network Comparison Type  : Subtracted
Value Type  : Ranked
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0

description	Rank	Hugo	Interaction Map
serine/threonine protein kinase 3 (ec 2.7.1.37) (ste20-like kinase mst2) (mst-2) (mammalian ste20-like protein kinase 2) (serine/threonine protein kinase krs-1). [swissprot;acc:q13188]	3111	STK3	High confidence
serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542]	2982	no value
serine/threonine-protein kinase chk1 (ec 2.7.1.-). [swissprot;acc:o14757]	2908	CHEK1
serine/threonine-protein kinase kkialre (ec 2.7.1.-) (cyclin-dependent kinase-like 1). [swissprot;acc:q00532]	3137	CDKL1
serine/threonine-protein kinase receptor r3 precursor (ec 2.7.1.37) (skr3) (activin receptor-like kinase 1) (alk-1) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:p37023]	2952	ACVRL1
set protein (hla-dr associated protein ii) (phapii) (phosphatase 2a inhibitor i2pp2a). [swissprot;acc:q01105]	3039	SET
sex comb on midleg homolog 1. [refseq;acc:nm_012236]	3217	SCMH1
sex comb on midleg-like 2; sex comb on midleg like 2. [refseq;acc:nm_006089]	3120	SCML2
sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503]	2794	SH2B1
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]	2867	no value
signal recognition particle 14 kda protein (srp14) (18 kda alu rna binding protein). [swissprot;acc:p37108]	5032	SRP14	Low confidence
similar to cg5057 gene product. [sptrembl;acc:q9btt4]	2984	MED10	High confidence
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	3032	LYZL1
similar to mob-lak. [refseq;acc:nm_145279]	2937	MOBKL2C
skd1 protein (vacuolar sorting protein 4b). [swissprot;acc:o75351]	3037	VPS4B
skeletal muscle and kidney enriched inositol phosphatase isoform 1; 43-kda form skeletal muscle and kidney enriched inositol phosphatase. [refseq;acc:nm_016532]	2994	no value
small edrk-rich factor 2. [refseq;acc:nm_005770]	2947	SERF2
small nuclear ribonucleoprotein associated protein n (snrnp-n) (sm protein n) (sm-n) (smn) (sm-d) (tissue-specific splicing protein). [swissprot;acc:p14648]	3004	SNRPN
small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678]	3012	SNRPB
snrna activating protein complex 50 kda subunit (snapc 50 kda subunit) (proximal sequence element-binding transcription factor beta subunit) (pse-binding factor beta subunit) (ptf beta subunit). [swissprot;acc:q92966]	2849	SNAPC3
solute carrier family 21 member 15 (organic anion transporter polypeptide-related protein 4) (oatp-rp4) (oatprp4). [swissprot;acc:q9h2y9]	2965	SLCO5A1
	5034		Low confidence
solute carrier family 36 member 1; proton / amino acid symporter; lysosomal amino acid transporter 1. [refseq;acc:nm_078483]	3026	SLC36A1	High confidence
sorting nexin 16. [swissprot;acc:p57768]	3108	SNX16
sparc precursor (secreted protein acidic and rich in cysteine) (osteonectin) (on) (basement membrane protein bm-40). [swissprot;acc:p09486]	3062	SPARC
sparc-like protein 1 precursor (high endothelial venule protein) (hevin) (mast 9). [swissprot;acc:q14515]	2899	SPARCL1
spartin; trans-activated by hepatitis c virus core protein 1. [refseq;acc:nm_015087]	2987	SPG20
speckle-type poz protein. [swissprot;acc:o43791]	3031	SPOP
spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	3038	no value
sperm tail protein shippo1; h-shippo 1. [refseq;acc:nm_053280]	2797	ODF3
spermine synthase (ec 2.5.1.22) (spermidine aminopropyltransferase) (spmsy). [swissprot;acc:p52788]	3118	SMS
spinster-like protein. [sptrembl;acc:q9h2v7]	5023	SPNS1	Low confidence
spir-2 protein (fragment). [sptrembl;acc:q8wwl2]	2879	no value	High confidence
spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106]	2814	SPSB1
spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862]	2806	SPSB4
ss18-like protein 1 (syt homolog-1). [swissprot;acc:o75177]	2766	SS18L1
ssxt protein (synovial sarcoma, translocated to x chromosome) (syt protein). [swissprot;acc:q15532]	2942	SS18
ste20-like kinase; ste2-like kinase. [refseq;acc:nm_016281]	2980	TAOK3
steroidogenic factor 1 (stf-1) (sf-1) (steroid hormone receptor ad4bp) (fushi tarazu factor homolog 1). [swissprot;acc:q13285]	2972	NR5A1
suppressor of actin 1. [refseq;acc:nm_014016]	2826	no value
syndecan-3 (synd3). [swissprot;acc:o75056]	2862	SDC3
syntaxin 5. [swissprot;acc:q13190]	2866	STX5
t-box transcription factor tbx1 (t-box protein 1) (testis-specific t-box protein). [swissprot;acc:o43435]	2771	TBX1
t-cell acute lymphocytic leukemia-1 protein (tal-1 protein) (stem cell protein) (t-cell leukemia/lymphoma-5 protein). [swissprot;acc:p17542]	2865	TAL1
t-cell acute lymphocytic leukemia-2 protein (tal-2 protein). [swissprot;acc:q16559]	2760	TAL2
t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227]	2917	CCT6A
t-complex protein 1, zeta-2 subunit (tcp-1-zeta-2) (cct-zeta-2) (tcp- 1-zeta-like) (cct-zeta-like) (testis-specific tcp20) (testis-specific protein tsa303). [swissprot;acc:q92526]	2995	CCT6B
taube nuss. [refseq;acc:nm_138572]	2967	TAF8
tektin 2 (tektin-t) (testicular tektin b1-like protein). [swissprot;acc:q9uif3]	3156	TEKT2
testis intracellular mediator protein. [refseq;acc:nm_057161]	3019	KLHDC3

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.