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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2930 to 2979 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Value Type
red
green
network_comparison
733 FZR1 fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263] Measured 13241.4 11864 1.1161
NOL6 nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917] Rooted 52.0099 55.5904 1.06884
TCIRG1 vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488] Squared 26029.1 30413.6 1.16845
734 no value presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8] Ranked 232.601 244.534 1.0513
ATP6V0A1 vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050] Squared 26032.5 30417.7 1.16845
LOH12CR1 loh1cr12. [refseq;acc:nm_058169] Rooted 57.805 61.7803 1.06877
PCSK5 proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824] Measured 13241.4 11864 1.1161
735 ATP6V0A4 atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632] Squared 26030.5 30415.2 1.16844
ATP6V0C vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449] Measured 5768.32 6434.78 1.11554
CSDE1 unr protein. [swissprot;acc:o75534] Rooted 57.805 61.7803 1.06877
RANP1 gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080] Ranked 232.601 244.534 1.0513
736 no value presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]
OSGEPL1 putative sialoglycoprotease type 2. [refseq;acc:nm_022353] Squared 22017.1 25721.9 1.16827
SGCZ sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167] Measured 5768.32 6434.78 1.11554
WDR3 wd-repeat protein 3. [swissprot;acc:q9unx4] Rooted 51.5438 55.0853 1.06871
737 no value pnas-18. [sptrembl;acc:q9bzu3] 97.8205 91.5467 1.06853
ACBD3 golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735] Measured 5768.32 6434.78 1.11554
SEPT10 septin 10 isoform 1. [refseq;acc:nm_144710] Ranked 125.526 119.402 1.05129
TLE2 transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725] Squared 31479.4 36770.8 1.16809
738 no value transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724] 31467.1 36752.2 1.16796
SGCD delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629] Measured 5768.32 6434.78 1.11554
STX7 syntaxin 7. [swissprot;acc:o15400] Rooted 61.5022 65.7076 1.06838
XAB2 xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7] Ranked 222.825 211.966 1.05123
739 EXOC5 exocyst complex component sec10 (hsec10). [swissprot;acc:o00471] Rooted 65.3677 69.828 1.06823
MARCH8 cellular modulator of immune recognition. [refseq;acc:nm_145021] Measured 5768.32 6434.78 1.11554
PFAS phosphoribosylformylglycinamidine synthase (ec 6.3.5.3) (fgam synthase) (fgams) (formylglycinamide ribotide amidotransferase) (fgarat) (formylglycinamide ribotide synthetase). [swissprot;acc:o15067] Ranked 223.58 235.027 1.0512
RNASEH2A ribonuclease hi large subunit (ec 3.1.26.-) (rnase hi large subunit) (rnase h(35)) (ribonuclease h2) (rnase h2). [swissprot;acc:o75792] Squared 25727.7 30046.7 1.16787
740 ATIC bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939] Ranked 223.58 235.027 1.0512
ATP6V0B vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437] Measured 5768.32 6434.78 1.11554
CSNK2A1P casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138] Rooted 53.1114 56.7251 1.06804
OSGEP o-sialoglycoprotein endopeptidase. [refseq;acc:nm_017807] Squared 22075.1 25775.1 1.16761
741 CSNK2A2 casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784] Rooted 53.1114 56.7251 1.06804
PAICS multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234] Ranked 223.58 235.027 1.0512
SGCG gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326] Measured 5768.32 6434.78 1.11554
SNW1 nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573] Squared 23894.7 27894.5 1.16739
742 BRP44 brain protein 44. [swissprot;acc:o95563] Ranked 126.215 120.078 1.05111
BTF3 transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290] Rooted 67.0234 71.5506 1.06755
EIF3G eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821] Measured 4131.04 4607.9 1.11543
EN2 homeobox protein engrailed-2 (hu-en-2). [swissprot;acc:p19622] Squared 31406.6 36662.8 1.16736
743 CXXC1 cpg binding protein (protein containing phd finger and cxxc domain 1). [swissprot;acc:q9p0u4]
EIF3A eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152] Measured 4131.04 4607.9 1.11543
KATNA1 katanin p60 subunit a 1. [refseq;acc:nm_007044] Rooted 54.4988 51.0573 1.0674
SEPT7 septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Ranked 126.215 120.078 1.05111
744 ABT1 activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375] Squared 31406.6 36662.8 1.16736
CTPS2 cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [refseq;acc:nm_019857] Measured 12515.4 11221.1 1.11535
DCTN5 dynactin 4. [refseq;acc:nm_032486] Rooted 55.2242 51.7372 1.0674
SEPT6 septin 6. [swissprot;acc:q14141] Ranked 126.604 120.463 1.05098
745 no value cytokine-like nuclear factor n-pac. [refseq;acc:nm_032569] Squared 31406.6 36662.8 1.16736
transcription factor btf3 homolog 3. [swissprot;acc:q13892] Rooted 67.0475 71.5566 1.06725
NET1 neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863] Measured 4086.6 4557.68 1.11527

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.
- http://analysis.yellowcouch.org/