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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Rank Gene Value Type description Filtered Network Comparison Type Interaction Map green network_comparison red
Results: HTML CSV LaTeX Showing element 1060 to 1109 of 8289 in total
Value Type  : Ranked
Filtered  : 1
Network Comparison Type  : Divided
Rank
description
Interaction Map
green
network_comparison
red
530 u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8] High confidence 212.994 1.06803 227.483
531 nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] 209.149 1.06793 223.356
solute carrier family 2, facilitated glucose transporter, member 4 (glucose transporter type 4, insulin-responsive). [swissprot;acc:p14672] Low confidence 199.114 1.03227 205.54
532 glucose transporter 14. [refseq;acc:nm_153449] 199.115 205.541
zinc finger-like protein 9. [refseq;acc:nm_033414] High confidence 235.004 1.06782 250.942
533 membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9]
solute carrier family 2, facilitated glucose transporter, member 1 (glucose transporter type 1, erythrocyte/brain) (hepg2 glucose transporter). [swissprot;acc:p11166] Low confidence 199.112 1.03225 205.533
534 guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915] High confidence 235.004 1.06782 250.942
zinc finger protein 216. [swissprot;acc:o76080] Low confidence 178.613 1.03218 184.361
535 dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [swissprot;acc:p52434] High confidence 252.708 1.0678 236.662
protein associated with prk1. [refseq;acc:nm_019006] Low confidence 178.613 1.03218 184.361
536 lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455] High confidence 227.136 1.06778 242.531
ran binding protein 9; novel centrosomal protein ranbpm; ran binding protein, centrosomal. [refseq;acc:nm_005493] Low confidence 197.195 1.03207 203.519
537 megf11 protein. [refseq;acc:nm_032445] 201.517 1.03193 207.951
putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143] High confidence 215.301 1.06736 229.803
538 dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [swissprot;acc:p52436] 253.604 1.06724 237.627
megf10 protein. [refseq;acc:nm_032446] Low confidence 201.517 1.03192 207.949
539 protein cgi-27 (c21orf19-like protein). [swissprot;acc:q9y316] High confidence 252.86 1.06708 236.964
protein x 0001. [refseq;acc:nm_016302] Low confidence 193.489 1.0319 199.661
540 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] High confidence 208.201 1.06703 222.156
Low confidence 200.027 1.03189 206.406
541 flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632] High confidence 208.201 1.06703 222.156
Low confidence 200.027 1.03189 206.406
542 inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [refseq;acc:nm_003866] High confidence 208.201 1.06703 222.156
Low confidence 200.027 1.03189 206.406
543 selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] High confidence 208.201 1.06703 222.156
Low confidence 200.027 1.03189 206.406
544 inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566] High confidence 208.201 1.06703 222.156
Low confidence 200.027 1.03189 206.406
545 c18b11 homolog (44.9kd). [refseq;acc:nm_152260] 196.678 1.03188 202.949
eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537] High confidence 233.287 1.06678 248.866
546 wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] 194.262 1.06671 207.222
z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24] Low confidence 196.678 1.03188 202.949
547 proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108] High confidence 194.346 1.06645 207.26
sestrin 3. [swissprot;acc:p58005] Low confidence 197.023 1.03188 203.305
548 flotillin-1. [swissprot;acc:o75955] 197.022 203.303
tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684] High confidence 194.346 1.06645 207.26
549 proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]
sestrin 2 (hi95). [swissprot;acc:p58004] Low confidence 197.024 1.03188 203.306
550 sestrin 1 (p53-regulated protein pa26). [swissprot;acc:q9y6p5] 197.018 203.299
tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] High confidence 194.346 1.06645 207.26
551 adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5] Low confidence 199.453 1.03166 205.768
grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791] High confidence 194.347 1.06645 207.261
552 crk-like protein. [swissprot;acc:p46109] 194.346 207.26
grb2-related adaptor protein. [swissprot;acc:q13588] Low confidence 197.267 1.03165 203.511
553 adaptor-related protein complex 1, mu 1 subunit (mu-adaptin 1) (adaptor protein complex ap-1 mu-1 subunit) (golgi adaptor ha1/ap1 adaptin mu-1 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 1) (clathrin coat assembly protein ap47) (clathrin coat associated protein ap47) (ap-mu chain family member mu1a). [swissprot;acc:q9bxs5] 199.452 1.03158 205.75
proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] High confidence 194.346 1.06645 207.26
554 nuclear transport factor 2 (ntf-2) (placental protein 15) (pp15). [swissprot;acc:p13662] Low confidence 199.279 1.03157 205.57
proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] High confidence 194.346 1.06645 207.26
555 pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508] Low confidence 195.387 1.03156 201.554

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