phosphonetwork_df: site specific kinase substrate relationship dataset

In ksrlive: Identify Kinase Substrate Relationships Using Dynamic Data

Description

This dataset contains all site specific kinase relationships from PhosphoSitePlus, PhosphoElm, HPRD and PhosphoPoint.

Usage

phosphonetwork_df

Format

'data.frame':	13505 obs. of  34 variables:
 $ SUB_ACC_ID         : chr  "A1KXE4" "A1X283" "A2A9C3" "A2APB8" ...
 $ MODSITE_SEQ        : chr  "QTGYTPGTPYKVSCS" "DMSASAGYEEISDPD" "TPGSLVGSPREASGM" "KIARDPQTPILQTKY" ...
 $ KIN_ACC_ID         : chr  "P24941" "P12931" "Q9JLN9" "P63085" ...
 $ ORG                : Factor w/ 17 levels "chicken","cow",..: 8 8 10 10 10 8 8 10 8 8 ...
 $ KINASE             : chr  "CDK2" "SRC" "MTOR" "ERK2" ...
 $ KIN_GENE_SYMB      : chr  "CDK2" "SRC" "MTOR" "MAPK1" ...
 $ HU_CHR_LOC         : Factor w/ 274 levels "","10p11.1","10p11.23",..: 27 132 1 1 1 7 215 1 173 13 ...
 $ SUBSTRATE          : chr  "FAM168B" "SH3PXD2B" "SZT2" "TPX2" ...
 $ SUB_GENE_ID        : chr  "130074" "285590" "230676" "72119" ...
 $ SUB_GENE_SYMB      : chr  "FAM168B" "SH3PXD2B" "Szt2" "Tpx2" ...
 $ SUB_MOD_RSD        : chr  "T57" "Y508" "S3230" "T369" ...
 $ SITE_GRP_ID        : int  9831677 17303901 14575118 455432 3202029 3963101 975498 468668 451197 454238 ...
 $ IN_VIVO_RXN        : Factor w/ 2 levels " ","X": 1 2 2 1 1 1 2 1 2 2 ...
 $ IN_VITRO_RXN       : Factor w/ 2 levels " ","X": 2 1 1 2 2 2 1 2 2 2 ...
 $ CST_CAT.           : Factor w/ 563 levels "","11817","11834",..: 1 1 1 1 1 1 1 1 1 1 ...
 $ PhosphositePLUS    : num  1 1 1 1 1 1 1 1 1 1 ...
 $ SEQ                : chr  "MNPVYSPGSSGVPYANAKGIGYPAGFPMGYAAAAPAYSPNMYPGANPTFQTGYTPGTPYKVSCSPTSGAVPPYSSSPNPYQTAVYPVRSAYPQQSPYAQQGTYYTQPLYAAPPHVIHHTTVVQPNGM"| __truncated__ "MPPRRSIVEVKVLDVQKRRVPNKHYVYIIRVTWSSGSTEAIYRRYSKFFDLQMQMLDKFPMEGGQKDPKQRIIPFLPGKILFRRSHIRDVAVKRLIPIDEYCKALIQLPPYISQCDEVLQFFETRPE"| __truncated__ "MASERPEPEVEEAGQVFLLMKKDYRISRNVRLAWFLNHLHQTVQATPQELLLQSEQELEVLSVLPPGWQPDEPVVPRPFLLVPSTRVTFLAWQYRFVIELDLSPSTGIVDDSTGEILFDEVFHALSR"| __truncated__ "MSQVPTTYSFDAPTDFINFSSLDAEEDTENIDSWFDEKANLENKFLRQRGIGEPFQGKNSLRKAKLQQGFVTPLKAVDNTYHKETEKENLQKQSIPSNDCSSLDAKRAVSGNTPVQPQRRSIRLSAQ"| __truncated__ ...
 $ PhosphoELM         : num  NA NA NA NA NA NA NA NA NA NA ...
 $ SwissProt          : chr  NA NA NA NA ...
 $ PubMed             : Factor w/ 2842 levels "",";","10023679;",..: NA NA NA NA NA NA NA NA NA NA ...
 $ KIN_GENE_ID        : chr  NA NA NA NA ...
 $ HPRD               : num  NA NA NA NA NA NA NA NA NA NA ...
 $ PhosphoPoint       : num  NA NA NA NA NA NA NA NA NA NA ...
 $ SUB_HPRD_ID        : int  NA NA NA NA NA NA NA NA NA NA ...
 $ SUB_HPRDISO_ID     : Factor w/ 13183 levels "00001_1","00002_1",..: NA NA NA NA NA NA NA NA NA NA ...
 $ KIN_HPRD_ID        : Factor w/ 517 levels "-","00021","00084",..: NA NA NA NA NA NA NA NA NA NA ...
 $ SUB_ACC_ID.human   : chr  "A1KXE4" "A1X283" "Q5T011" "Q9ULW0" ...
 $ Position           : chr  "57" "508" "3230" "369" ...
 $ MODSITE_SEQ.human  : chr  "QTGYTPGTPYKVSCS" "DMSASAGYEEISDPD" "APGSSAGSPGEASGL" "KICRDPQTPVLQTKH" ...
 $ MODSITE_SEQ.mouse  : chr  "QTGYTPGTPYKVSCS" "DLSASTGYEEISDPT" "TPGSLVGSPREASGM" "KIARDPQTPILQTKY" ...
 $ SUB_ACC_ID.mouse   : chr  "Q80XQ8" "A2AAY5" "A2A9C3" "A2APB8" ...
 $ KIN_ACC_ID.human   : chr  "P24941" "P12931" "P42345" "P28482" ...
 $ KIN_GENE_SYMB.human: chr  "CDK2" "SRC" "MTOR" "MAPK1" ...
 $ SUB_IDENT          : chr  "A1KXE4_QTGYTPGTPYKVSCS" "A1X283_DMSASAGYEEISDPD" "Q5T011_APGSSAGSPGEASGL" "Q9ULW0_KICRDPQTPVLQTKH" ...

ksrlive documentation built on May 2, 2019, 10:15 a.m.