WheatOmics 2.0 · Analysis tool
Co-expression
Find genes co-expressed with your query genes in the Wheat grain and biotic-stress co-expression databases, filtered by PCC or Mutual Rank and exportable as TSV.
2 co-expression databases
PCC / MR filters
TSV export
Up to ~50 gene IDs per request
Querying co-expression database…
Results
| # | Query gene | Co-expressed gene | PCC | MR |
|---|
References & data sources
Wheat grain coexpression database:
A total of 90 RNA-seq data of wheat grain samples from 14 studies, were used for co-expression analysis
(PRJNA396738,
PRJNA407398,
PRJNA427246,
PRJNA471426,
PRJNA477934,
PRJNA485741,
PRJEB25639,
PRJEB5314,
PRJEB5135,
PRJEB22854,
PRJEB7795,
PRJNA322418,
PRJNA358808 and
PRJNA532455).
Wheat multiple tissues from PRJEB25639. Shifting the limits in wheat research and breeding using a fully annotated reference genome. International Wheat Genome Sequencing C, investigators IRp, Appels R, Eversole K, Feuillet C, Keller B, et al. Science 2018 361 eaar7191. doi: 10.1126/science.aar7191
MR, an algorithm for calculating the rank of PCC, takes a geometric average of the PCC rank from gene A to gene B and from gene B to gene A. Obayashi T, Kinoshita K. Rank of correlation coefficient as a comparable measure for biological significance of gene coexpression. DNA Res. 2009;16(5):249–260. doi:10.1093/dnares/dsp016
Wheat biotic stress coexpression database (filter-extracted) was built from 73 public RNA-seq projects (65 NCBI BioProjects, 7 EBI/ENA projects, 1 CNGB project): PRJNA1006331, PRJNA1013391, PRJNA1103823, PRJNA1120216, PRJNA1139870, PRJNA1183537, PRJNA1186393, PRJNA1265958, PRJNA1390310, PRJNA243835, PRJNA263755, PRJNA273659, PRJNA297822, PRJNA325136, PRJNA387101, PRJNA387602, PRJNA391049, PRJNA392366, PRJNA395300, PRJNA401295, PRJNA415716, PRJNA450087, PRJNA476783, PRJNA480952, PRJNA484520, PRJNA485724, PRJNA523855, PRJNA613349, PRJNA629995, PRJNA630776, PRJNA655118, PRJNA664372, PRJNA664832, PRJNA674985, PRJNA681568, PRJNA681989, PRJNA683746, PRJNA718488, PRJNA731024, PRJNA737275, PRJNA743515, PRJNA749387, PRJNA786911, PRJNA789469, PRJNA791687, PRJNA798111, PRJNA826345, PRJNA827248, PRJNA836737, PRJNA838495, PRJNA842823, PRJNA843683, PRJNA868874, PRJNA874550, PRJNA883377, PRJNA895679, PRJNA896512, PRJNA909039, PRJNA923775, PRJNA924088, PRJNA957082, PRJNA972630, PRJNA972750, PRJNA975982 and PRJNA976214; EBI/ENA: PRJEB40834, PRJEB41456, PRJEB41503, PRJEB4202, PRJEB44166, PRJEB63085 and PRJEB70648; CNGB: PRJCA055232.
Wheat multiple tissues from PRJEB25639. Shifting the limits in wheat research and breeding using a fully annotated reference genome. International Wheat Genome Sequencing C, investigators IRp, Appels R, Eversole K, Feuillet C, Keller B, et al. Science 2018 361 eaar7191. doi: 10.1126/science.aar7191
MR, an algorithm for calculating the rank of PCC, takes a geometric average of the PCC rank from gene A to gene B and from gene B to gene A. Obayashi T, Kinoshita K. Rank of correlation coefficient as a comparable measure for biological significance of gene coexpression. DNA Res. 2009;16(5):249–260. doi:10.1093/dnares/dsp016
Wheat biotic stress coexpression database (filter-extracted) was built from 73 public RNA-seq projects (65 NCBI BioProjects, 7 EBI/ENA projects, 1 CNGB project): PRJNA1006331, PRJNA1013391, PRJNA1103823, PRJNA1120216, PRJNA1139870, PRJNA1183537, PRJNA1186393, PRJNA1265958, PRJNA1390310, PRJNA243835, PRJNA263755, PRJNA273659, PRJNA297822, PRJNA325136, PRJNA387101, PRJNA387602, PRJNA391049, PRJNA392366, PRJNA395300, PRJNA401295, PRJNA415716, PRJNA450087, PRJNA476783, PRJNA480952, PRJNA484520, PRJNA485724, PRJNA523855, PRJNA613349, PRJNA629995, PRJNA630776, PRJNA655118, PRJNA664372, PRJNA664832, PRJNA674985, PRJNA681568, PRJNA681989, PRJNA683746, PRJNA718488, PRJNA731024, PRJNA737275, PRJNA743515, PRJNA749387, PRJNA786911, PRJNA789469, PRJNA791687, PRJNA798111, PRJNA826345, PRJNA827248, PRJNA836737, PRJNA838495, PRJNA842823, PRJNA843683, PRJNA868874, PRJNA874550, PRJNA883377, PRJNA895679, PRJNA896512, PRJNA909039, PRJNA923775, PRJNA924088, PRJNA957082, PRJNA972630, PRJNA972750, PRJNA975982 and PRJNA976214; EBI/ENA: PRJEB40834, PRJEB41456, PRJEB41503, PRJEB4202, PRJEB44166, PRJEB63085 and PRJEB70648; CNGB: PRJCA055232.