Probes/transcripts/identifiers we recognize

We will automatically detect and map your probes/transcripts/identifiers to HUGO gene names. For instance, we will map Affy probe IDs to HUGO gene names so that you can enter a HUGO gene name when creating a column in the Visual Spreadsheet and we will pull up the corresponding Affy probes.

You can still load your data if you do not see your identifiers listed. We will just not map them to HUGO genes for you. This means that in the visualization you will need to enter your identifiers as they appear in your file.

Supported probes and other identifiers

  • Affy U133 array (hg19) e.g. 1007_s_at

  • Affy HumanExon1.0ST (hg18) e.g. 2315101

  • Affy Human Gene 1.0 ST array (hg19) e.g. 7896736

  • Affy Human SNP6 array (hg18) e.g. CN_473963

  • Agilent Human gene expression 4X44K array (hg18) e.g. A_23_P100001

  • Agilent SurePrint G3 Human CGH array 2x400K (hg18) e.g. A_16_P01651995

  • Agilent Human 1A array (hg18) e.g. A_23_P149050

  • Exon: GENCODE 19 e.g. ENSE00000327880.1

  • Infinium HumanMethylation27 array GDC version (hg38) e.g. cg00000292

  • Infinium HumanMethylation27 array TCGA legacy version (hg18) e.g. cg26211698

  • Infinium HumanMethylation450 array TCGA legacy version (hg19) e.g. cg13332474

  • Infinium HumanMethylation450 array GDC version (hg38) e.g. cg00000029

Supported genes and transcripts

  • HUGO: human gene symbol (hg18) e.g. TP53

  • HUGO: human gene symbol (hg19) e.g. TP53

  • HUGO: human gene symbol (hg38) e.g. TP53

  • Gene: Ensembl human genes (hg19) e.g. ENSG00000223972

  • Gene: Ensembl human genes (hg38) e.g. ENSG00000223972

  • Gene: GENCODE 19 e.g. ENSG00000223972.4

  • Gene: GENCODE 22 comprehensive e.g. ENSG00000223972.5

  • Gene: GENCODE 23 comprehensive e.g. ENSG00000223972.5

  • Gene: GENCODE 23 basic e.g. ENSG00000223972.5

  • Gene: UCSC Known genes (hg18) e.g. uc001aaa.1

  • Gene: UCSC Known Genes (hg19) e.g. uc001aaa.1

  • Transcript: GENCODE 19 comprehensive e.g. ENST00000456328.2

  • Transcript: GENCODE 23 comprehensive e.g. ENST00000456328.2

  • Transcript: GENCODE 23 basic e.g. ENST00000456328.2

  • Transcript: RefSeq (hg19) e.g. NM_000014

  • miRNA miRBase v13 stem-loop (hg18) e.g. hsa-mir-1977

  • miRNA miRBase v20 stem-loop (hg19) e.g. hsa-mir-1302-2

Contact us if you don't see your gene or probe names in this list and we may be able to add it for you.

FAQ

FAQ: Xena didn't map the right probes

If it looks like we picked the wrong set of probes, please click 'Advanced' next to the 'Import' button on the last screen of the wizard to load data. You can then pick the appropriate probes.