NOTE! This is a read-only copy of the ENCODE2 wiki.
Please go to the ENCODE3 wiki for current information.
All metadata describing ENCODE experiments must be registered in the DCC controlled vocabularies before data can be submitted. The specific metadata types needed for each experiment type is decided jointly by the production lab and the DCC data wrangler, as part of the data agreement. Mouse ENCODE experiments should reuse applicable terms from the human ENCODE project, listed here:
Commonly used vocabularies are:
Additional vocabularies developed for mouse experiments will include:
|CD-1||Strain CD-1. Multipurpose mouse used for safety and efficacy testing, aging, surgical model, pseudopregnancy.|
|C57BL/6||C57 black 6, the most common inbred strain of laboratory mouse|
|129||Strain 129, has widely available embryonic stem cells|
|C3H||Strain C3H, very related to C57Bl|
|B10.H-2aH-4bp/Wts||Derived by inbreeding from selected F2 progeny of B10.A X B10.129|
|Spretus.BL6-Xist||M.spretus x C57BL/6J hybrid mouse such that the C57Bl/6J X chromosome (maternal) is always the inactive X.|
|Unknown||Unknown strain origin|
|BALB/cJ||BALB/cJ is a common inbred strain of laboratory mouse.|
|129.DLCR/DLCR||129 strain mouse with homozygous deletion of the beta-globin LCR region, see Bender et. al. (2000). Beta-globin gene switching and DNase I sensitivity of the endogenous beta-globin locus in mice do not require the locus control region. Mol. Cell 5, 387–393.|
|E11.5||Embryonic||Embryonic day 11.5|
|E13.5||Embryonic||Embryonic day 13.5|
|E14||Embryonic||Embryonic day 14|
|E14.5||Embryonic||Embryonic day 14.5|
|E18||Embryonic||Embryonic day 18|
|E18.5||Embryonic||Embryonic day 18.5|
|E0||Embryonic||Embroyonic stem cell age|
|immortalized||Cell Line||Immortal cells|
Mouse cell lines, tissues, and primary cells are registered by clicking on the link above.