annotation.txt (24.58 kB)

Sample meta data

Download (24.58 kB)
posted on 10.05.2018 by David Knowles, Courtney Burrows, John Blischak, Kristen Patterson, Daniel Serie, Nadine Norton, Carole Ober, Jonathan Pritchard, Yoav Gilad
meta data associated with each sample, and columns: * **id** - unique ID for sample. Composed of sample number, cell line, and dosage information. * **sample** - sample number. Range from 1-230. Each set of 5 are the treatments for one individual, in increasing concentrations of dox. * **cell_line** - the cell line number. Each cell line corresponds one individual. * **dbgap** - anonymized ID for matching cell_line to genotypes. * **sample_id** - anonymized ID assigned to each unique combination of `dbgap` and `dosage. * **dosage** - the concentration of dox used in the treatment. * **rin** - the RNA Integrity Number (RIN). Range from 1-10. * **rna_conc** - the RNA concentration (ng/uL) after RNA extraction. * **lib_prep_batch** - the batches the libraries were prepared in. * **index** - the TruSeq adapter index used for multiplexing. * **library_conc** - the concentration (ng/uL) of the library measured on the Bioanalyzer. * **fragment_size** - the mean fragment size as measured on the Bioanalyzer. * **qpcr** - the library concentration (nmol) as measured via qPCR. * **qpcr_dilute** - the concentration (nmol) of the diluted library. * **master_mix** - the master mix for pooling libraries. 10 samples (2 individuals) per master mix. * **lane_perc** - The percentage of sequences in one lane that were assigned to a sample.