sorry, we can't preview this file

l1000.db.bz2 (4.67 GB)

l1000.db: SQLite database of LINCS L1000 metadata

dataset

posted on 2016-03-08, 00:37 authored by Daniel HimmelsteinDaniel Himmelstein, Leo BrueggemanLeo Brueggeman, Sergio BaranziniSergio Baranzini

LINCS L1000 measures the transcriptional response to perturbation. `l1000.db` is a SQLite database that we use to store LINCS L1000 data. Our database contains several parts of the L1000 resource that have been converted into user-friendly tables. The database also provides information not available from L1000. Namely, we computed the chemical similarities between L1000 compounds and mapped the L1000 compounds to external vocabularies.

+ The `cells` table contains the L1000 cell lines.

+ The `sigs` table contains the L1000 signatures.

+ The `perts` table contains the L1000 perturbations.

+ The `similarity` table contains chemical similarity scores for all compound pairs.

+ The `unichem` table contains a mapping of L1000 compounds to external chemical vocabularies.

This database does not contain the L1000 expression data, hence we consider it metadata. `l1000.db.bz2` is bzip2 compressed to reduce file size. Decompress before use.

We rely on this database when computing consensus signatures for perturbations.

If using this database, please attribute this figshare deposition and the LINCS L1000 project. Also please abide by the data release policy for the [NIH LINCS Program](http://www.lincsproject.org/data/data-release-policy/).