Data

With recent technological advances, we are no longer limited by our capacity to generate data, but by our creativity to use these data to produce biological insights.

Our lab collects large-scale data for the particular questions we are interested in. At the same time, these data can be and have been analyzed in many other ways by scientists around the world to test specific hypotheses. In many cases exciting results emerge that lead to further detailed studies.

We strongly encourage you to start mining our data sets. We also believe that data sharing and transparency are a core value of a responsible scientist funded by the public. Please use these data responsibly, and we will make sure to answer your questions beyond what is already described in our publications.

Bacillus subtilis cloning vector

Dierksheide KJ, Li G-W.
A historical sequence deletion in a commonly used Bacillus subtilis chromosome integration vector generates undetected loss-of-function mutations.
BioRxiv, 2024.01.04.574214 (2024).

The plasmid map for pDR111 can be downloaded here.

RUNAWAY TRANSCRIPTION

Johnson GE*, Lalanne JB*, Peters ML, Li GW. Nature 585:124 (2020) *co-first authors.
The distribution of stop-to-stem distances in ~1,000 representative species can be downloaded here.

REND-SEQ

Visualization for operon mRNA isoforms in bacteria:
rendseq.org
Lalanne JB, Taggart JC, Guo MS, Herzel L, Schieler A, Li GW. Cell 173:749 (2018).

ABSOLUTE PROTEIN SYNTHESIS RATES

Li GW, Burkhardt D, Gross CA, Weissman JS. Cell 157: 624 (2014).
The rates of protein synthesis can be accessed through PortEco.
The supplementary tables also contain useful information.
The raw data is deposited here at Gene Expression Omnibus.

TRANSLATIONAL PAUSING AND ELONGATION RATES

Li GW, Oh E, Weissman JS. Nature 484: 538 (2012).
The data can be viewed in genome browsers hosted on PortEco or GWIPS.
The raw data is deposited here at Gene Expression Ombibus.

QUANTIFYING TRANSCRIPTOME AND PROTEOME

Taniguchi Y*, Choi PJ*, Li GW*, Chen H* et al. Science 329: 533 (2010).
The supplementary tables can be found here.