Complementary Material - Gorniak et al., 2024 doi:
-------------------------------------------------
**Changes in growth, lanthanide binding, and gene expression in Pseudomonas alloputida KT2440 in response to light and heavy lanthanides**
------------------------------------------------------------------------
Linda Gorniak<sup>1</sup>
Sarah Luise Bucka<sup>1</sup>
Bayan Nasr<sup>2</sup>
Jialan Cao<sup>2</sup>
Steffen Hellmann<sup>3</sup>
Thorsten Schäfer<sup>3</sup>
Martin Westermann<sup>4</sup>
Julia Bechwar<sup>1</sup>
Carl-Eric Wegner<sup>1</sup>
<sup>1</sup>Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University, Jena, Germany
<sup>2</sup>Department of Physical Chemistry and Microreaction Technology, Institute for Chemistry and Biotechnique, Technical University Ilmenau, Ilmenau, Germany
<sup>3</sup>Institute of Geosciences, Applied Geology, Friedrich Schiller University, Burgweg 11, 07749 Jena, Germany
<sup>4</sup>Electron Microscopy Center, Jena University Hospital, Ziegelmühlenweg 1, 07743 Jena, Germany
Correspondence should be addressed to: [**Carl-Eric Wegner**][1]
----------
This repository provides the following resources:
* _[Read count data per gene][3]_: Involved steps are outlined here: [`RNA-Seq data processing`][5]
* _[Mapping statistics][7]_: Based on mapping processed reads onto the genome of _P. alloputida_ KT2440 using _bbmap_ and generating mapping statistics with _featureCounts_. The underlying steps are described here: [`RNA-Seq data processing`][5]
* _[log2CPM data for all coding genes][4]_: Details can be found here: [`Differential gene expression analsis`][6]
* _[Supplementary Information][8]_: Supplementary figures, tables, as well as their descriptions
----------
Detailed walkthrough with respect to RNA-Seq data processing and differential gene expression analyses are available as well:
* _[RNA-Seq data processing][5]_
* _[Differential gene expression analysis][6]_
[1]: http://mailto:%20carl-eric.wegner@uni-jena.de
[2]: https://osf.io/
[3]: https://osf.io/tkpx2
[4]: https://osf.io/4x39b
[5]: https://osf.io/ynsdc/wiki/data_processing/
[6]: https://osf.io/ynsdc/wiki/DGEA/
[7]: https://osf.io/69e3j
[8]: https://osf.io/
