Grimm, D.: easyGWAS: An Integrated Computational Framework for Advanced Genome-Wide Association Studies. Dissertation, 181 pp., Eberhard-Karls-Universität, Tübingen, Germany (2015)

Hagmann, J.: Characterizing short-term evolution of DNA methylation in A. thaliana using next-generation sequencing. Dissertation, 180 pp., Eberhard-Karls-Universität, Tübingen, Germany (2015)

Muralidharan, S.: Causes and Consequences of Hybrid Incompatibilities in Arabidopsis thaliana. Dissertation, 144 pp., Eberhard-Karls-Universität, Tübingen, Germany (2015)

Ponnu, J.: Modulation of Developmental Transitions by Trehalose-6-phosphate Signaling in Arabidopsis thaliana. Dissertation, 144 pp., Eberhard-Karls-Universität, Tübingen, Germany (2014)

Rakitsch, B.: Modeling the polygenic architecture of complex traits. Dissertation, 135 pp., Eberhard-Karls-Universität, Tübingen, Germany (2014)

Costa Galvão, V.: Regulation of flowering time by DELLA proteins in Arabidopsis thaliana: Regulation des Blühzeitpunkts durch Arabidopsis thaliana DELLA Proteine. Dissertation, Eberhard-Karls-Universität, Tübingen, Germany (2013)

Lippert, C.: Linear mixed models for genome-wide association studies. Dissertation, 191 pp., Eberhard-Karls-Universität, Tübingen, Germany (2013)

Shervashidze, N.: Scalable graph kernels. Dissertation, 137 pp., Eberhard-Karls-Universität, Tübingen, Germany (2012)

Warthmann, N.: Finding the causal genes: developing tools for natural variation research. Dissertation, 102 pp., Eberhard-Karls-Universität, Tübingen, Germany (2012)

Fenselau de Felippes, F.: Origin, biogenesis and non-cell autonomous effect of small RNAs in Arabidopsis thaliana. Dissertation, Eberhard-Karls-Universität, Tübingen, Germany (2010)

Yant, L.: The complex genetic network controlling flowering in Arabidopsis thaliana: genome-wide transcription factor target repertoires. Dissertation, 110 pp., Eberhard-Karls-Universität, Tübingen, Germany (2010)

Lempe, J.: Exploring Natural Variation in Arabidopsis thaliana: Flowering Time and Speciation. Dissertation, 127 pp., Eberhard-Karls-Universität, Tübingen, Germany (2007)

Behr, C.: Harnessing Protein Language Models to improve classic Local Pairwise Alignments for more sensitive and scalable Deep Homology Detection. Master, Ebherhard-Karls-Universität, Tübingen, Germany (2022)

Zwießele, M.: Detecting and modeling time shifts in microarray time series data applying Gaussian processes. Bachelor, 42 pp., Eberhard-Karls-Universität, Tübingen, Germany (2010)

Schmid, M.; Lohmann, J.: Affymetrix Probe Synthesis Guidelines AtGenExpress. (2005), 9 pp.

Behrens, T.; Dalal, Y.; Harper, D.; Weigel, D.: The first year of a new era. eLife 13, e96413 (2024)

Eisen, M.; Akhmanova, A.; Behrens, T.; Diedrichsen, J.; Harper, D.; Iordanova , M.; Weigel, D.; Zaidi, M.: Scientific Publishing: Peer review without gatekeeping. eLife 11, e83889 (2022)

Zaidi, M.; Harper, D.; Akhmanova, A.; Weigel, D.; Behrens, T.; Eisen, M.: eLife and Medicine: Rigorous review and editorial oversight of clinical preprints. eLife 10, e67528 (2021)

Eisen, M.; Akhmanova, A.; Behrens, T.; Harper, D.; Weigel, D.; Zaidi, M.: Implementing a "publish, then review" model of publishing. eLife 9, e64910 (2020)

Eisen, M.; Akhmanova, A.; Behrens, T.; Weigel, D.: Publishing in the time of COVID-19. eLife 9, e57162 (2020)