Items where contributor is "Breda, Jeremie"

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Breda, Jeremie and Banerjee, Arka and Jayachandran, Rajesh and Pieters, Jean and Zavolan, Mihaela. (2022) A novel approach to single-cell analysis reveals intrinsic differences in immune marker expression in unstimulated BALB/c and C57BL/6 macrophages. FEBS Letters, 596 (20). pp. 2630-2643.

Mukhtar, Tanzila and Breda, Jeremie and Adam, Manal A. and Boareto, Marcelo and Grobecker, Pascal and Karimaddini, Zahra and Grison, Alice and Eschbach, Katja and Chandrasekhar, Ramakrishnan and Vermeul, Swen and Okoniewski, Michal and Pachkov, Mikhail and Harwell, Corey C. and Atanasoski, Suzana and Beisel, Christian and Iber, Dagmar and van Nimwegen, Erik and Taylor, Verdon. (2022) Temporal and sequential transcriptional dynamics define lineage shifts in corticogenesis. The EMBO Journal. e111132.

Breda, Jérémie and Zavolan, Mihaela and van Nimwegen, Erik. (2021) Bayesian inference of gene expression states from single-cell RNA-seq data. Nature Biotechnology, 39 (8). pp. 1008-1016.

Mukhtar, Tanzila and Breda, Jeremie and Grison, Alice and Karimaddini, Zahra and Grobecker, Pascal and Iber, Dagmar and Beisel, Christian and van Nimwegen, Erik and Taylor, Verdon. (2020) Tead transcription factors differentially regulate cortical development. Scientific Reports, 10 (1). p. 4625.

Rzepiela, Andrzej J. and Ghosh, Souvik and Breda, Jeremie and Vina-Vilaseca, Arnau and Syed, Afzal P. and Gruber, Andreas J. and Eschbach, Katja and Beisel, Christian and van Nimwegen, Erik and Zavolan, Mihaela. (2018) Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction. Molecular systems biology, 14 (8). e8266.

Omidi, Saeed and Zavolan, Mihaela and Pachkov, Mikhail and Breda, Jeremie and Berger, Severin and van Nimwegen, Erik. (2017) Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensors. PLoS Computational Biology, 13 (7). e1005176.

Breda, Jeremie and Rzepiela, Andrzej J. and Gumienny, Rafal and van Nimwegen, Erik and Zavolan, Mihaela. (2016) Corrigendum to "Quantifying the strength of miRNA-target interactions" [Methods (2015) 90-99]. Methods, 104. pp. 204-205.

Breda, Jeremie and Rzepiela, Andrzej J. and Gumienny, Rafal and van Nimwegen, Erik and Zavolan, Mihaela. (2015) Quantifying the strength of miRNA-target interactions. Methods, Vol. 85. pp. 90-99.