| Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria NM Belliveau, SL Barnes, WT Ireland, DL Jones, MJ Sweredoski, ... Proceedings of the National Academy of Sciences 115 (21), E4796-E4805, 2018 | 94 | 2018 |
| Deciphering the regulatory genome of Escherichia coli, one hundred promoters at a time WT Ireland, SM Beeler, E Flores-Bautista, NS McCarty, T Röschinger, ... Elife 9, e55308, 2020 | 47 | 2020 |
| Mapping DNA sequence to transcription factor binding energy in vivo SL Barnes, NM Belliveau, WT Ireland, JB Kinney, R Phillips PLoS computational biology 15 (2), e1006226, 2019 | 46 | 2019 |
| MAVE-NN: learning genotype-phenotype maps from multiplex assays of variant effect A Tareen, M Kooshkbaghi, A Posfai, WT Ireland, DM McCandlish, ... Genome biology 23 (1), 98, 2022 | 37 | 2022 |
| Evolution of DNA replication origin specification and gene silencing mechanisms Y Hu, A Tareen, YJ Sheu, WT Ireland, C Speck, H Li, L Joshua-Tor, ... Nature communications 11 (1), 5175, 2020 | 27 | 2020 |
| Dissecting flux balances to measure energetic costs in cell biology: Techniques and challenges E Arunachalam, W Ireland, X Yang, D Needleman Annual Review of Condensed Matter Physics 14, 211-235, 2023 | 8 | 2023 |
| MPAthic: quantitative modeling of sequence-function relationships for massively parallel assays W Ireland, J Kinney BioRxiv, 2016 | 6 | 2016 |
| MAVE-NN: Quantitative Modeling of Genotype-Phenotype Maps as Information Bottlenecks A Tareen, WT Ireland, A Posfai, DM McCandlish, JB Kinney BioRxiv, 2020 | 5 | 2020 |
| Dissipation and energy propagation across scales in an active cytoskeletal material PJ Foster, J Bae, B Lemma, J Zheng, W Ireland, P Chandrakar, R Boros, ... Proceedings of the National Academy of Sciences 120 (14), e2207662120, 2023 | 4 | 2023 |
| Deciphering the regulatory genome ofEscherichia coli, one hundred promoters at a time WT Ireland, SM Beeler, E Flores-Bautista, NM Belliveau, MJ Sweredoski, ... | 1 | 2020 |
| Sort-Seq Tools: sequence-function relationship modeling for massively parallel assays WT Ireland, JB Kinney bioRxiv, 054676, 2016 | 1 | 2016 |
| Deciphering the regulatory genome of $\textit {Escherichia coli} $, one hundred promoters at a time WT Ireland, SM Beeler, E Flores-Bautista, NM Belliveau, MJ Sweredoski, ... arXiv preprint arXiv:2001.07396, 2020 | | 2020 |
| A Quantitative and High-Throughput Approach to Gene Regulation in Escherichia Coli WT Ireland California Institute of Technology, 2020 | | 2020 |
| A Systematic and Scalable Approach for Dissecting the Molecular Mechanisms of Transcriptional Regulation in Bacteria NM Belliveau, SL Barnes, WT Ireland, SM Beeler, JB Kinney, R Phillips Biophysical Journal 114 (3), 151a, 2018 | | 2018 |
| Using Massively Parallel Reporter Assays to Dissect the Molecular Mechanisms of Transcriptional Regulation of Bacterial Promoters. W Ireland, S Beeler, S Barnes, N Belliveau, J Kinney, R Phillips APS March Meeting Abstracts 2018, L60. 282, 2018 | | 2018 |
| Mapping Operator Sequence to Transcription Factor Binding Energy In Vivo S Barnes, N Belliveau, W Ireland, J Kinney, R Phillips APS March Meeting Abstracts 2018, L60. 283, 2018 | | 2018 |
| Supplemental information for “MPAthic: quantitative modeling of sequence-function relationships for massively parallel assays” WT Ireland, JB Kinney | | 2016 |
| Sort-Seq Tools: sequence-function relationship modeling for massively parallel assays. Supplemental Information WT Ireland, JB Kinney | | 2016 |
| Decoding the regulatory genome with base pair resolution SL Barnes, NM Belliveau, WT Ireland, JB Kinney, R Phillips MOLECULAR BIOLOGY OF THE CELL 26, 2015 | | 2015 |
| Additional file 1: Appendix for “MAVE-NN: learning genotype-phenotype maps from multiplex assays of variant effect” A Tareen, M Kooshkbaghi, A Posfai, WT Ireland, DM McCandlish, ... | | |
