[1] L. Anavy et al., ‘BLIND ordering of large-scale transcriptomic developmental timecourses’, Development, vol. 141, no. 5, pp. 1161–1166, 2014.
[2] M. Levin et al., ‘The mid-developmental transition and the evolution of animal body plans’, Nature, vol. 531, no. 7596, pp. 637–641, 2016.
[3] T. Hashimshony et al., ‘CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq’, Genome biology, vol. 17, pp. 1–7, 2016.
[4] L. Levy et al., ‘A synthetic oligo library and sequencing approach reveals an insulation mechanism encoded within bacterial σ54 promoters’, Cell Reports, vol. 21, no. 3, pp. 845–858, 2017.
[5] P. H. Schiffer et al., ‘The gene regulatory program of Acrobeloides nanus reveals conservation of phylum-specific expression’, Proceedings of the National Academy of Sciences, vol. 115, no. 17, pp. 4459–4464, 2018.
[6] Y. Peleg et al., ‘Sparse NIR optimization method (SNIRO) to quantify analyte composition with visible (VIS)/near infrared (NIR) spectroscopy (350 nm-2500 nm)’, Analytica Chimica Acta, vol. 1051, pp. 32–40, 2019.
[7] L. Anavy, I. Vaknin, O. Atar, R. Amit, and Z. Yakhini, ‘Data storage in DNA with fewer synthesis cycles using composite DNA letters’, Nature biotechnology, vol. 37, no. 10, pp. 1229–1236, 2019.
[8] A. Golberg, J. Sheviryov, O. Solomon, L. Anavy, and Z. Yakhini, ‘Molecular harvesting with electroporation for tissue profiling’, Scientific Reports, vol. 9, no. 1, p. 15750, 2019.
[9] O. Sabary, Y. Orlev, R. Shafir, L. Anavy, E. Yaakobi, and Z. Yakhini, ‘SOLQC: Synthetic oligo library quality control tool’, Bioinformatics, vol. 37, no. 5, pp. 720–722, 2021.
[10] B. Kaufmann et al., ‘Identifying triplex binding rules in vitro leads to creation of a new synthetic regulatory tool in vivo’, Biorxiv, pp. 2019–2012, 2019.
[11] I. Amit et al., ‘CRISPECTOR provides accurate estimation of genome editing translocation and off-target activity from comparative NGS data’, Nature communications, vol. 12, no. 1, p. 3042, 2021.
[12] L. Anavy, Z. Yakhini, and A. Roee, ‘Molecular data storage systems and methods’. may # ‘ 13’, note=US Patent App. 17/101,824 2021.
[13] L. Anavy and Z. Yakhini, ‘Synthetic DNA libraries and their applications in data storage and biological assays’, Computer Science Department, Technion, 2021.
[14] Y. Nahum, E. Ben-Tolila, and L. Anavy, ‘Single-read reconstruction for DNA data storage using transformers’, arXiv preprint arXiv:2109. 05478, 2021.
[15] R. Shafir, O. Sabary, L. Anavy, E. Yaakobi, and Z. Yakhini, ‘Sequence reconstruction under stutter noise in enzymatic DNA synthesis’, in 2021 IEEE Information Theory Workshop (ITW), 2021, pp. 1–6.
[16] A. Hendel et al., ‘CRISPECTOR: an accurate tool for measuring CRISPR-Cas-induced translocation and adverse off-target activity’, in HUMAN GENE THERAPY, 2021, vol. 32, pp. A57–A57.
[17] L. Anavy, Z. Yakhini, and A. Roee, ‘Molecular data storage systems and methods’. feb # ‘ 9’, note=US Patent App. 17/780,404 2023.
[18] I. Vaknin et al., ‘Characterizing Regulatory Grammar Rules in S. Cerevisiae Using a Library of Conserved and Unknown Motifs’, Cerevisiae Using a Library of Conserved and Unknown Motifs.
[19] R. Shafir, O. Sabary, L. Anavy, E. Yaakobi, and Z. Yakhini, ‘Sequence design and reconstruction under the repeat channel in enzymatic DNA synthesis’, IEEE Transactions on Communications, 2023.
[20] I. Preuss, B. Galili, Z. Yakhini, and L. Anavy, ‘Sequencing coverage analysis for combinatorial DNA-based storage systems’, IEEE Transactions on Molecular, Biological, and Multi-Scale Communications, 2024.
[21] O. Sabary, I. Preuss, R. Gabrys, Z. Yakhini, L. Anavy, and E. Yaakobi, ‘Error-Correcting Codes for Combinatorial DNA Composite’, arXiv preprint arXiv:2401. 15666, 2024.
[22] R. Zeira, L. Anavy, Z. Yakhini, E. Rivlin, and D. Freedman, ‘HIPI: Spatially Resolved Multiplexed Protein Expression Inferred from H&E WSIs’, bioRxiv, pp. 2024–2003, 2024.
[23] I. Preuss, M. Rosenberg, Z. Yakhini, and L. Anavy, ‘Efficient DNA-based data storage using shortmer combinatorial encoding’, Scientific reports, vol. 14, no. 1, p. 7731, 2024.