Y. M. Chee, T. Etzion, K. A. S. Immink, T. T. Nguyen, V. K. Vu, and J. H. Weber, "Thermal-aware Communication", IEEE Transactions on Information Theory, vol. 71, no. 6, pp. 4145–4155, Jun. 2025, doi: 10.1109/TIT.2025.3555665 (Link to paper). {Keywords: temperature control; heating system; cooling; codes}
T. T. Nguyen, K. Cai, and P. H. Siegel, "A New Version of q-ary Varshamov-Tenengolts Codes with more Efficient Encoders: The Differential VT Codes and The Differential Shifted VT Codes", IEEE Transactions on Information Theory, vol. 70, no. 10, pp. 6989-7004, Oct. 2024, doi: 10.1109/TIT.2024.3417894 (Link to paper). {Keywords: Burst-error correcting codes; Varshamov-Tenengolts (VT) codes; the differential VT codes}
K. A. S. Immink, K. Cai, T. T. Nguyen, J. H. Weber, "Constructions and properties of efficient DNA synthesis codes", IEEE Transactions on Molecular, Biological, and Multi-Scale Communications, vol. 10, no. 2, pp. 289-296, June 2024, doi: 10.1109/TMBMC.2024.3401583 (Link to paper). {Keywords: Biological information theory; efficient DNA synthesis}
D. T. Dao, H. M. Kiah, and T. T. Nguyen, "Efficient Encoding of Binary Constant-Weight Codes: Variable-Length Balancing Schemes a la Knuth", IEEE Transactions on Information Theory, vol. 70, no. 7, pp. 4731-4746, July 2024, doi: 10.1109/TIT.2024.3351991 (Link to paper). {Keywords: Binary balanced code; constant-weight code; Knuth's balancing technique}
T. T. Nguyen, K. Cai, H. M. Kiah, K. A. S. Immink, and Y. M. Chee, "Two-Dimensional RC/SW Constrained Codes: Bounded Weight and Almost Balanced Weight", in IEEE Transactions on Information Theory, vol. 69, no. 8, pp. 4961-4976, Aug. 2023, doi: 10.1109/TIT.2023.3244979 (Link to paper). {Keywords: Two-dimensional (2D) constrained codes; Sliding-window (SW) constrained codes}
K. Cai, H. M. Kiah, T. T. Nguyen and E. Yaakobi, "Coding for Sequence Reconstruction for Single Edits," in IEEE Transactions on Information Theory, vol. 68, no. 1, pp. 66-79, Jan. 2022, doi: 10.1109/TIT.2021.3122798 (Link to paper). {Keywords: Reconstruction codes; Sequence reconstruction; DNA sequencing}
T. T. Nguyen, K. Cai and K. A. Schouhamer Immink, "Efficient Design of Subblock Energy-Constrained Codes and Sliding Window-Constrained Codes," in IEEE Transactions on Information Theory, vol. 67, no. 12, pp. 7914-7924, Dec. 2021, doi: 10.1109/TIT.2021.3119568 (Link to paper). {Keywords: Energy-harvesting; energy-constrained codes; encoding; decoding}
T. T. Nguyen, K. Cai, K. A. Schouhamer Immink and H. M. Kiah, "Capacity-Approaching Constrained Codes With Error Correction for DNA-Based Data Storage," in IEEE Transactions on Information Theory, vol. 67, no. 8, pp. 5602-5613, Aug. 2021, doi: 10.1109/TIT.2021.3066430 (Link to paper). {Keywords: DNA-based storage; Capacity; Constrained codes; Error-correction codes}
K. Cai, Y. M. Chee, R. Gabrys, H. M. Kiah, and T. T. Nguyen, “Correcting a Single Indel / Edit for DNA-Based Data Storage: Linear-Time Encoders and Order-Optimality”, IEEE Transactions on Information Theory, publication in the special issue of the IEEE Transactions on Information Theory 2020, which is devoted to the memory of Vladimir I. Levenshtein, vol. 67, no. 6, pp. 3438-3451, June 2021, doi: 10.1109/TIT.2021.3049627 (Link to paper). {Keywords: DNA-based data storage; Error-correction codes; Optimal codes}
Y. M. Chee, J. Chrisnata, H. M. Kiah, T. T. Nguyen, “Efficient Encoding/Decoding of GC-Balanced Codes Correcting Tandem Duplications", IEEE Transactions on Information Theory, vol. 66, no. 8, pp. 4892-4903, Aug. 2020, doi: 10.1109/TIT.2020.2981069 (Link to paper). {Keywords: Organisms; In vivo; Error-correction codes; Tandem duplication; GC-balanced codes}
Y. M. Chee, S. Ling, T. T. Nguyen, V. K. Vu, H. Wei, and X. Zhang, "Burst deletion-correcting codes for permutations and multipermutations", IEEE Transactions on Information Theory, vol. 66, no. 2, pp. 957-969, Feb. 2020, doi: 10.1109/TIT.2019.2933819 (Link to paper). {Keywords: Permuation codes, Multipermutation codes}
Y. M. Chee, J. Chrisnata, H. M. Kiah, T. T. Nguyen, “Deciding the Confusability of Words under Tandem Repeats in Linear Time", ACM Transactions on Algorithms, 15, 3, Article 42 (July 2019), 22 pages. https://doi.org/10.1145/3338514. {Keywords: tandem duplication, algorithm}
Y. M. Chee, J. Chrisnata, H. M. Kiah, S. Ling, T. T. Nguyen, and V. K. Vu, “Capacity-Achieving Codes that Mitigate Intercell Interference and Charge Leakage in Flash Memories", IEEE Transactions on Information Theory, vol. 65, no. 6, pp. 3702-3712, June 2019, doi: 10.1109/TIT.2018.2884210 (Link to paper). {Keywords: Flash memory, intercell interference (ICI)}
...to be updated...
T. T. Nguyen, K. Cai, T. Q. S. Quek, and K. A. S. Immink, "Efficient Constructions of Non-binary Codes over Absorption Channels", 2024 IEEE International Symposium on Information Theory (IEEE ISIT 2024), 07-13 July, Athens, Greece, pp. 1718-1723, doi: 10.1109/ISIT57864.2024.10619179 (Link to paper). {Keywords: Error-correction codes; Absorption; Neurons}
T. T. Nguyen, K. Cai, and K. A. S. Immink, "Efficient DNA Synthesis Codes with Error Correction and Runlength Limited Constraint", 2024 IEEE International Symposium on Information Theory (IEEE ISIT 2024), 07-13 July, Athens, Greece, pp. 669-674, doi: 10.1109/ISIT57864.2024.10619131 (Link to paper). {Keywords: DNA synthesis; Runlength-limited codes; Error correction codes, DNA synthesis cost}
Y. M. Chee, T. Etzion, K. A. S. Immink, T. T. Nguyen, V. K. Vu, J. H. Weber, and E. Yaakobi, "Thermal-Aware Channel with Multiple Wires", 2024 IEEE International Symposium on Information Theory (IEEE ISIT 2024), Athens, Greece, pp. 1035-1040, doi: 10.1109/ISIT57864.2024.10619462 (Link to paper). {Keywords: Performance evaluation; Wires; Switches; Writing; Temperature control}
T. T. Nguyen, K. Cai, H. M. Kiah, D. T. Dao, and K. A. S. Immink, "On the Design of Codes for DNA Computing: Secondary Structure Avoidance Codes", 2023 IEEE International Symposium on Information Theory (IEEE ISIT 2023), 25-30 June, Taipei, Taiwan, pp. 573-578, doi: 10.1109/ISIT54713.2023.10206972 (Link to paper). {Keywords: DNA computing; Symbols; Genetic communication; Periodic structures}
T. T. Nguyen, P. P. Li, K. Cai, and K. A. S. Immink, "Locally Mitigating Sneak-Path Interference in Resistive Memory Arrays", 2023 IEEE International Symposium on Information Theory (IEEE ISIT 2023), 25-30 June, Taipei, Taiwan, pp. 1130-1135, doi: 10.1109/ISIT54713.2023.10206809 (Link to paper). {Keywords: Codes; Art; Channel capacity; Memory management; Interference; Encoding; Windows}
Y. M. Chee, T. Etzion, K. A. S. Immink, T. T. Nguyen, V. K. Vu, J. H. Weber, and E. Yaakobi, "Thermal-Aware Channel Capacity", 2023 IEEE International Symposium on Information Theory (IEEE ISIT 2023), 25-30 June, Taipei, Taiwan, pp. 2661-2666, doi: 10.1109/ISIT54713.2023.10206738 (Link to paper). {Keywords: Performance evaluation; Upper bound; Channel capacity; Computational modeling; Wires; Encoding; Temperature control}
T. T. Nguyen, K. Cai, and P. H. Siegel, "Every Bit Counts: A New Version of Non-binary VT Codes with More Efficient Encoder", in IEEE 2023 IEEE International Conference on Communications: SAC Cloud Computing, Networking and Storage Track (IEEE ICC 2023), 28 May - 01 June 2023, in Rome, Italy, pp. 5477-5482, doi: 10.1109/ICC45041.2023.10279099 (Link to paper). {Keywords: Codes; Systematics; Redundancy; Symbols; Encoding; Decoding}
D. T. Dao, H. M. Kiah, and T. T. Nguyen, “Average Redundancy of Variable-Length Balancing Schemes a’ la Knuth”, in 2022 International Symposium on Information Theory and Its Applications (ISITA), Early Career Researcher Paper Award Winner (Link to paper). {Keywords: Encoding; Balanced code; Constant-weight code}
T. T. Nguyen, K. Cai, H. M. Kiah, K. A. S. Immink, and Y. M. Chee, "Using one redundant bit to construct two-dimensional almost-balanced codes", in 2022 IEEE International Symposium on Information Theory (IEEE ISIT 2022), Espoo, Finland, 2022, pp. 3091-3096, doi: 10.1109/ISIT50566.2022.9834724 (Link to paper). {Keywords: Two-dimensional codes; Balanced codes; Almost-balanced codes}
T. T. Nguyen, K. Cai, W. Song, and K. A. S. Immink, "Optimal Single-Chromosome Inversion Correcting Codes for Data Storage in Live DNA", in 2022 IEEE International Symposium on Information Theory (IEEE ISIT 2022), Espoo, Finland, 2022, pp. 1791-1796, doi: 10.1109/ISIT50566.2022.9834376 (Link to paper). {Keywords: Live DNA, Chromosome-Inversion Correcting Codes}
W. Song, K. Cai, and T. T. Nguyen, "List-decodable Codes for Single-deletion Single-substitution with List-size Two", in 2022 IEEE International Symposium on Information Theory (IEEE ISIT 2022), Espoo, Finland, 2022, pp. 1004-1009, doi: 10.1109/ISIT50566.2022.9834565 (Link to paper). {Keywords: List-decodable Codes; Deletion; Substitution; Reconstruction Codes}
T. T. Nguyen, K. Cai, K. A. S. Immink, and Y. M. Chee, "Linear-Time Encoders for Two-Dimensional Bounded-Weight Constrained Codes", in the Non-Volatile Memories Workshop (NVMW'22), University of California, San Diego. {Keywords: Linear-time encoding/decoding algorithms; Two-dimensional codes; Bounded-weight codes}
T. T. Nguyen, K. Cai, K. A. S. Immink, and Y. M. Chee, "Efficient Design of Capacity-Approaching Two-Dimensional Weight-Constrained Codes", in 2021 IEEE International Symposium on Information Theory (IEEE ISIT 2021), pp. 2930-2935, doi: 10.1109/ISIT45174.2021.9517970 (Link to paper). {Keywords: Channel capacity; Memory; Algorithms; Arrays}
K. Cai, H. M. Kiah, M. Motani, and T. T. Nguyen, "Coding for Segmented Edits with Local Weight Constraints", in 2021 IEEE International Symposium on Information Theory (IEEE ISIT 2021), pp. 2930-2935, pp. 1694-1699, doi: 10.1109/ISIT45174.2021.9517851 (Link to paper). {Keywords: DNA; Local constraint; Segmented edits}
K. Cai, Y. M. Chee, R. Gabrys, H. M. Kiah, and T. T. Nguyen, "Single Indel/Edit Correcting Codes: Linear-Time Encoders and Order-Optimality", in the 12th Non-Volatile Memories Workshop (NVMW'21), University of California, San Diego. {Keywords: DNA; Linear-time algorithms; Error-correction codes}
K. Cai, X. He, H. M. Kiah, and T. T. Nguyen, "Efficient Constrained Encoders Correcting a Single Nucleotide Edit in DNA Storage", in the 45th International Conference on Acoustics, Speech, and Signal Processing (ICASSP 2020), invited paper, Barcelona, Spain, May 2020 (Link to paper). {Keywords: DNA storage; Error-correction codes; Encoder; Constrained codes}
T. T. Nguyen, K. Cai, K. A. S. Immink, and H. M. Kiah, "Constrained Coding with Error Control for DNA-Based Data Storage", in 2020 IEEE International Symposium on Information Theory (IEEE ISIT 2020), Los Angeles, CA, USA, 2020, pp. 694-699, doi: 10.1109/ISIT44484.2020.9174438 (Link to paper). {Keywords: DNA storage; Error-correction codes; Constrained codes}
T. T. Nguyen, K. Cai, and K. A. S. Immink, "Binary Subblock Energy-Constrained Codes: Knuth's Balancing and Sequence Replacement Techniques", in 2020 IEEE International Symposium on Information Theory (IEEE ISIT 2020), Los Angeles, CA, USA, 2020, pp. 37-41, doi: 10.1109/ISIT44484.2020.9174430 (link to paper). {Keywords: Energy-harvesting; energy-constrained codes; encoding; decoding}
H. M. Kiah, T. T. Nguyen, and E. Yaakobi, "Coding for Sequence Reconstruction for Single Edits", in 2020 IEEE International Symposium on Information Theory (IEEE ISIT 2020), Los Angeles, CA, USA, 2020, pp. 676-681, doi: 10.1109/ISIT44484.2020.9174139 (Link to paper). {Keywords: DNA storage; Sequence reconstruction}
Y. M. Chee, H. M. Kiah, and T. T. Nguyen, "Linear-Time Encoders for Codes Correcting a Single Edit for DNA-Based Data Storage," in 2019 IEEE International Symposium on Information Theory (IEEE ISIT 2019), Paris, France, 2019, pp. 772-776, doi: 10.1109/ISIT.2019.8849643 (Link to paper). {Keywords: DNA storage; Single error-correction codes; linear-time encoders}
Y. M. Chee, J. Chrisnata, H. M. Kiah, and T. T. Nguyen, "Linear-time encoding/decoding of irreducible words for codes correcting tandem duplications," in 10th Non-Volatile Memories Workshop (NVMW'19), Memorable Paper Award Finalist, University of California, San Diego.
Y. M. Chee, J. Chrisnata, H. M. Kiah, and T. T. Nguyen, “Efficient encoding/decoding of irreducible words for codes correcting tandem duplications", 2018 IEEE International Symposium on Information Theory (IEEE ISIT 2018), Vail, CO, USA, 2018, pp. 2406-2410, doi: 10.1109/ISIT.2018.8437789 (Link to paper). {Keywords: DNA storage; live-DNA; tandem duplication}
Y. M. Chee, J. Chrisnata, H. M. Kiah, T. T. Nguyen, “Codes for Correcting Tandem Repeats", Non-Volatile Memories Workshop (NVMW), University of California, San Diego.
Y. M. Chee, S. Ling, T. T. Nguyen, V. K. Vu, and H. Wei, “Permutation codes correcting a single burst deletion II: stable deletions", 2017 IEEE International Symposium on Information Theory (IEEE ISIT 2017), Aachen, Germany, 2017, pp. 2688-2692, doi: 10.1109/ISIT.2017.8007017 (Link to paper). {Keywords: permutation codes; burst-error-correction codes; flash memory}
Y. M. Chee, H. M. Kiah, S. Ling, T. T. Nguyen, V. K. Vu, and X. Zhang, “String concatenation construction for Chebyshev permutation channel codes", 2016 IEEE International Symposium on Information Theory (IEEE ISIT 2016), Barcelona, Spain, 2016, pp. 2824-2828, doi: 10.1109/ISIT.2016.7541814 (Link to paper). {Keywords: Chebyshev permutation channel; concatenation coding}
Y. M. Chee, J. Chrisnata, H. M. Kiah, S. Ling, T. T. Nguyen, and V. K. Vu, “Efficient encoding/decoding of capacity-achieving constant-composition ICI-free codes", 2016 IEEE International Symposium on Information Theory (IEEE ISIT 2016), Barcelona, Spain, 2016, pp. 205-209, doi: 10.1109/ISIT.2016.7541290 (Link to paper). {Keywords: flash memory, ICI-free codes}
Y. M. Chee, J. Chrisnata, H. M. Kiah, S. Ling, T. T. Nguyen, and V. K. Vu, “Rates of constant composition codes that mitigate intercell interference", 2016 IEEE International Symposium on Information Theory (IEEE ISIT 2016), Barcelona, Spain, 2016, pp. 200-204, doi: 10.1109/ISIT.2016.7541289 (Link to paper). {Keywords: flash memory, ICI-free codes; encoding algorithm}
...to be updated...
T. T. Nguyen, C. Wang, K. Cai, Y. Zhang, Z. Yakhini, "Constrained Coding for Composite DNA: Channel Capacity and Efficient Constructions", arXiv, 2025, available at https://arxiv.org/pdf/2501.10645.
T. T. Nguyen, K. Cai, and P. H. Siegel, "Every Bit Counts: A New Version of Non-binary VT Codes with More Efficient Encoder", arXiv, 2023, available at https://arxiv.org/abs/2212.10721.
W. Song, K. Cai, and T. T. Nguyen, "List-decodable Codes for Single-deletion Single-substitution with List-size Two", arXiv, 2022, available at https://arxiv.org/abs/2201.02013.
D. T. Dao, H. M. Kiah, T. T. Nguyen, "Average Redundancy of Variable-Length Balancing Schemes a la Knuth", arXiv, 2022, available at https://arxiv.org/pdf/2204.13831.pdf.
T. T. Nguyen, K. Cai, K. A. S. Immink, and H. M. Kiah, "Capacity-Approaching Constrained Codes with Error Correction for DNA-Based Data Storage", arXiv, 2020, available at https://arxiv.org/pdf/2001.02839.pdf.
T. T. Nguyen, K. Cai, and K. A. S. Immink, "Subblock Energy-Constrained Codes: Knuth's Balancing and Sequence Replacement Techniques", arXiv, 2020, available at https://arxiv.org/abs/2009.09558.
H. M. Kiah, T. T. Nguyen, and E. Yaakobi, "Coding for Sequence Reconstruction for Single Edits", arXiv, 2020, available at https://arxiv.org/abs/2001.01376.
K. Cai, Y. M. Chee, R. Gabrys, H. M. Kiah, and T. T. Nguyen, “Optimal Codes Correcting a Single Indel / Edit for DNA-Based Data Storage”, arXiv, 2019, available at https://arxiv.org/abs/1910.06501.
Y. M. Chee, J. Chrisnata, H. M. Kiah, T. T. Nguyen, “Efficient Encoding/Decoding of GC-Balanced Codes Correcting Tandem Duplications", arXiv, 2019, available at https://arxiv.org/pdf/1801.02310.pdf.
...to be updated...