Research Output

2020

Comparing Neural Network Based Decoders for the Surface Code

Varsamopoulos, S., Bertels, K. & Almudever, C. G., 1 Feb 2020, In : IEEE Transactions on Computers. 69, 2, p. 300-311 12 p., 8880492.

Research output: Contribution to journalArticleScientificpeer-review

1 Citation (Scopus)

Efficient GPU Acceleration for Computing Maximal Exact Matches in Long DNA Reads

Ahmed, N., Bertels, K. & Al-Ars, Z., 2020, ICBBB 2020 : Proceedings of 2020 10th International Conference on Bioscience, Biochemistry and Bioinformatics. New York: Association for Computing Machinery (ACM), p. 28-34 7 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Open Access
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3 Downloads (Pure)

Fault-tolerant quantum error correction on near-term quantum processors using flag and bridge qubits

Lao, L. & Almudever, C. G., 2020, In : Physical Review A. 101, 3, 11 p., 032333.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
27 Downloads (Pure)

High Performance Seed-and-Extend Algorithms for Genomics

Ahmed, N., 2020, 119 p.

Research output: ThesisDissertation (TU Delft)

Open Access
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99 Downloads (Pure)

Integration and Evaluation of Quantum Accelerators for Data-Driven User Functions

Hubregtsen, T., Segler, C., Pichlmeier, J., Sarkar, A., Gabor, T. & Bertels, K., 2020, 2020 21st International Symposium on Quality Electronic Design (ISQED): Proceedings. IEEE, p. 329-334 6 p. 9137029

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Protecting quantum entanglement from leakage and qubit errors via repetitive parity measurements

Bultink, C. C., O'Brien, T. E., Vollmer, R., Muthusubramanian, N., Beekman, M. W., Rol, M. A., Fu, X., Tarasinski, B., Ostroukh, V., Varbanov, B., Bruno, A. & DiCarlo, L., 2020, In : Science Advances. 6, 12, eaay3050.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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4 Citations (Scopus)
23 Downloads (Pure)

Quantum Computer Architecture: Towards Full-Stack Quantum Accelerators

Bertels, K., Sarkar, A., Hubregtsen, T., Serrao, M., Mouedenne, A. A., Yadav, A., Krol, A. & Ashraf, I., 2020, 2020 Design, Automation & Test in Europe Conference & Exhibition (DATE): Proceedings. Di Natale, G., Bolchini, C. & Vatajelu, E-I. (eds.). IEEE, p. 1-6 9116502

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Realizing Quantum Algorithms on Real Quantum Computing Devices

Almudever, C. G., Lao, L., Wille, R. & Guerreschi, G. G., 2020, 2020 Design, Automation & Test in Europe Conference & Exhibition (DATE): Proceedings. Di Natale, G., Bolchini, C. & Vatajelu, E-I. (eds.). IEEE, p. 864-872 9 p. 9116240

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Open Access
File
1 Downloads (Pure)

Tydi: an open specification for complex data structures over hardware streams

Peltenburg, J. W., Brobbel, M., Van Straten, J., Al-Ars, Z. & Hofstee, P., 2020, In : IEEE Micro. 40, 4, p. 120-130 11 p., 9098092.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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16 Downloads (Pure)
2019

A control microarchitecture for fault-tolerant quantum computing

Fu, X., Lao, L., Bertels, K. & Almudever, C. G., 2019, In : Microprocessors and Microsystems. 70, p. 21-30 10 p.

Research output: Contribution to journalArticleScientificpeer-review

1 Citation (Scopus)

Code deformation and lattice surgery are gauge fixing

Vuillot, C., Lao, L., Criger, B., García Almudever, C., Bertels, K. & Terhal, B. M., 2019, In : New Journal of Physics. 21, 3, 21 p., 033028.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
3 Citations (Scopus)
155 Downloads (Pure)

Dependable Network Topologies

Joshi, P., 2019, 81 p.

Research output: ThesisDissertation (TU Delft)

Open Access
File
102 Downloads (Pure)

Diminished-1 Fermat Number Transform for Integer Convolutional Neural Networks

Baozhou, Z., Ahmed, N., Peltenburg, J., Bertels, K. & Al-Ars, Z., 2019, 2019 IEEE 4th International Conference on Big Data Analytics (ICBDA). Guan, S-U., Zhang, K. & Cao, J. (eds.). Piscataway, NJ, USA: IEEE, p. 47-52 6 p. 8713250

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

eQASM: An executable quantum instruction set architecture

Fu, X., Riesebos, L., Rol, M. A., Van Straten, J., Van Someren, J., Khammassi, N., Ashraf, I., Vermeulen, R. F. L., Newsum, V., Loh, K. K. L., De Sterke, J. C., Vlothuizen, W. J., Schouten, R. N., García Almudever, C., Dicarlo, L. & Bertels, K., 2019, Proceedings - 25th IEEE International Symposium on High Performance Computer Architecture, HPCA 2019. Louri, A. & Venkataramani, G. P. (eds.). Piscataway, NJ: IEEE, p. 224-237 14 p. 8675197

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

10 Citations (Scopus)

Erratum: Correction to: GASAL2: a GPU accelerated sequence alignment library for high-throughput NGS data (BMC bioinformatics (2019) 20 1 (520))

Ahmed, N., Lévy, J., Ren, S., Mushtaq, H., Bertels, K. & Al-Ars, Z., 19 Nov 2019, In : BMC Bioinformatics. 20, 1, 1 p., 597.

Research output: Contribution to journalComment/Letter to the editorScientificpeer-review

Open Access
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1 Citation (Scopus)
5 Downloads (Pure)

Experimental error mitigation via symmetry verification in a variational quantum eigensolver

Sagastizabal, R., Bonet-Monroig, X., Singh, M., Rol, M. A., Bultink, C. C., Fu, X., Ostroukh, V. P., Muthusubramanian, N., Bruno, A., Beekman, M., Haider, N., O'Brien, T. E. & Dicarlo, L., 2019, In : Physical Review A. 100, 1, 6 p., 010302.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
11 Citations (Scopus)
62 Downloads (Pure)

Fletcher: A framework to efficiently integrate FPGA accelerators with apache arrow

Peltenburg, J., Van Straten, J., Wijtemans, L., Van Leeuwen, L., Al-Ars, Z. & Hofstee, P., 1 Sep 2019, Proceedings - 29th International Conference on Field-Programmable Logic and Applications, FPL 2019. Sourdis, I., Bouganis, C-S., Alvarez, C., Toledo Diaz, L. A., Valero, P. & Martorell, X. (eds.). Institute of Electrical and Electronics Engineers (IEEE), p. 270-277 8 p. 8892145

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

GASAL2: a GPU accelerated sequence alignment library for high-throughput NGS data

Ahmed, N., Lévy, J., Ren, S., Mushtaq, H., Bertels, K. & Al-Ars, Z., 25 Oct 2019, In : BMC Bioinformatics. 20, 1, p. 1-20 20 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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30 Downloads (Pure)

GPU Accelerated Sequence Alignment with Trace-back for GATK HaplotypeCaller

Ren, S., Ahmed, N., Bertels, K. & Al-Ars, Z., 2019, In : BMC Genomics. 20, p. 103-116 184.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
2 Citations (Scopus)
81 Downloads (Pure)

Increase quantum computing technology readiness level through experimentation in space

Correale, G., Cerrone, G., Al-Ars, Z. & Bertels, K., 2019. 1 p.

Research output: Contribution to conferenceAbstractScientific

Open Access
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10 Downloads (Pure)

Mapping of Lattice Surgery-based Quantum Circuits on Surface Code Architectures

Lao, L., van Wee, B., Ashraf, I., van Someren, J., Khammassi, N., Bertels, K. & Almudever, C. G., 2019, In : Quantum Science and Technology. 4, 1, p. 1-20 20 p., 015005.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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5 Citations (Scopus)
40 Downloads (Pure)

Neural Network based Decoders for the Surface Code

Varsamopoulos, S., 2019, (Unpublished) 127 p.

Research output: ThesisDissertation (TU Delft)

File
150 Downloads (Pure)
Open Access
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39 Downloads (Pure)

Quantum accelerated computer architectures

Riesebos, L., Fu, X., Moueddenne, A. A., Lao, L., Varsamopoulos, S., Ashraf, I., Van Someren, J., Khammassi, N., Almudever, C. G. & Bertels, K., 2019, 2019 IEEE International Symposium on Circuits and Systems, ISCAS 2019 - Proceedings. Yasuura, H., Miyanaga, Y. & Kiya, H. (eds.). Piscataway, NJ, USA: Institute of Electrical and Electronics Engineers (IEEE), Vol. 2019-May. 4 p. 8702488

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

2 Citations (Scopus)

Quantum Computer Architecture: a full-stack overview

Bertels, K. (Guest ed.), Hogaboam, J. W. & Almudever, C. G. (Guest ed.), 2019, In : Microprocessors and Microsystems. 66, p. 21-66

Research output: Contribution to journalSpecial issueScientificpeer-review

Quantum computing in practice: fault-tolerant protocols and circuit-mapping techniques

Lao, L., 2019, 151 p.

Research output: ThesisDissertation (TU Delft)

Open Access
File
192 Downloads (Pure)

Rebooting Our Computing Models

Cadareanu, P., Reddy C, N., Almudever, C. G., Khanna, A., Raychowdhury, A., Bertels, K., Narayanan, V., Di Ventra, M. & Gaillardon, P-E., 2019, 2019 Design, Automation & Test in Europe Conference & Exhibition (DATE): Proceedings. IEEE, p. 1469-1476 8 p. 8715167

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

1 Citation (Scopus)
2018

Accelerating DNA Variant Calling Algorithms on High Performance Computing Systems

Ren, S., 2018, 83 p.

Research output: ThesisDissertation (TU Delft)

Open Access
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47 Downloads (Pure)

A Mapping Methodology of Boolean Logic Circuits on Memristor Crossbar

Xie, L., Du Nguyen, H. A., Taouil, M., Hamdioui, S. & Bertels, K., 2018, In : IEEE Transactions on Computer - Aided Design of Integrated Circuits and Systems. 37, 2, p. 311-323 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
10 Citations (Scopus)
78 Downloads (Pure)

A Microarchitecture for a Superconducting Quantum Processor

Fu, X., Rol, M. A., Bultink, C. C., van Someren, J., Khammassi, N., Ashraf, I., Vermeulen, R. F. L., De Sterke, J. C., Vlothuizen, W. J., Schouten, R. N., Almudéver, C. G., DiCarlo, L. & Bertels, K., 2018, In : IEEE Micro. 38, 3, p. 40-47 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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12 Citations (Scopus)
89 Downloads (Pure)

An Efficient GPU-based de Bruijn Graph Construction Algorithm for Micro-Assembly

Ren, S., Ahmed, N., Bertels, K. & Al-Ars, Z., 2018, Proceedings - 2018 IEEE 18th annual IEEE International Conference on BioInformatics and BioEngineering (BIBE 2018). Bourbakis, N. G. & Kavraki, D. (eds.). Piscataway, NJ, USA: IEEE, p. 67-72 6 p. 8567459

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Open Access
File
1 Citation (Scopus)
26 Downloads (Pure)

Comparative Analysis of System-Level Acceleration Techniques in Bioinformatics: A Case Study of Accelerating the Smith-Waterman Algorithm for BWA-MEM

Houtgast, E., Sima, V., Bertels, K. & Al-Ars, Z., 2018, 2018 IEEE 18th International Conference on BioInformatics and BioEngineering (BIBE). Bourbakis, N. G. & Kavraki, D. (eds.). Piscataway, NJ. USA: IEEE, p. 243-246 4 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

2 Citations (Scopus)

Decoding small surface codes with feedforward neural networks

Varsamopoulos, S., Criger, B. & Bertels, K., 1 Jan 2018, In : Quantum Science and Technology. 3, 1, p. 1-12 12 p., 015004.

Research output: Contribution to journalArticleScientificpeer-review

15 Citations (Scopus)

Early DNA Variant Calling Using Incomplete DNA Datasets

Al-Ars, Z., Ahmed, N. & Bertels, K., 2018, IPC No. G06F, Priority date 9 Nov 2016, Priority No. WO 2018088896

Research output: Patent

Efficient Acceleration of the Pair-HMMs Forward Algorithm for GATK HaplotypeCaller on Graphics Processing Units

Ren, S., Bertels, K. & Al-Ars, Z., 2018, In : Evolutionary Bioinformatics. 14, p. 1-12 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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9 Citations (Scopus)
11 Downloads (Pure)

Hardware acceleration of BWA-MEM genomic short read mapping for longer read lengths

Houtgast, E. J., Sima, V-M., Bertels, K. & Al-Ars, Z., 2018, In : Computational Biology and Chemistry. 75, p. 54-64 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File
10 Citations (Scopus)
11 Downloads (Pure)

Low power IC design characterization techniques under process variations

Zandrahimi, M., 2018, 71 p.

Research output: ThesisDissertation (TU Delft)

Open Access
File
20 Downloads (Pure)

Quantum Control Architecture: Bridging the Gap between Quantum Software and Hardware

Fu, X., 2018, 156 p.

Research output: ThesisDissertation (TU Delft)

Open Access
File
210 Downloads (Pure)

Targeting static and dynamic workloads with a reconfigurable VLIW processor

Hoozemans, J., 2018, 161 p.

Research output: ThesisDissertation (TU Delft)

Open Access
File
37 Downloads (Pure)

Theoretical and practical aspects of verification of quantum computers

Naveh, Y., Kashefi, E., Wootton, J. R. & Bertels, K., 2018, Proceedings of the 2018 Design, Automation and Test in Europe Conference and Exhibition, DATE 2018. Piscataway, NJ: IEEE, Vol. 2018-January. p. 721-730 10 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

1 Citation (Scopus)

Towards a Scalable Quantum Computer

Almudever, C. G., Khammassi, N., Hutin, L., Vinet, M., Babaie, M., Sebastiano, F., Charbon, E. & Bertels, K., 2018, Proceedings - 2018 13th IEEE International Conference on Design and Technology of Integrated Systems In Nanoscale Era, DTIS 2018. Piscataway, NJ: IEEE, 1 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

2 Citations (Scopus)
2017

An experimental microarchitecture for a superconducting qantum processor

Fu, X., Rol, M. A., Bultink, C. C., Van Someren, J., Khammassi, N., Ashraf, I., Vermeulen, R. F. L., De Sterke, J. C., Vlothuizen, W. J., Schouten, R. N., García Almudever, C., DiCarlo, L. & Bertels, K., 14 Oct 2017, MICRO 2017 - 50th Annual IEEE/ACM International Symposium on Microarchitecture Proceedings. IEEE, Vol. Part F131207. p. 813-825 13 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

Open Access
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25 Citations (Scopus)
44 Downloads (Pure)

Computing device for "big data" applications using memristors

Hamdioui, S., Taouil, M. & Bertels, K., 2017, IPC No. G11C, Priority date 21 Oct 2015, Priority No. US 2017/0117041

Research output: Patent

Computing device for "big data" applications using memristors

Hamdioui, S., Taouil, M. & Bertels, K., 2017, IPC No. G11C, Patent No. US 9,824,753, Priority date 21 Oct 2015

Research output: Patent

GPU Accelerated API for Alignment of Genomics Sequencing Data

Ahmed, N., Mushtaq, H., Bertels, K. & Al-Ars, Z., Nov 2017, 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). Hu, X., Shyu, C. R., Bromberg, Y., Gao, J., Gong, Y., Korkin, D., Yoo, I. & Zheng, J. H. (eds.). Danvers: IEEE, p. 510-515 6 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

3 Citations (Scopus)

Memristor based computation-in-memory architecture for big data

Hamdioui, S., Taouil, M. & Bertels, K., 2017, IPC No. H03K; G06F, Priority date 7 Jul 2015, Priority No. WO 2017/007318

Research output: Patent

Moving workloads to a better place: Optimizing computer architectures for data-intensive applications

Vermij, E., 2017, 189 p.

Research output: ThesisDissertation (TU Delft)

Open Access
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18 Downloads (Pure)

On the Implementation of Computation-in-Memory Parallel Adder

Du Nguyen, H. A., Xie, L., Taouil, M., Nane, R., Hamdioui, S. & Bertels, K., 2017, In : IEEE Transactions on Very Large Scale Integration (VLSI) Systems. 25, 8, p. 2206 - 2219 14 p.

Research output: Contribution to journalArticleScientificpeer-review

14 Citations (Scopus)

Pauli Frames for Quantum Computer Architectures

Riesebos, L., Fu, X., Varsamopoulos, S., García Almudever, C. & Bertels, K., 2017, Proceedings of the 54th Annual Design Automation Conference 2017, DAC 2017. Aitken, R. & Li, Z. (eds.). New York: Association for Computing Machinery (ACM), p. 1-6 76

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

3 Citations (Scopus)

QX: A high-performance quantum computer simulation platform

Khammassi, N., Ashraf, I., Fu, X., García Almudever, C. & Bertels, K., 2017, Proceedings of the 2017 Design, Automation & Test in Europe Conference & Exhibition (DATE). IEEE, p. 464-469 6 p.

Research output: Chapter in Book/Conference proceedings/Edited volumeConference contributionScientificpeer-review

23 Citations (Scopus)