I'm Haoling (Horus) Zhang, a senior algorithm engineer at BGI-Research and a member of George Church Institute of Regenesis. I led or participated in research of coding algorithms, architectures, software packages, and standardization in the field of DNA storage, published 4 papers including one in Nature Computational Science, under the guidance of Prof. George Church at Harvard Medical School and Dr. Yue Shen at BGI-Research. Besides, with my experience in engineering, mathematics and genomics, I have effectively undertaken the cooperation with coding scientists such as Prof. Gennian Ge at Capital Normal University and Prof. Yiwei Zhang at Shandong University.

Concurrently, I received valuable training from Prof. Jesper Tegnér at King Abdullah University of Science and Technology, Prof. ‪Hector Zenil‬ at University of Oxford, Prof. Narsis Kiani at Karolinska Institute, and Dr. Chao-Han Huck Yang at Georgia Institute of Technology on machine learning and causal discovery. Moreover, I have collaborated with Dr. Pin-Yu Chen at IBM Research on adversarial robustness.

I’m a full-stack developer. Since I have mainly worked in the scientific research community, most of my open-source projects are programmed in Python. I have also reprogrammed or reconstructed some other projects with low-level programming language into Python for better use by relevant scientists. In the past three years, I have developed more than 25 algorithms/frameworks and have coded more than 400,000 lines. The 19 open-source repositories are as follows, the remaining repositories will be released with sufficient tests and/or papers published.

Some key open-source repositories are:

1. Chamaeleo: an integrated evaluation platform for DNA-based data storage.
2. DNASpiderWeb: a general DNA-based data storage architecture and benchmark, the implementation of the work SPIDER-WEB generates coding algorithms with superior error tolerance and real-time information retrieval capacity.
3. DNA-storage-YYC: an implementation of the work Towards Practical and Robust DNA-based Data Archiving using the Yin–Yang Codec System (published in Nature Computational Science).
4. pyHEDGES: a rewritten implementation of the work HEDGES Error-Correcting Code for DNA Storage Corrects Indels and Allows Sequence Constraints in the Python platform (C++ originally, published in Proceedings of the National Academy of Sciences).
5. ReverseEncodingTree: an implementation of the work Evolving Neural Network through the Reverse Encoding Tree.
6. FasterHammingCalculator: A large-scale Hamming distance calculation accelerator using the customized three-dimensional matrix (10 ~ 100 times).
7. pymolBE: Customized batch exhibition of three-dimensional molecules based on PyMOL framework.
8. StructureCluster: It provides some scripts for protein comparison (clustering) and format conversion.
9. GenomeCompact: a lossless compression algorithm for T4 Phage.