# Bogdan Kiriukhin

Bogdan Kiriukhin is a remote worker on Himalayas, Research Scientist at AquaBioSafe Laboratory, University of Tyumen, based in Kazakhstan.

Source: https://himalayas.app/@bogdankiriukhin

```text
Computational biologist at AquaBioSafe Laboratory building open-source cell-counting software used in an international algal-bloom monitoring project.
```

| Detail | Value |
| --- | --- |
| Availability | Looking for a job |
| Location | Kazakhstan |
| Authorized to work in | Kazakhstan |
| Salary expectations | 70k+ USD |
| Job categories | Computational Biologist, Bioinformatics Scientist, Machine Learning Engineer, Research Scientist |
| Skills | Computational Biology, Bioinformatics, Machine Learning, Computer Vision, RAG, Metagenomics, Assembly, Transcriptome Assembly, Differential Expression Analysis, Phylogenetics, Statistical Modeling, GLM, GAM, GLS |
| Portfolio | https://github.com/bodya67/frozen_paco |
| GitHub | https://github.com/bodya67 |

## About

```text
At AquaBioSafe Laboratory, I built an open-source computer-vision cell counter for an international harmful-algal-bloom monitoring project. It reduced sample counting from hours to minutes with almost no manual work, reaching 5.3% mean count error on 12 annotated test images.

I also developed a local RAG assistant for protist identification. It searches about 110 papers, cites supporting quotes for candidate taxa, and returns “insufficient evidence” when retrieval is weak.

Across three Russian Science Foundation projects and a World-Class Research Center program, I’ve worked on metabarcoding, metagenomics, genome and transcriptome assembly, differential expression, and phylogenetics. I also administer the lab’s Linux GPU server, which holds more than 50 TB of data.

At Polyus R&D Center, I built Random Forest and logistic regression models to forecast gold recovery, helping move the team from descriptive reporting to prediction. My work cut weekly sample-analysis time by 15% and monthly reporting by four hours.
```

## Experience

### Research Scientist (current)

AquaBioSafe Laboratory, University of Tyumen. Jan 2020 - Present

```text
Developed an open-source computer-vision cell counter and a RAG assistant for protist identification. Conducted omics analysis for multiple research projects and administered the lab's GPU server.
```

Skills: PyTorch, YOLOv11, Sahi, Lang-Chain, Faiss, Specter, Ollama, GROBID, Docker, Linux, Metagenomics, Assembly, Transcriptome-Assembly, Differential-Expression, Phylogenetics

### Visiting Researcher

Okinawa Institute of Science and Technology (OIST). Apr 2023 - Oct 2023

```text
Prototyped a CNN-based metagenomic binner and benchmarked network architectures and DNA-sequence feature representations. Designed metabarcoding, metagenomic, and proteomic pipelines in the Husnik lab.
```

Skills: CNN, Metagenomics, Binning, Proteomics, Pipeline-Design

### Research Engineer

Biotechnology Lab, Polyus R&D Center. Oct 2018 - Jun 2020

```text
Built Random Forest and logistic regression models to forecast gold recovery, moving the team from descriptive reporting to prediction. Reduced weekly sample-analysis time by 15% and monthly reporting by 4 hours.
```

Skills: Random-Forest, Logistic-Regression, Python, R, Data-Analysis, predictive-modeling

## Education

### University of Tyumen

PhD (Candidate of Sciences), Biology

```text
PhD (Candidate of Sciences) in Biology, defended at the Papanin Institute for Biology of Inland Waters, RAS.
```

### Siberian Federal University

Master of Science, Genomics and Bioinformatics

```text
MSc in Genomics and Bioinformatics.
```

### Siberian Federal University

Bachelor of Science, Bioengineering, Biotechnology and Bioinformatics

```text
BSc in Bioengineering, Biotechnology and Bioinformatics.
```

## Tech stack

- OpenCV
- Python
- PyTorch
- scikit-learn
- Git
- Docker
- SQL
- LangChain
- Ollama
- Faiss
- Claude Code
- Sentence Transformers
- Claude

To contact Bogdan, message them from this profile with a Himalayas employer account: [Hire on Himalayas](https://himalayas.app/hire).

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