Life Sciences Research for Lifelong Health

Fengyuan Hu

I am a PhD candidate in the Turner lab. We are interested in searching for novel small open reading frames (smORFs) and smORFencoded bioactive polypeptides in the immune system. We are building a computational pipeline to detect smORFs using NGS technology (e.g. ribosome profiling and RNAseq).

Previously I worked as a bioinformatics developer in the Micklem lab (http://www.micklemlab.org) in the Department of Genetics Cambridge, and was involved in InterMine (http://intermine.org/) project and modENCODE (http://www.modencode.org/) project.

fterwards, I moved to the Ouwehand lab in the Platelet Biology Group, Department of Haematology Cambridge as a bioinformatician. I was involved in Genomics England 100,000 Genomes Project for which we developed a NGS pipeline to process whole genome sequncing data and ThromboGenomics project as the main bioinformatics analyst.

I am interested in bioinformatics and statistical learning. I hold a MSc in Machine Learning and Bioinformatics from the University of Edinburgh.

Key Publications

1. Simeoni, Ilenia, Jonathan C. Stephens, Fengyuan Hu , Sri V. V. Deevi, Karyn Megy et al
A comprehensive high throughput sequencing test for the diagnosis of inherited bleeding, thrombotic and platelet disorders.
Blood 10.1182/blood-2015-12-688267 (2016)

2. Jänes, Jürgen*, Fengyuan Hu *, Alexandra Lewin, and Ernest Turro.
A comparative study of RNAseq analysis strategies.
Briefings in bioinformatics 16, no. 6 (2015): 932940.

3. Kalderimis, Alex, Rachel Lyne, Daniela Butano, Sergio Contrino, Mike Lyne, Joshua Heimbach, Fengyuan Hu et al
InterMine: extensive web services for modern biology.
Nucleic acids research (2014): gku301.

4. Lyne, Mike, Richard N. Smith, Rachel Lyne, Jelena Aleksic, Fengyuan Hu , Alex Kalderimis, Radek Stepan, and Gos Micklem.
metabolicMine: an integrated genomics, genetics and proteomics data warehouse for common metabolic disease research.
Database 2013 (2013): bat060.

5. Smith, Richard N., Jelena Aleksic, Daniela Butano, Adrian Carr, Sergio Contrino, Fengyuan Hu , Mike Lyne et al
InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data.
Bioinformatics 28, no. 23 (2012): 31633165.

6. Nikerel, Emrah, Jan Berkhout, Fengyuan Hu , Bas Teusink, Marcel JT Reinders, and Dick De Ridder.
Understanding regulation of metabolism through feasibility analysis.
PLoS ONE 7, no. 7 (2012): e39396.

7. Contrino, Sergio, Richard N. Smith, Daniela Butano, Adrian Carr, Fengyuan Hu , Rachel Lyne, Kim Rutherford et al
modMine: flexible access to modENCODE data.
Nucleic acids research 40, no. D1 (2012): D1082D1088.

Latest Publications

Alternative Translation Initiation Generates a Functionally Distinct Isoform of the Stress-Activated Protein Kinase MK2.

Trulley P, Snieckute G, Bekker-Jensen D

Cell reports
27 2211-1247:2859-2870.e6 (2019)

PMID: 31167133

MicroRNA-155 is essential for the optimal proliferation and survival of plasmablast B cells.

Arbore G, Henley T, Biggins L

Life science alliance
2 2575-1077: (2019)

PMID: 31097471

RNA binding proteins in hematopoiesis and hematological malignancy.

Hodson DJ, Screen M, Turner M

Blood
1528-0020: (2019)

PMID: 30967369

Membrane Cholesterol Efflux Drives Tumor-Associated Macrophage Reprogramming and Tumor Progression.

Goossens P, Rodriguez-Vita J, Etzerodt A

Cell metabolism
1932-7420: (2019)

PMID: 30930171

Signalling circuits that direct early B-cell development.

Petkau G, Turner M

The Biochemical journal
476 1470-8728:769-778 (2019)

PMID: 30842310

The RNA-binding proteins Zfp36l1 and Zfp36l2 act redundantly in myogenesis.

Bye-A-Jee H, Pugazhendhi D, Woodhouse S

Skeletal muscle
8 2044-5040:37 (2018)

PMID: 30526691

Translational repression of pre-formed cytokine-encoding mRNA prevents chronic activation of memory T cells.

Salerno F, Engels S, van den Biggelaar M

Nature immunology
1529-2916: (2018)

PMID: 29988089

Antigen phagocytosis by B cells is required for a potent humoral response.

Martínez-Riaño A, Bovolenta ER, Mendoza P

EMBO reports
1469-3178: (2018)

PMID: 29987136

Uncovering the Role of RNA-Binding Proteins in Gene Expression in the Immune System.

Díaz-Muñoz MD, Turner M

Frontiers in immunology
9 1664-3224:1094 (2018)

PMID: 29875770

The RNA-binding protein PTBP1 is necessary for B cell selection in germinal centers.

Monzón-Casanova E, Screen M, Díaz-Muñoz MD

Nature immunology
1529-2916: (2018)

PMID: 29358707

RNA-binding proteins control gene expression and cell fate in the immune system.

Turner M, Díaz-Muñoz MD

Nature immunology
1529-2916: (2018)

PMID: 29348497