Author

J. Breen

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 3 Cancer Biology· 2 Plant Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Organism:human· 3 Research Focus:ecology & biodiversity· 2 Assay:metagenomics· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1

Frequent Co-Authors

H. Alinejad-Rokny· 2 shared H. R. Rabiee· 2 shared M. Bayati· 2 shared A. Cooper· 1 shared A. Dehzangi· 1 shared A. G. Farrer· 1 shared A. Metcalfe· 1 shared A. P. Chilver· 1 shared

Activity by Year

2018-2022 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 8 mutual co-author links

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Curved chords = mutual co-authorship

2 shared papersCancer Biology

H. Alinejad-Rokny

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

Human Liver Organoids as a Patient-derived Model for HBV Infection and Cellular Response

C. K. Lim, O. Romeo, A. P. Chilver, B. M. Tran, D. Flanagan, E. N. Kirby, J. Breen, E. Vincan, N. Warner, E. M. McCartney, M. Van der Hoek, A. Ruszkiewicz, E. Tse, M. R. Beard

This paper develops a liver organoid model to study HBV infection and antiviral responses, showing it supports the full HBV lifecycle and can assess drug and immunomodulator effects.

bioRxiv · Oct 20, 2022 · PreprintMicrobiology

Somatic point mutations are enriched in long non-coding RNAs with possible regulatory function in breast cancer

N. Rezaie, M. Bayati, M. S. Tahaei, M. Hamidi, S. Khorasani, N. H. Lovell, J. Breen, H. R. Rabiee, H. Alinejad-Rokny

The paper identifies 929 non-coding RNAs significantly mutated in breast cancer and shows their enrichment in regulatory features and interactions with protein-coding gene promoters.

bioRxiv · Jul 19, 2021Cancer Biology

Wine terroir and the soil microbiome: an amplicon sequencing-based assessment of the Barossa Valley and its sub-regions

J. Zhou, T. Cavagnaro, R. De Bei, T. M. Nelson, J. R. Stephen, A. Metcalfe, M. M. Gilliham, J. Breen, C. Collins, C. M. Rodriguez Lopez

The paper assesses how environmental variables influence soil microbiomes in Barossa Valley vineyards and links microbial differences to grape and wine traits.

bioRxiv · Aug 12, 2020Microbiology

Integrative analysis of mutated genes and mutational processes reveals seven colorectal cancer subtypes

H. Dashti, A. Dehzangi, M. Bayati, J. Breen, N. Lovell, D. Ebrahimi, H. R. Rabiee, H. Alinejad-Rokny

This study identifies seven colorectal cancer subtypes by integrating mutated genes and mutational process motifs from ICGC data.

bioRxiv · May 18, 2020 · PreprintCancer Biology

Tissue and regional expression patterns of dicistronic tRNA-mRNA transcripts in grapevine (Vitis vinifera) and their evolutionary co-appearance with vasculature in land plants

P. J. Fabres, N. Sai, S. M. Pederson, F. Zheng, A. Stewart, B. Clements, E. R. Lampugnani, J. Breen, M. Gilliham, P. J. Tricker, C. Rodriguez Lopez, R. David

The paper identifies dicistronic tRNA-mRNA transcripts in grapevine and shows their tissue-specific expression and evolutionary link to vascular land plants.

bioRxiv · Apr 13, 2020 · PreprintPlant Biology

Laboratory contamination over time during low-biomass sample analysis

L. Weyrich, A. G. Farrer, R. Eisenhofer, L. A. Arriola, J. Young, C. A. Selway, M. Handsley-Davis, C. Adler, J. Breen, A. Cooper

This study examines laboratory contamination in low-biomass samples over time, finding that contaminants vary by lab, season, and extraction method, and recommends controls and reporting to mitigate their impact.

bioRxiv · Nov 2, 2018Microbiology