Yunshun Chen - Publications, H-index & Citations

Back

Yunshun Chen

the walter and eliza hall institute of medical research

28H-index

79Paper Count

1.9WCitation Count

Published Papers 35

Publication Date

A necroptotic-to-apoptotic signaling axis underlies inflammatory bowel disease

Science

IF45.8

2026-08-27

PREAI

Jiyi Pang; Aysha H. Al-Ani; Komal M. Patel; Yunzhuo Zhou; Samuel N. Young; Jinjin Chen; Isabella Kong; Marilou Barrios; James A. Rickard; Siqi Chen; Xiuquan Ma; Farzaneh Shojaee; Seong-Beom Kim; Siavash Foroughi; Wayne Cawthorne; Annette V. Jacobsen; Asha Jois; Ashley L. Weir; Lachlan W. Whitehead; Pradeep Rajasekhar; Christopher R. Horne; Ruqian Lyu; Lucy J. Mather; Raymond K. H. Yip; Ellen Tsui; Imadh Azeez; Tao Tan; Weiwei Liang; Suresh Sivanesan; Andrew Metz; Ash Patwardhan; Natalie Shea; Guru Iyngkaran; Daniel Schneider; Alexander T. Elford; William Beattie; Finlay Macrae; Gianmaria Liccardi; Henning Walczak; Yuxia Zhang; Oliver M. Sieber; Tim Spelman; Lisa Giulino-Roth; Michael Christie; Yunshun Chen; Kelly L. Rogers; Rory Bowden; Sandra E. Nicholson; Kate E. Lawlor; Edwin D. Hawkins; Britt Christensen; Andre L. Samson; James E. Vince; James M. Murphy

Save

hoodscanR: profiling single-cell neighborhoods in spatial transcriptomics data

Bioinformatics

IF5.4

2026-08-13

OAAI

Ning Liu; Jarryd Martin; Dharmesh D Bhuva; Jinjin Chen; Mengbo Li; Samuel C Lee; Malvika Kharbanda; Jinming Cheng; Ahmed Mohamed; Arutha Kulasinghe; Yunshun Chen; Chin Wee Tan; Fuyi Li; Jose M Polo; Melissa J Davis; null

Save

Multiscale analysis and functional validation of the cellular and genetic determinants of skeletal disease

Nature Genetics

IF29

2026-07-10

OAAI

Ryan C. Chai; Mischa Lundberg; Bernard Freudenthal; James T. Smith; Andrew P. Boughton; Yuandan Zhang; Kaitlyn A. Flynn; Monika Frysz; Alexander P. Corr; Weng Hua Khoo; Davide Komla-Ebri; Michael R. G. Dack; Siobhan E. Guilfoyle; John G. Logan; Natalie C. Butterfield; Victoria D. Leitch; Andrea S. Pollard; Riikka E. Mäkitie; Nathaniel Bradford; Lorenzo Ramos-Mucci; Amaia Vilas-Zornoza; Yunshun Chen; Raymond K. H. Yip; Jeremy Er; Siew Zhuan Tan; Michelle M. McDonald; Scott E. Youlten; C. Marcelo Sergio; Ariel Castro-Martinez; Shelley G. Young; Elena Skorokhodova; David M. Evans; Joseph E. Powell; Christiaan A. de Leeuw; Adam D. Ewing; John A. Eisman; Robert D. Blank; Tri Giang Phan; Anne K. Lagendijk; Edwin D. Hawkins; Horng Lii Oh; Rebecca E. McIntyre; Edith M. Hessel; Jake P. Taylor-King; Paul A. Baldock; Emma L. Duncan; Graham R. Williams; J. H. Duncan Bassett; Peter I. Croucher; John P. Kemp

Save

Dividing out quantification uncertainty enables assessment of differential transcript usage with limma and edgeR

NUCLEIC ACIDS RESEARCH

IF13.1

2025-12-11

PREAI

Baldoni, Pedro L.; Chen, Lizhong; Li, Mengbo; Chen, Yunshun; Smyth, Gordon K.

Save

stPipe: a flexible and streamlined R/Bioconductor pipeline for preprocessing sequencing-based spatial transcriptomics data

NAR GENOMICS AND BIOINFORMATICS

IF2.8

2025-12-01

OAAI

Xu, Yang; Sargeant, Callum J.; You, Yue; You, Yupei; Su, Shian; Wang, Changqing; Tian, Luyi; Chen, Yunshun; Ritchie, Matthew E.

Save

Incorporating exon–exon junction reads enhances differential splicing detection

BMC Bioinformatics

IF3.3

2025-08-25

PREAI

Mai T. Pham; Michael J. G. Milevskiy; Jane E. Visvader; Yunshun Chen

Save

Profiling the spatial architecture of multiple myeloma in human bone marrow trephine biopsy specimens with spatial transcriptomics

Blood

IF23.1

2025-07-14

OAAI

Raymond K. H. Yip; Jeremy Er; Lei Qin; Quoc Hoang Nguyen; Allan Motyer; Joel S. Rimes; Amanda Light; Ruvimbo D. Mishi; Ling Ling; Casey J. A. Anttila; Ellen Tsui; Daniela Amann-Zalcenstein; Mark R. Dowling; Kelly L. Rogers; Rory Bowden; Yunshun Chen; Simon J. Harrison; Edwin D. Hawkins

Save

Circulating immune cells exhibit distinct traits linked to metastatic burden in breast cancer

BREAST CANCER RESEARCH

IF5.6

2025-05-08

OAAI

Mangiola, S.; Brown, R.; Zhan, C.; Berthelet, J.; Guleria, S.; Liyanage, C.; Ostrouska, S.; Wilcox, J.; Merdas, M.; Fuge-Larsen, P.; Bell, C.; Schroder, J.; Mielke, L. A.; Mariadason, J. M.; Tsao, S. Chang-Hao; Chen, Y.; Yadav, V. K.; Vodala, S.; Anderson, R. L.; Merino, D.; Behren, A.; Yeo, B.; Papenfuss, A. T.; Pal, B.

Save

Benchmarking spatial transcriptomics technologies with the multi-sample SpatialBenchVisium dataset

GENOME BIOLOGY

IF9.4

2025-03-28

OAAI

Du, Mei R. M.; Wang, Changqing; Law, Charity W.; Amann-Zalcenstein, Daniela; Anttila, Casey J. A.; Ling, Ling; Hickey, Peter F.; Sargeant, Callum J.; Chen, Yunshun; Ioannidis, Lisa J.; Rajasekhar, Pradeep; Yip, Raymond K. H.; Rogers, Kelly L.; Hansen, Diana S.; Bowden, Rory; Ritchie, Matthew E.

Save

MCL-1 safeguards activated hair follicle stem cells to enable adult hair regeneration

NATURE COMMUNICATIONS

IF15.7

2025-03-22

OAAI

Chin, Hui San; Cheng, Jinming; Hsu, Shih Han; Lum, Guo Guang; Zaldivia, Maria T. K.; Nelameham, Sarmilla; Guo, Fusheng; Mallavarapu, Keerthana; Jackling, Felicity C.; Yang, Jicheng; Tan, Jonathan S. L.; Sampath, Prabha; Barker, Nick; Smyth, Gordon K.; Lindeman, Geoffrey J.; Strasser, Andreas; Visvader, Jane E.; Chen, Yunshun; Chen, Ting; Fu, Nai Yang

Save

Hormone-responsive progenitors have a unique identity and exhibit high motility during mammary morphogenesis

CELL REPORTS

IF6.9

2024-12-01

OAAI

Dawson, Caleb A.; Milevskiy, Michael J. G.; Capaldo, Bianca D.; Yip, Raymond K. H.; Song, Xiaoyu; Vaillant, Francois; Prokopuk, Lexie; Jackling, Felicity C.; Smyth, Gordon K.; Chen, Yunshun; Lindeman, Geoffrey J.; Visvader, Jane E.

Save

Single-cell transcriptional atlas of human breast cancers and model systems

CLINICAL AND TRANSLATIONAL MEDICINE

IF6.8

2024-10-17

OAAI

Altman, Julia E.; Olex, Amy L.; Zboril, Emily K.; Walker, Carson J.; Boyd, David C.; Myrick, Rachel K.; Hairr, Nicole S.; Koblinski, Jennifer E.; Puchalapalli, Madhavi; Hu, Bin; Dozmorov, Mikhail G.; Chen, X. Steven; Chen, Yunshun; Perou, Charles M.; Lehmann, Brian D.; Visvader, Jane E.; Harrell, J. Chuck

Save

Ehf controls mammary alveolar lineage differentiation and is a putative suppressor of breast tumorigenesis

DEVELOPMENTAL CELL

IF8.7

2024-08-01

OAAI

Nightingale, Rebecca; Reehorst, Camilla M.; Vukelic, Natalia; Papadopoulos, Nikolaos; Liao, Yang; Guleria, Shalini; Bell, Caroline; Vaillant, Francois; Paul, Sudip; Luk, Ian Y.; Dhillon, Amardeep S.; Jenkins, Laura J.; Morrow, Riley J.; Jackling, Felicity C.; Chand, Ashwini L.; Chisanga, David; Chen, Yunshun; Williams, David S.; Anderson, Robin L.; Ellis, Sarah; Meikle, Peter J.; Shi, Wei; Visvader, Jane E.; Pal, Bhupinder; Mariadason, John M.

Save

Decoding breast cancer: Unraveling subtype and model differences through multi-model single-cell RNA sequencing data integration

CANCER RESEARCH

IF16.6

2024-03-22

PREAI

Altman, Julia E.; Walker, Carson J.; Zboril, Emily K.; Hairr, Nicole S.; Myrick, Rachel K.; Boyd, David C.; Koblenski, Jennifer E.; Puchalapalli, Madhavi; Hu, Bin; Dozmorov, Mikhail G.; Chen, Xi; Chen, Yunshun; Perou, Charles M.; Lehmann, Brian D.; Visvader, Jane E.; Olex, Amy L.; Harrell, J. Chuck

Save

Identification of aberrant luminal progenitors and mTORC1 as a potential breast cancer prevention target in BRCA2 mutation carriers

NATURE CELL BIOLOGY

IF19.1

2024-01-12

PREAI

Joyce, Rachel; Pascual, Rosa; Heitink, Luuk; Capaldo, Bianca D.; Vaillant, Francois; Christie, Michael; Tsai, Minhsuang; Surgenor, Elliot; Anttila, Casey J. A.; Rajasekhar, Pradeep; Jackling, Felicity C.; Trussart, Marie; Milevskiy, Michael J. G.; Song, Xiaoyu; Li, Mengbo; Teh, Charis E.; Gray, Daniel H. D.; Smyth, Gordon K.; Chen, Yunshun; Lindeman, Geoffrey J.; Visvader, Jane E.

Save

Dividing out quantification uncertainty allows efficient assessment of differential transcript expression with edgeR

NUCLEIC ACIDS RESEARCH

IF13.1

2023-12-07

OAAI

Baldoni, Pedro L.; Chen, Yunshun; Hediyeh-zadeh, Soroor; Liao, Yang; Dong, Xueyi; Ritchie, Matthew E.; Shi, Wei; Smyth, Gordon K.

Save

Three-dimensional genome architecture coordinates key regulators of lineage specification in mammary epithelial cells

CELL GENOMICS

IF9

2023-11-01

OAAI

Milevskiy, Michael J. G.; Coughlan, Hannah D.; Kane, Serena R.; Johanson, Timothy M.; Kordafshari, Somayeh; Chan, Wing Fuk; Tsai, Minhsuang; Surgenor, Elliot; Wilcox, Stephen; Allan, Rhys S.; Chen, Yunshun; Lindeman, Geoffrey J.; Smyth, Gordon K.; Visvader, Jane E.

Save

Benchmarking long-read RNA-sequencing analysis tools using in silico mixtures

NATURE METHODS

IF32.1

2023-10-02

OAAI

Dong, Xueyi; Du, Mei R. M.; Gouil, Quentin; Tian, Luyi; Jabbari, Jafar S.; Bowden, Rory; Baldoni, Pedro L.; Chen, Yunshun; Smyth, Gordon K.; Amarasinghe, Shanika L.; Law, Charity W.; Ritchie, Matthew E.

Save

Activation of stably silenced genes by recruitment of a synthetic de-methylating module

NATURE COMMUNICATIONS

IF15.7

2022-09-23

OAAI

Chan, Wing Fuk; Coughlan, Hannah D.; Chen, Yunshun; Keenan, Christine R.; Smyth, Gordon K.; Perkins, Andrew C.; Johanson, Timothy M.; Allan, Rhys S.

Save

Loss of TAF8 causes TFIID dysfunction and p53-mediated apoptotic neuronal cell death

CELL DEATH AND DIFFERENTIATION

IF15.4

2022-03-31

OAAI

El-Saafin, Farrah; Bergamasco, Maria, I; Chen, Yunshun; May, Rose E.; Esakky, Prabagaran; Hediyeh-zadeh, Soroor; Dixon, Mathew; Wilcox, Stephen; Davis, Melissa J.; Strasser, Andreas; Smyth, Gordon K.; Thomas, Tim; Voss, Anne K.

Save

Research Directions