Jarny Choi

An integrated analysis of human myeloid cells identifies gaps in in vitro models of in vivo biology

Nadia Rajab, Paul W Angel, Yidi Deng, Jennifer Gu, Vanta Jameson, Mariola Kurowska-Stolarska, Simon Milling, Chris M Pacheco, Matt Rutar, Andrew L Laslett, Kim-Anh Le Cao, Jarny Choi, Christine A Wells

Journal article  |  2021  |  STEM CELL REPORTS

The Stemformatics myeloid atlas is an integrated transcriptome atlas of human macrophages and dendritic cells that systematically ..

constclust: Consistent Clusters for scRNA-seq

Isaac Virshup, Jarny Choi, Kim-Anh Lê Cao, Christine Wells

Journal article  |  2020

1 Unsupervised clustering to identify distinct cell types is a crucial step in the analysis of scRNA-seq data. Current clustering ..

A simple, scalable approach to building a cross-platform transcriptome atlas

Paul W Angel, Nadia Rajab, Yidi Deng, Chris M Pacheco, Tyrone Chen, Kim-Anh Le Cao, Jarny Choi, Christine A Wells

Journal article  |  2020  |  PLOS COMPUTATIONAL BIOLOGY

Gene expression atlases have transformed our understanding of the development, composition and function of human tissues. New tech..

A simple, scalable approach to building a cross-platform transcriptome atlas

Paul Angel, Nadia Rajab, Yidi Deng, Chris Pacheco, Tyrone Chen, Kim-Anh Lê Cao, Jarny Choi, Christine Wells

Journal article  |  2020

ABSTRACT Gene expression atlases have transformed our understanding of the development, composition and function of human tissues...

HBO1 is required for the maintenance of leukaemia stem cells

Laura MacPherson, Juliana Anokye, Miriam M Yeung, Enid YN Lam, Yih-Chih Chan, Chen-Fang Weng, Paul Yeh, Kathy Knezevic, Miriam S Butler, Annabelle Hoegl, Kah-Lok Chan, Marian L Burr, Linden J Gearing, Tracy Willson, Joy Liu, Jarny Choi, Yuqing Yang, Rebecca A Bilardi, Hendrik Falk, Nguyen Nghi, et al.

Journal article  |  2020  |  NATURE

Acute myeloid leukaemia (AML) is a heterogeneous disease characterized by transcriptional dysregulation that results in a block in..

Transcriptional Profiling of Stem Cells: Moving from Descriptive to Predictive Paradigms

Christine A Wells, Jarny Choi

Journal article  |  2019  |  STEM CELL REPORTS

Transcriptional profiling is a powerful tool commonly used to benchmark stem cells and their differentiated progeny. As the wealth..

An integrated analysis of myeloid cells identifies gaps in in vitro models of in vivo biology

Nadia Rajab, Paul Angel, Yidi Deng, Jennifer Gu, Vanta Jameson, Mariola Kurowska-Stolarska, Simon Milling, Simon Milling, Chris Pacheco, Matt Rutar, Andrew Laslett, Kim Anh Lê Cao, Jarny Choi, Christine Wells

Journal article  |  2019

Summary The Stemformatics myeloid atlas is an integrated transcriptome atlas of human macrophages and dendritic cells that systema..

TCF-1 limits the formation of Tc17 cells via repression of the MAF-ROR gamma t axis

Lisa A Mielke, Yang Liao, Ella Bridie Clemens, Matthew A Firth, Brigette Duckworth, Qiutong Huang, Francisca F Almeida, Michael Chopin, Hui-Fern Koay, Carolyn A Bell, Soroor Hediyeh-Zadeh, Simone L Park, Dinesh Raghu, Jarny Choi, Tracy L Putoczki, Philip D Hodgkin, Ashley E Franks, Laura K Mackay, Dale Godfrey, Melissa J Davis, et al.

Journal article  |  2019  |  JOURNAL OF EXPERIMENTAL MEDICINE

Interleukin (IL)-17-producing CD8+ T (Tc17) cells have emerged as key players in host-microbiota interactions, infection, and canc..

Stemformatics: visualize and download curated stem cell data

Jarny Choi, Chris M Pacheco, Rowland Mosbergen, Othmar Korn, Tyrone Chen, Isha Nagpal, Steve Englart, Paul W Angel, Christine A Wells

Journal article  |  2019  |  NUCLEIC ACIDS RESEARCH

Stemformatics is an established gene expression data portal containing over 420 public gene expression datasets derived from micro..

Haemopedia RNA-seq: a database of gene expression during haematopoiesis in mice and humans

Jarny Choi, Tracey M Baldwin, Mae Wong, Jessica E Bolden, Kirsten A Fairfax, Erin C Lucas, Rebecca Cole, Christine Biben, Clare Morgan, Kerry A Ramsay, Ashley P Ng, Maria Kauppi, Lynn M Corcoran, Wei Shi, Nick Wilson, Michael J Wilson, Warren S Alexander, Douglas J Hilton, Carolyn A de Graaf

Journal article  |  2019  |  NUCLEIC ACIDS RESEARCH

During haematopoiesis, haematopoietic stem cells differentiate into restricted potential progenitors before maturing into the many..