The clonal and mutational evolution spectrum of primary triple-negative breast cancers
…, R Varhol, A Tam, N Dhalla, T Zeng, K Ma, SK Chan… - Nature, 2012 - nature.com
Primary triple-negative breast cancers (TNBCs), a tumour type defined by lack of oestrogen
receptor, progesterone receptor and ERBB2 gene amplification, represent approximately 16…
receptor, progesterone receptor and ERBB2 gene amplification, represent approximately 16…
De novo assembly and analysis of RNA-seq data
…, T Cezard, YS Butterfield, R Newsome, SK Chan… - Nature …, 2010 - nature.com
We describe Trans-ABySS, a de novo short-read transcriptome assembly and analysis
pipeline that addresses variation in local read densities by assembling read substrings with …
pipeline that addresses variation in local read densities by assembling read substrings with …
[HTML][HTML] Proteomic analysis of the secretome of Leishmania donovani
JM Silverman, SK Chan, DP Robinson, DM Dwyer… - Genome biology, 2008 - Springer
Background Leishmania and other intracellular pathogens have evolved strategies that
support invasion and persistence within host target cells. In some cases the underlying …
support invasion and persistence within host target cells. In some cases the underlying …
[HTML][HTML] Draft genome of the mountain pine beetle, Dendroctonus ponderosae Hopkins, a major forest pest
…, MMS Yuen, NY Liao, T Roderick Docking, SK Chan… - Genome biology, 2013 - Springer
Background The mountain pine beetle, Dendroctonus ponderosae Hopkins, is the most
serious insect pest of western North American pine forests. A recent outbreak destroyed more …
serious insect pest of western North American pine forests. A recent outbreak destroyed more …
Phosphorylated caveolin-1 regulates Rho/ROCK-dependent focal adhesion dynamics and tumor cell migration and invasion
Rho/ROCK signaling and caveolin-1 (Cav1) are implicated in tumor cell migration and
metastasis; however, the underlying molecular mechanisms remain poorly defined. Cav1 was …
metastasis; however, the underlying molecular mechanisms remain poorly defined. Cav1 was …
Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen
…, N Feau, B Henrissat, SK Chan… - Proceedings of the …, 2011 - National Acad Sciences
In western North America, the current outbreak of the mountain pine beetle (MPB) and its
microbial associates has destroyed wide areas of lodgepole pine forest, including more than …
microbial associates has destroyed wide areas of lodgepole pine forest, including more than …
Pan-cancer analysis of advanced patient tumors reveals interactions between therapy and genomic landscapes
…, H Kwan, L Culibrk, EY Zhao, K Dixon, K Fan… - Nature Cancer, 2020 - nature.com
Advanced and metastatic tumors with complex treatment histories drive cancer mortality.
Here we describe the POG570 cohort, a comprehensive whole-genome, transcriptome and …
Here we describe the POG570 cohort, a comprehensive whole-genome, transcriptome and …
[HTML][HTML] De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data
…, NY Liao, D Platt, G Robertson, M Seidel, SK Chan… - Genome biology, 2009 - Springer
Sequencing-by-synthesis technologies can reduce the cost of generating de novo genome
assemblies. We report a method for assembling draft genome sequences of eukaryotic …
assemblies. We report a method for assembling draft genome sequences of eukaryotic …
Meta-analysis of colorectal cancer gene expression profiling studies identifies consistently reported candidate biomarkers
Purpose: Elucidation of candidate colorectal cancer biomarkers often begins by comparing
the expression profiles of cancerous and normal tissue by performing gene expression …
the expression profiles of cancerous and normal tissue by performing gene expression …
[HTML][HTML] A clinical transcriptome approach to patient stratification and therapy selection in acute myeloid leukemia
…, J Jiang, JA Pilsworth, LA Swanson, SK Chan… - Nature …, 2021 - nature.com
As more clinically-relevant genomic features of myeloid malignancies are revealed, it has
become clear that targeted clinical genetic testing is inadequate for risk stratification. Here, we …
become clear that targeted clinical genetic testing is inadequate for risk stratification. Here, we …