UCD Cancer Data Lab
UCD Cancer Data Lab
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A Compendium of Co-regulated Protein Complexes in Breast Cancer Reveals Collateral Loss Events
Protein complexes are responsible for the bulk of activities within the cell, but how their behavior and abundance varies across tumors …
Colm J. Ryan
,
Susan Kennedy
,
Ilirjana Bajrami
,
David Matallanas
,
Christopher J Lord
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CancerGD: a resource for identifying and interpreting genetic dependencies in cancer
Genes whose function is selectively essential in the presence of cancer-associated genetic aberrations represent promising targets for …
Stephen Bridgett
,
James Campbell
,
Christopher J Lord
,
Colm J. Ryan
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Genetic Interaction Score (S-Score) Calculation, Clustering, and Visualization of Genetic Interaction Profiles for Yeast
This protocol describes computational analysis of genetic interaction screens, ranging from data capture (plate imaging) to downstream …
Assen Roguev
,
Colm J. Ryan
,
Jiewei Xu
,
Isabelle Colson
,
Edgar Hartsuiker
,
Nevan Krogan
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DOI
Paper
High-Throughput Quantitative Genetic Interaction Mapping in the Fission Yeast Schizosaccharomyces pombe
Epistasis mapping, in which the phenotype that emerges from combining pairs of mutations is measured quantitatively, is a powerful tool …
Assen Roguev
,
Colm J. Ryan
,
Edgar Hartsuiker
,
Nevan J Krogan
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The histone variant H2A. Z promotes splicing of weak introns
Multiple lines of evidence implicate chromatin in the regulation of premessenger RNA (pre-mRNA) splicing. However, the influence of …
Kelly E Nissen
,
Christina M Homer
,
Colm J. Ryan
,
Michael Shales
,
Nevan J Krogan
,
Kristin L Patrick
,
Christine Guthrie
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Paper
ATR inhibitors as a synthetic lethal therapy for tumours deficient in ARID1A
Identifying genetic biomarkers of synthetic lethal drug sensitivity effects provides one approach to the development of targeted cancer …
Chris T. Williamson
,
Rowan Miller
,
Helen N. Pemberton
,
Samuel E. Jones
,
James Campbell
,
Asha Konde
,
Nicholas Badham
,
Rumana Rafiq
,
Rachel Brough
,
Aditi Gulati
,
Colm J. Ryan
,
Andrew R. Reynolds
,
others
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Paper
Large-scale profiling of kinase dependencies in cancer cell lines
One approach to identifying cancer-specific vulnerabilities and therapeutic targets is to profile genetic dependencies in cancer cell …
James Campbell
,
Colm J. Ryan
,
Rachel Brough
,
Ilirjana Bajrami
,
Helen N Pemberton
,
Irene Y Chong
,
Sara Costa-Cabral
,
Jessica Frankum
,
Aditi Gulati
,
Harriet Holme
,
others
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Genetic Interaction Mapping Reveals a Role for the SWI/SNF Nucleosome Remodeler in Spliceosome Activation in Fission Yeast
Although numerous regulatory connections between pre-mRNA splicing and chromatin have been demonstrated, the precise mechanisms by …
Kristin L. Patrick
,
Colm J. Ryan
,
Jiewei Xu
,
Jesse J. Lipp
,
Kelly E. Nissen
,
Assen Roguev
,
Michael Shales
,
Nevan J. Krogan
,
Christine Guthrie
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Genome-wide epistatic expression quantitative trait loci discovery in four human tissues reveals the importance of local chromosomal interactions governing gene expression
Epistasis (synergistic interaction) among SNPs governing gene expression is likely to arise within transcriptional networks. However, …
Darren J Fitzpatrick
,
Colm J. Ryan
,
Naisha Shah
,
Derek Greene
,
Cliona Molony
,
Denis C Shields
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Evolutionarily conserved genetic interactions with budding and fission yeast 𝑀𝑢𝑡𝑆 identify orthologous relationships in mismatch repair-deficient cancer cells
The evolutionarily conserved DNA mismatch repair (MMR) system corrects base-substitution and insertion-deletion mutations generated …
Elena Tosti
,
Joseph A Katakowski
,
Sonja Schaetzlein
,
Hyun-Soo Kim
,
Colm J. Ryan
,
Michael Shales
,
Assen Roguev
,
Nevan J Krogan
,
Deborah Palliser
,
Michael-Christopher Keogh
,
others
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