RNA STRAND: the RNA secondary structure and statistical analysis database
Andronescu, Mirela, Bereg, Vera, Hoos, Holger H, Condon, Anne
Published in BMC bioinformatics (13.08.2008)
Published in BMC bioinformatics (13.08.2008)
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Journal Article
Computational approaches for RNA energy parameter estimation
Andronescu, Mirela, Condon, Anne, Hoos, Holger H, Mathews, David H, Murphy, Kevin P
Published in RNA (Cambridge) (01.12.2010)
Published in RNA (Cambridge) (01.12.2010)
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Journal Article
Single-cell decoding of drug induced transcriptomic reprogramming in triple negative breast cancers
Kabeer, Farhia, Tran, Hoa, Andronescu, Mirela, Singh, Gurdeep, Lee, Hakwoo, Salehi, Sohrab, Wang, Beixi, Biele, Justina, Brimhall, Jazmine, Gee, David, Cerda, Viviana, O’Flanagan, Ciara, Algara, Teresa, Kono, Takako, Beatty, Sean, Zaikova, Elena, Lai, Daniel, Lee, Eric, Moore, Richard, Mungall, Andrew J., Williams, Marc J., Roth, Andrew, Campbell, Kieran R., Shah, Sohrab P., Aparicio, Samuel
Published in Genome Biology (18.07.2024)
Published in Genome Biology (18.07.2024)
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Journal Article
Epiclomal: Probabilistic clustering of sparse single-cell DNA methylation data
P. E. de Souza, Camila, Andronescu, Mirela, Masud, Tehmina, Kabeer, Farhia, Biele, Justina, Laks, Emma, Lai, Daniel, Ye, Patricia, Brimhall, Jazmine, Wang, Beixi, Su, Edmund, Hui, Tony, Cao, Qi, Wong, Marcus, Moksa, Michelle, Moore, Richard A, Hirst, Martin, Aparicio, Samuel, Shah, Sohrab P
Published in PLoS computational biology (01.09.2020)
Published in PLoS computational biology (01.09.2020)
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Journal Article
Accurate determination of CRISPR-mediated gene fitness in transplantable tumours
Eirew, Peter, O'Flanagan, Ciara, Ting, Jerome, Salehi, Sohrab, Brimhall, Jazmine, Wang, Beixi, Biele, Justina, Algara, Teresa, Lee, So Ra, Hoang, Corey, Yap, Damian, McKinney, Steven, Bates, Cherie, Kong, Esther, Lai, Daniel, Beatty, Sean, Andronescu, Mirela, Zaikova, Elena, Funnell, Tyler, Ceglia, Nicholas, Chia, Stephen, Gelmon, Karen, Mar, Colin, Shah, Sohrab, Roth, Andrew, Bouchard-Côté, Alexandre, Aparicio, Samuel
Published in Nature communications (04.08.2022)
Published in Nature communications (04.08.2022)
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Journal Article
Efficient parameter estimation for RNA secondary structure prediction
Andronescu, Mirela, Condon, Anne, Hoos, Holger H., Mathews, David H., Murphy, Kevin P.
Published in Bioinformatics (01.07.2007)
Published in Bioinformatics (01.07.2007)
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Journal Article
Secondary Structure Prediction of Interacting RNA Molecules
Andronescu, Mirela, Zhang, Zhi Chuan, Condon, Anne
Published in Journal of molecular biology (04.02.2005)
Published in Journal of molecular biology (04.02.2005)
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Journal Article
A New Algorithm for RNA Secondary Structure Design
Andronescu, Mirela, Fejes, Anthony P., Hutter, Frank, Hoos, Holger H., Condon, Anne
Published in Journal of molecular biology (20.02.2004)
Published in Journal of molecular biology (20.02.2004)
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Journal Article
A three-dimensional model of the yeast genome
Schutz, Kevin, McIlwain, Sean, Shendure, Jay, Kim, Yoo Jung, Andronescu, Mirela, Fields, Stanley, Blau, C. Anthony, Lee, Choli, Duan, Zhijun, Noble, William S
Published in Nature (London) (20.05.2010)
Published in Nature (London) (20.05.2010)
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Journal Article
Clonal fitness inferred from timeseries modeling of single cell cancer genomes
Salehi, Sohrab, Kabeer, Farhia, Ceglia, Nicholas, Andronescu, Mirela, Williams, Marc J., Campbell, Kieran R., Masud, Tehmina, Wang, Beixi, Biele, Justina, Brimhall, Jazmine, Gee, David, Lee, Hakwoo, Ting, Jerome, Zhang, Allen W., Tran, Hoa, O’Flanagan, Ciara, Dorri, Fatemeh, Rusk, Nicole, de Algara, Teresa Ruiz, Lee, So Ra, Cheng, Brian Yu Chieh, Eirew, Peter, Kono, Takako, Pham, Jenifer, Grewal, Diljot, Lai, Daniel, Moore, Richard, Mungall, Andrew J., Marra, Marco A., McPherson, Andrew, Bouchard-Côté, Alexandre, Aparicio, Samuel, Shah, Sohrab P.
Published in Nature (London) (23.06.2021)
Published in Nature (London) (23.06.2021)
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Journal Article
Cancer phylogenetic tree inference at scale from 1000s of single cell genomes
Salehi, Sohrab, Dorri, Fatemeh, Chern, Kevin, Kabeer, Farhia, Rusk, Nicole, Funnell, Tyler, Williams, Marc J., Lai, Daniel, Andronescu, Mirela, Campbell, Kieran R., McPherson, Andrew, Aparicio, Samuel, Roth, Andrew, Shah, Sohrab P., Bouchard-Côté, Alexandre
Published in Peer community journal (21.07.2023)
Published in Peer community journal (21.07.2023)
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Journal Article
A genome-wide 3C-method for characterizing the three-dimensional architectures of genomes
Duan, Zhijun, Andronescu, Mirela, Schutz, Kevin, Lee, Choli, Shendure, Jay, Fields, Stanley, Noble, William S., Anthony Blau, C.
Published in Methods (San Diego, Calif.) (01.11.2012)
Published in Methods (San Diego, Calif.) (01.11.2012)
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Journal Article
RNAsoft: a suite of RNA secondary structure prediction and design software tools
Andronescu, Mirela, Aguirre-Hernández, Rosalía, Condon, Anne, Hoos, Holger H.
Published in Nucleic acids research (01.07.2003)
Published in Nucleic acids research (01.07.2003)
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Journal Article
Thermodynamically based DNA strand design
Tulpan, Dan, Andronescu, Mirela, Chang, Seo Bong, Shortreed, Michael R., Condon, Anne, Hoos, Holger H., Smith, Lloyd M.
Published in Nucleic acids research (01.01.2005)
Published in Nucleic acids research (01.01.2005)
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Journal Article
A thermodynamic approach to designing structure-free combinatorial DNA word sets
Shortreed, Michael R., Chang, Seo Bong, Hong, DongGee, Phillips, Maggie, Campion, Bridget, Tulpan, Dan C., Andronescu, Mirela, Condon, Anne, Hoos, Holger H., Smith, Lloyd M.
Published in Nucleic acids research (01.01.2005)
Published in Nucleic acids research (01.01.2005)
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Journal Article
Algorithms for testing that sets of DNA words concatenate without secondary structure
Andronescu, Mirela, Dees, Danielle, Slaybaugh, Laura, Zhao, Yinglei, Condon, Anne, Cohen, Barry, Skiena, Steven
Published in Natural computing (01.12.2003)
Published in Natural computing (01.12.2003)
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Journal Article
Epiclomal: probabilistic clustering of sparse single-cell DNA methylation data
Camila P E De Souza, Andronescu, Mirela, Masud, Tehmina, Kabeer, Farhia, Biele, Justina, Laks, Emma, Lai, Daniel, Ye, Patricia, Brimhall, Jazmine, Wang, Beixi, Su, Edmund, Hui, Tony, Cao, Qi, Wong, Marcus, Moksa, Michelle, Moore, Richard A, Hirst, Martin, Aparicio, Samuel, Shah, Sohrab P
Published in bioRxiv (21.02.2020)
Published in bioRxiv (21.02.2020)
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