Computational enhancement of single-cell sequences for inferring tumor evolution
Miura, Sayaka, Huuki, Louise A, Buturla, Tiffany, Vu, Tracy, Gomez, Karen, Kumar, Sudhir
Published in Bioinformatics (01.09.2018)
Published in Bioinformatics (01.09.2018)
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Journal Article
Single-nucleus transcriptome analysis reveals cell-type-specific molecular signatures across reward circuitry in the human brain
Tran, Matthew N., Maynard, Kristen R., Spangler, Abby, Huuki, Louise A., Montgomery, Kelsey D., Sadashivaiah, Vijay, Tippani, Madhavi, Barry, Brianna K., Hancock, Dana B., Hicks, Stephanie C., Kleinman, Joel E., Hyde, Thomas M., Collado-Torres, Leonardo, Jaffe, Andrew E., Martinowich, Keri
Published in Neuron (Cambridge, Mass.) (06.10.2021)
Published in Neuron (Cambridge, Mass.) (06.10.2021)
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Journal Article
Predicting clone genotypes from tumor bulk sequencing of multiple samples
Miura, Sayaka, Gomez, Karen, Murillo, Oscar, Huuki, Louise A, Vu, Tracy, Buturla, Tiffany, Kumar, Sudhir
Published in Bioinformatics (01.12.2018)
Published in Bioinformatics (01.12.2018)
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Journal Article
Discovering research articles containing evolutionary timetrees by machine learning
Stanojevic, Marija, Andjelkovic, Jovan, Kasprowicz, Adrienne, Huuki, Louise A, Chao, Jennifer, Hedges, S Blair, Kumar, Sudhir, Obradovic, Zoran
Published in Bioinformatics (Oxford, England) (01.01.2023)
Published in Bioinformatics (Oxford, England) (01.01.2023)
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Journal Article
Challenges and opportunities to computationally deconvolve heterogeneous tissue with varying cell sizes using single-cell RNA-sequencing datasets
Maden, Sean K, Kwon, Sang Ho, Huuki-Myers, Louise A, Collado-Torres, Leonardo, Hicks, Stephanie C, Maynard, Kristen R
Published in Genome Biology (14.12.2023)
Published in Genome Biology (14.12.2023)
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Journal Article
Genetics and Brain Transcriptomics of Completed Suicide
Punzi, Giovanna, Ursini, Gianluca, Chen, Qiang, Radulescu, Eugenia, Tao, Ran, Huuki, Louise A, Di Carlo, Pasquale, Collado-Torres, Leonardo, Shin, Joo Heon, Catanesi, Roberto, Jaffe, Andrew E, Hyde, Thomas M, Kleinman, Joel E, Mackay, Trudy F C, Weinberger, Daniel R
Published in The American journal of psychiatry (01.03.2022)
Published in The American journal of psychiatry (01.03.2022)
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Journal Article
Data-driven identification of total RNA expression genes for estimation of RNA abundance in heterogeneous cell types highlighted in brain tissue
Huuki-Myers, Louise A, Montgomery, Kelsey D, Kwon, Sang Ho, Page, Stephanie C, Hicks, Stephanie C, Maynard, Kristen R, Collado-Torres, Leonardo
Published in Genome Biology (16.10.2023)
Published in Genome Biology (16.10.2023)
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Journal Article
Somatic evolutionary timings of driver mutations
Gomez, Karen, Miura, Sayaka, Huuki, Louise A, Spell, Brianna S, Townsend, Jeffrey P, Kumar, Sudhir
Published in BMC cancer (18.01.2018)
Published in BMC cancer (18.01.2018)
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Journal Article
SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor-powered RNA-seq analyses
Eagles, Nicholas J, Burke, Emily E, Leonard, Jacob, Barry, Brianna K, Stolz, Joshua M, Huuki, Louise, Phan, BaDoi N, Serrato, Violeta Larios, Gutiérrez-Millán, Everardo, Aguilar-Ordoñez, Israel, Jaffe, Andrew E, Collado-Torres, Leonardo
Published in BMC bioinformatics (01.05.2021)
Published in BMC bioinformatics (01.05.2021)
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Journal Article
Correction to: SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor‑powered RNA‑seq analyses
Eagles, Nicholas J, Burke, Emily E, Leonard, Jacob, Barry, Brianna K, Stolz, Joshua M, Huuki, Louise, Phan, BaDoi N, Serrato, Violeta Larios, Gutiérrez-Millán, Everardo, Aguilar-Ordoéez, Israel, Jaffe, Andrew E, Collado-Torres, Leonardo
Published in BMC bioinformatics (22.07.2021)
Published in BMC bioinformatics (22.07.2021)
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Journal Article
Analysis of the caudate nucleus transcriptome in individuals with schizophrenia highlights effects of antipsychotics and new risk genes
Benjamin, Kynon J. M., Chen, Qiang, Jaffe, Andrew E., Stolz, Joshua M., Collado-Torres, Leonardo, Huuki-Myers, Louise A., Burke, Emily E., Arora, Ria, Feltrin, Arthur S., Barbosa, André Rocha, Radulescu, Eugenia, Pergola, Giulio, Shin, Joo Heon, Ulrich, William S., Deep-Soboslay, Amy, Tao, Ran, Hyde, Thomas M., Kleinman, Joel E., Erwin, Jennifer A., Weinberger, Daniel R., Paquola, Apuã C. M.
Published in Nature neuroscience (01.11.2022)
Published in Nature neuroscience (01.11.2022)
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Journal Article
Analysis of gene expression in the postmortem brain of neurotypical Black Americans reveals contributions of genetic ancestry
Benjamin, Kynon J. M., Chen, Qiang, Eagles, Nicholas J., Huuki-Myers, Louise A., Collado-Torres, Leonardo, Stolz, Joshua M., Pertea, Geo, Shin, Joo Heon, Paquola, Apuã C. M., Hyde, Thomas M., Kleinman, Joel E., Jaffe, Andrew E., Han, Shizhong, Weinberger, Daniel R.
Published in Nature neuroscience (01.06.2024)
Published in Nature neuroscience (01.06.2024)
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Journal Article
A data-driven single-cell and spatial transcriptomic map of the human prefrontal cortex
Huuki-Myers, Louise A, Spangler, Abby, Eagles, Nicholas J, Montgomery, Kelsey D, Kwon, Sang Ho, Guo, Boyi, Grant-Peters, Melissa, Divecha, Heena R, Tippani, Madhavi, Sriworarat, Chaichontat, Nguyen, Annie B, Ravichandran, Prashanthi, Tran, Matthew N, Seyedian, Arta, Hyde, Thomas M, Kleinman, Joel E, Battle, Alexis, Page, Stephanie C, Ryten, Mina, Hicks, Stephanie C, Martinowich, Keri, Collado-Torres, Leonardo, Maynard, Kristen R
Published in Science (American Association for the Advancement of Science) (24.05.2024)
Published in Science (American Association for the Advancement of Science) (24.05.2024)
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Journal Article
RNA Sequencing of the Limbic System in Major Depressive Disorder
Goes, Fernando, Zandi, Peter, Torres, Leonardo Collado, Weinberger, Daniel, Kleinman, Joel, Huuki, Louise, Hyde, Thomas
Published in Biological psychiatry (1969) (01.05.2022)
Published in Biological psychiatry (1969) (01.05.2022)
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Journal Article
SINGLE-NUCLEUS RNA-SEQUENCING OF THE SUBGENUAL ANTERIOR CINGULATE CORTEX IN MAJOR DEPRESSIVE DISORDER
Goes, Fernando, Braun, Patricia, Collardo-Torres, Leo, Huuki, Louise, Kleinman, Joel, Tao, Ran, Shin, Joo Heon, Hyde, Thomas
Published in European neuropsychopharmacology (01.10.2023)
Published in European neuropsychopharmacology (01.10.2023)
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Journal Article
Systems biology dissection of PTSD and MDD across brain regions, cell types, and blood
Daskalakis, Nikolaos P, Iatrou, Artemis, Chatzinakos, Chris, Jajoo, Aarti, Snijders, Clara, Wylie, Dennis, DiPietro, Christopher P, Tsatsani, Ioulia, Chen, Chia-Yen, Pernia, Cameron D, Soliva-Estruch, Marina, Arasappan, Dhivya, Bharadwaj, Rahul A, Collado-Torres, Leonardo, Wuchty, Stefan, Alvarez, Victor E, Dammer, Eric B, Deep-Soboslay, Amy, Duong, Duc M, Eagles, Nick, Huber, Bertrand R, Huuki, Louise, Holstein, Vincent L, Logue, Mark W, Lugenbühl, Justina F, Maihofer, Adam X, Miller, Mark W, Nievergelt, Caroline M, Pertea, Geo, Ross, Deanna, Sendi, Mohammad S E, Sun, Benjamin B, Tao, Ran, Tooke, James, Wolf, Erika J, Zeier, Zane, Berretta, Sabina, Champagne, Frances A, Hyde, Thomas, Seyfried, Nicholas T, Shin, Joo Heon, Weinberger, Daniel R, Nemeroff, Charles B, Kleinman, Joel E, Ressler, Kerry J
Published in Science (American Association for the Advancement of Science) (24.05.2024)
Published in Science (American Association for the Advancement of Science) (24.05.2024)
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