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Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm
Zunder, Eli R, Finck, Rachel, Behbehani, Gregory K, Amir, El-ad D, Krishnaswamy, Smita, Gonzalez, Veronica D, Lorang, Cynthia G, Bjornson, Zach, Spitzer, Matthew H, Bodenmiller, Bernd, Fantl, Wendy J, Pe'er, Dana, Nolan, Garry P
Published in Nature protocols (01.02.2015)
Published in Nature protocols (01.02.2015)
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Journal Article
A robust clustering algorithm for identifying problematic samples in genome-wide association studies
Bellenguez, Céline, Strange, Amy, Freeman, Colin, Donnelly, Peter, Spencer, Chris C.A.
Published in Bioinformatics (01.01.2012)
Published in Bioinformatics (01.01.2012)
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Journal Article
A high-performance neural prosthesis enabled by control algorithm design
Gilja, Vikash, Nuyujukian, Paul, Chestek, Cindy A, Cunningham, John P, Yu, Byron M, Fan, Joline M, Churchland, Mark M, Kaufman, Matthew T, Kao, Jonathan C, Ryu, Stephen I, Shenoy, Krishna V
Published in Nature neuroscience (01.12.2012)
Published in Nature neuroscience (01.12.2012)
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Journal Article
FLOW-MAP: a graph-based, force-directed layout algorithm for trajectory mapping in single-cell time course datasets
Ko, Melissa E., Williams, Corey M., Fread, Kristen I., Goggin, Sarah M., Rustagi, Rohit S., Fragiadakis, Gabriela K., Nolan, Garry P., Zunder, Eli R.
Published in Nature protocols (01.02.2020)
Published in Nature protocols (01.02.2020)
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Journal Article
Seizure Detection Algorithms in Critically Ill Children: A Comparative Evaluation
Din, Farah, Lalgudi Ganesan, Saptharishi, Akiyama, Tomoyuki, Stewart, Craig P, Ochi, Ayako, Otsubo, Hiroshi, Go, Cristina, Hahn, Cecil D
Published in Critical care medicine (01.04.2020)
Published in Critical care medicine (01.04.2020)
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Journal Article
Hydrogel-Forming Microneedle Arrays Allow Detection of Drugs and Glucose In Vivo: Potential for Use in Diagnosis and Therapeutic Drug Monitoring
Caffarel-Salvador, Ester, Brady, Aaron J., Eltayib, Eyman, Meng, Teng, Alonso-Vicente, Ana, Gonzalez-Vazquez, Patricia, Torrisi, Barbara M., Vicente-Perez, Eva Maria, Mooney, Karen, Jones, David S., Bell, Steven E. J., McCoy, Colin P., McCarthy, Helen O., McElnay, James C., Donnelly, Ryan F.
Published in PloS one (30.12.2015)
Published in PloS one (30.12.2015)
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Journal Article
FIRMA: a method for detection of alternative splicing from exon array data
Purdom, E., Simpson, K. M., Robinson, M. D., Conboy, J. G., Lapuk, A. V., Speed, T.P.
Published in Bioinformatics (01.08.2008)
Published in Bioinformatics (01.08.2008)
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Journal Article
Parallelized computational 3D video microscopy of freely moving organisms at multiple gigapixels per second
Zhou, Kevin C., Harfouche, Mark, Cooke, Colin L., Park, Jaehee, Konda, Pavan C., Kreiss, Lucas, Kim, Kanghyun, Jönsson, Joakim, Doman, Thomas, Reamey, Paul, Saliu, Veton, Cook, Clare B., Zheng, Maxwell, Bechtel, John P., Bègue, Aurélien, McCarroll, Matthew, Bagwell, Jennifer, Horstmeyer, Gregor, Bagnat, Michel, Horstmeyer, Roarke
Published in Nature photonics (01.05.2023)
Published in Nature photonics (01.05.2023)
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Journal Article
QFlow lite dataset: A machine-learning approach to the charge states in quantum dot experiments
Zwolak, Justyna P., Kalantre, Sandesh S., Wu, Xingyao, Ragole, Stephen, Taylor, Jacob M.
Published in PloS one (17.10.2018)
Published in PloS one (17.10.2018)
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Journal Article
Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS
Johnson, Jeanette A. I., Tsang, Ashley P., Mitchell, Jacob T., Zhou, David L., Bowden, Julia, Davis-Marcisak, Emily, Sherman, Thomas, Liefeld, Ted, Loth, Melanie, Goff, Loyal A., Zimmerman, Jacquelyn W., Kinny-Köster, Ben, Jaffee, Elizabeth M., Tamayo, Pablo, Mesirov, Jill P., Reich, Michael, Fertig, Elana J., Stein-O’Brien, Genevieve L.
Published in Nature protocols (01.12.2023)
Published in Nature protocols (01.12.2023)
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Journal Article
Bacterial genome engineering using CRISPR-associated transposases
Gelsinger, Diego Rivera, Vo, Phuc Leo H., Klompe, Sanne E., Ronda, Carlotta, Wang, Harris H., Sternberg, Samuel H.
Published in Nature protocols (01.03.2024)
Published in Nature protocols (01.03.2024)
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Journal Article
A Meta-Analysis of Retinoblastoma Copy Numbers Refines the List of Possible Driver Genes Involved in Tumor Progression
Kooi, Irsan E., Mol, Berber M., Massink, Maarten P. G., de Jong, Marcus C., de Graaf, Pim, van der Valk, Paul, Meijers-Heijboer, Hanne, Kaspers, Gertjan J. L., Moll, Annette C., te Riele, Hein, Cloos, Jacqueline, Dorsman, Josephine C.
Published in PloS one (26.04.2016)
Published in PloS one (26.04.2016)
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Journal Article
Gene Expression Profiling of Bronchoalveolar Lavage Cells Preceding a Clinical Diagnosis of Chronic Lung Allograft Dysfunction
Weigt, S. Samuel, Wang, Xiaoyan, Palchevskiy, Vyacheslav, Gregson, Aric L., Patel, Naman, DerHovanessian, Ariss, Shino, Michael Y., Sayah, David M., Birjandi, Shirin, Lynch, Joseph P., Saggar, Rajan, Ardehali, Abbas, Ross, David J., Palmer, Scott M., Elashoff, David, Belperio, John A.
Published in PloS one (19.01.2017)
Published in PloS one (19.01.2017)
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Journal Article
Integration of microarray data and literature mining identifies a sex bias in DPP4+CD4+ T cells in HIV-1 infection
Stubbe, Hans Christian, Dahlke, Christine, Rotheneder, Katharina, Stirner, Renate, Roider, Julia, Conca, Raffaele, Seybold, Ulrich, Bogner, Johannes, Addo, Marylyn Martina, Draenert, Rika
Published in PloS one (18.09.2020)
Published in PloS one (18.09.2020)
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Journal Article
Increasing the diagnostic yield of exome sequencing by copy number variant analysis
Marchuk, Daniel S., Crooks, Kristy, Strande, Natasha, Kaiser-Rogers, Kathleen, Milko, Laura V., Brandt, Alicia, Arreola, Alexandra, Tilley, Christian R., Bizon, Chris, Vora, Neeta L., Wilhelmsen, Kirk C., Evans, James P., Berg, Jonathan S.
Published in PloS one (17.12.2018)
Published in PloS one (17.12.2018)
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Journal Article
Gene Expression during the Life Cycle of Drosophila melanogaster
Arbeitman, Michelle N., Eileen E. M. Furlong, Imam, Farhad, Johnson, Eric, Null, Brian H., Baker, Bruce S., Krasnow, Mark A., Scott, Matthew P., Davis, Ronald W., White, Kevin P.
Published in Science (American Association for the Advancement of Science) (27.09.2002)
Published in Science (American Association for the Advancement of Science) (27.09.2002)
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Journal Article
SRMA: an R package for resequencing array data analysis
Zhang, Nianxiang, Xu, Yan, O'Hely, Martin, Speed, Terence P., Scharfe, Curt, Wang, Wenyi
Published in Bioinformatics (15.07.2012)
Published in Bioinformatics (15.07.2012)
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Journal Article
Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels
Schulz, Marcel H, Zerbino, Daniel R, Vingron, Martin, Birney, Ewan
Published in Bioinformatics (Oxford, England) (15.04.2012)
Published in Bioinformatics (Oxford, England) (15.04.2012)
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