Solo: Doublet Identification in Single-Cell RNA-Seq via Semi-Supervised Deep Learning
Bernstein, Nicholas J., Fong, Nicole L., Lam, Irene, Roy, Margaret A., Hendrickson, David G., Kelley, David R.
Published in Cell systems (22.07.2020)
Published in Cell systems (22.07.2020)
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A Consensus Genome-scale Reconstruction of Chinese Hamster Ovary Cell Metabolism
Hefzi, Hooman, Ang, Kok Siong, Hanscho, Michael, Bordbar, Aarash, Ruckerbauer, David, Lakshmanan, Meiyappan, Orellana, Camila A., Baycin-Hizal, Deniz, Huang, Yingxiang, Ley, Daniel, Martinez, Veronica S., Kyriakopoulos, Sarantos, Jiménez, Natalia E., Zielinski, Daniel C., Quek, Lake-Ee, Wulff, Tune, Arnsdorf, Johnny, Li, Shangzhong, Lee, Jae Seong, Paglia, Giuseppe, Loira, Nicolas, Spahn, Philipp N., Pedersen, Lasse E., Gutierrez, Jahir M., King, Zachary A., Lund, Anne Mathilde, Nagarajan, Harish, Thomas, Alex, Abdel-Haleem, Alyaa M., Zanghellini, Juergen, Kildegaard, Helene F., Voldborg, Bjørn G., Gerdtzen, Ziomara P., Betenbaugh, Michael J., Palsson, Bernhard O., Andersen, Mikael R., Nielsen, Lars K., Borth, Nicole, Lee, Dong-Yup, Lewis, Nathan E.
Published in Cell systems (23.11.2016)
Published in Cell systems (23.11.2016)
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Inferring Causal Gene Regulatory Networks from Coupled Single-Cell Expression Dynamics Using Scribe
Qiu, Xiaojie, Rahimzamani, Arman, Wang, Li, Ren, Bingcheng, Mao, Qi, Durham, Timothy, McFaline-Figueroa, José L., Saunders, Lauren, Trapnell, Cole, Kannan, Sreeram
Published in Cell systems (25.03.2020)
Published in Cell systems (25.03.2020)
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Unsupervised Trajectory Analysis of Single-Cell RNA-Seq and Imaging Data Reveals Alternative Tuft Cell Origins in the Gut
Herring, Charles A., Banerjee, Amrita, McKinley, Eliot T., Simmons, Alan J., Ping, Jie, Roland, Joseph T., Franklin, Jeffrey L., Liu, Qi, Gerdes, Michael J., Coffey, Robert J., Lau, Ken S.
Published in Cell systems (24.01.2018)
Published in Cell systems (24.01.2018)
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Before and After: Comparison of Legacy and Harmonized TCGA Genomic Data Commons’ Data
Gao, Galen F., Parker, Joel S., Reynolds, Sheila M., Silva, Tiago C., Wang, Liang-Bo, Zhou, Wanding, Akbani, Rehan, Bailey, Matthew, Balu, Saianand, Berman, Benjamin P., Brooks, Denise, Chen, Hu, Cherniack, Andrew D., Demchok, John A., Ding, Li, Felau, Ina, Gaheen, Sharon, Gerhard, Daniela S., Heiman, David I., Hernandez, Kyle M., Hoadley, Katherine A., Jayasinghe, Reyka, Kemal, Anab, Knijnenburg, Theo A., Laird, Peter W., Mensah, Michael K.A., Mungall, Andrew J., Robertson, A. Gordon, Shen, Hui, Tarnuzzer, Roy, Wang, Zhining, Wyczalkowski, Matthew, Yang, Liming, Zenklusen, Jean C., Zhang, Zhenyu, Liang, Han, Noble, Michael S.
Published in Cell systems (24.07.2019)
Published in Cell systems (24.07.2019)
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exceRpt: A Comprehensive Analytic Platform for Extracellular RNA Profiling
Rozowsky, Joel, Kitchen, Robert R., Park, Jonathan J., Galeev, Timur R., Diao, James, Warrell, Jonathan, Thistlethwaite, William, Subramanian, Sai L., Milosavljevic, Aleksandar, Gerstein, Mark
Published in Cell systems (24.04.2019)
Published in Cell systems (24.04.2019)
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Protein Phase Separation Provides Long-Term Memory of Transient Spatial Stimuli
Dine, Elliot, Gil, Agnieszka A., Uribe, Giselle, Brangwynne, Clifford P., Toettcher, Jared E.
Published in Cell systems (27.06.2018)
Published in Cell systems (27.06.2018)
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Stem Cell Differentiation as a Non-Markov Stochastic Process
Stumpf, Patrick S., Smith, Rosanna C.G., Lenz, Michael, Schuppert, Andreas, Müller, Franz-Josef, Babtie, Ann, Chan, Thalia E., Stumpf, Michael P.H., Please, Colin P., Howison, Sam D., Arai, Fumio, MacArthur, Ben D.
Published in Cell systems (27.09.2017)
Published in Cell systems (27.09.2017)
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A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models
Opdam, Sjoerd, Richelle, Anne, Kellman, Benjamin, Li, Shanzhong, Zielinski, Daniel C., Lewis, Nathan E.
Published in Cell systems (22.03.2017)
Published in Cell systems (22.03.2017)
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Absolute Quantification of Protein and mRNA Abundances Demonstrate Variability in Gene-Specific Translation Efficiency in Yeast
Lahtvee, Petri-Jaan, Sánchez, Benjamín J., Smialowska, Agata, Kasvandik, Sergo, Elsemman, Ibrahim E., Gatto, Francesco, Nielsen, Jens
Published in Cell systems (24.05.2017)
Published in Cell systems (24.05.2017)
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Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics
Afshinnekoo, Ebrahim, Meydan, Cem, Chowdhury, Shanin, Jaroudi, Dyala, Boyer, Collin, Bernstein, Nick, Maritz, Julia M., Reeves, Darryl, Gandara, Jorge, Chhangawala, Sagar, Ahsanuddin, Sofia, Simmons, Amber, Nessel, Timothy, Sundaresh, Bharathi, Pereira, Elizabeth, Jorgensen, Ellen, Kolokotronis, Sergios-Orestis, Kirchberger, Nell, Garcia, Isaac, Gandara, David, Dhanraj, Sean, Nawrin, Tanzina, Saletore, Yogesh, Alexander, Noah, Vijay, Priyanka, Hénaff, Elizabeth M., Zumbo, Paul, Walsh, Michael, O’Mullan, Gregory D., Tighe, Scott, Dudley, Joel T., Dunaif, Anya, Ennis, Sean, O’Halloran, Eoghan, Magalhaes, Tiago R., Boone, Braden, Jones, Angela L., Muth, Theodore R., Paolantonio, Katie Schneider, Alter, Elizabeth, Schadt, Eric E., Garbarino, Jeanne, Prill, Robert J., Carlton, Jane M., Levy, Shawn, Mason, Christopher E.
Published in Cell systems (29.07.2015)
Published in Cell systems (29.07.2015)
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Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome
Kouzine, Fedor, Wojtowicz, Damian, Baranello, Laura, Yamane, Arito, Nelson, Steevenson, Resch, Wolfgang, Kieffer-Kwon, Kyong-Rim, Benham, Craig J., Casellas, Rafael, Przytycka, Teresa M., Levens, David
Published in Cell systems (22.03.2017)
Published in Cell systems (22.03.2017)
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Efficient Parameter Estimation Enables the Prediction of Drug Response Using a Mechanistic Pan-Cancer Pathway Model
Fröhlich, Fabian, Kessler, Thomas, Weindl, Daniel, Shadrin, Alexey, Schmiester, Leonard, Hache, Hendrik, Muradyan, Artur, Schütte, Moritz, Lim, Ji-Hyun, Heinig, Matthias, Theis, Fabian J., Lehrach, Hans, Wierling, Christoph, Lange, Bodo, Hasenauer, Jan
Published in Cell systems (26.12.2018)
Published in Cell systems (26.12.2018)
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