GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs.

by Manuel Tognon, Vincenzo Bonnici, Erik Garrison, Rosalba Giugno, Luca Pinello
Published 2021-09-01

singlecellVR: Interactive Visualization of Single-Cell Data in Virtual Reality

by David F. Stein, David F. Stein, Huidong Chen, Huidong Chen, Huidong Chen, Huidong Chen, Michael E. Vinyard, Michael E. Vinyard, Michael E. Vinyard, Michael E. Vinyard, Michael E. Vinyard, Qian Qin, Qian Qin, Qian Qin, Qian Qin, Rebecca D. Combs, Rebecca D. Combs, Qian Zhang, Qian Zhang, Qian Zhang, Qian Zhang, Luca Pinello, Luca Pinello, Luca Pinello, Luca Pinello
Published 2021-10-01

Multi-scale chromatin state annotation using a hierarchical hidden Markov model

by Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis, Guo-Cheng Yuan
Published 2017-04-01

Robust and Scalable Learning of Complex Intrinsic Dataset Geometry via ElPiGraph

by Luca Albergante, Evgeny Mirkes, Jonathan Bac, Huidong Chen, Alexis Martin, Louis Faure, Emmanuel Barillot, Luca Pinello, Alexander Gorban, Andrei Zinovyev
Published 2020-03-01

Serum-Based Culture Conditions Provoke Gene Expression Variability in Mouse Embryonic Stem Cells as Revealed by Single-Cell Analysis

by Guoji Guo, Luca Pinello, Xiaoping Han, Shujing Lai, Li Shen, Ta-Wei Lin, Keyong Zou, Guo-Cheng Yuan, Stuart H. Orkin
Published 2016-02-01

Parallel Single-Cell RNA-Seq and Genetic Recording Reveals Lineage Decisions in Developing Embryoid Bodies

by Ik Soo Kim, Jingyi Wu, Gilbert J. Rahme, Sofia Battaglia, Atray Dixit, Elizabeth Gaskell, Huidong Chen, Luca Pinello, Bradley E. Bernstein
Published 2020-10-01

Assessment of computational methods for the analysis of single-cell ATAC-seq data

by Huidong Chen, Caleb Lareau, Tommaso Andreani, Michael E. Vinyard, Sara P. Garcia, Kendell Clement, Miguel A. Andrade-Navarro, Jason D. Buenrostro, Luca Pinello
Published 2019-11-01

CRISPRO: identification of functional protein coding sequences based on genome editing dense mutagenesis

by Vivien A. C. Schoonenberg, Mitchel A. Cole, Qiuming Yao, Claudio Macias-Treviño, Falak Sher, Patrick G. Schupp, Matthew C. Canver, Takahiro Maeda, Luca Pinello, Daniel E. Bauer
Published 2018-10-01

PrimeDesign software for rapid and simplified design of prime editing guide RNAs

by Jonathan Y. Hsu, Julian Grünewald, Regan Szalay, Justine Shih, Andrew V. Anzalone, Kin Chung Lam, Max W. Shen, Karl Petri, David R. Liu, J. Keith Joung, Luca Pinello
Published 2021-02-01

Hedgehog interacting protein–expressing lung fibroblasts suppress lymphocytic inflammation in mice

by Jeong H. Yun, ChangHee Lee, Tao Liu, Siqi Liu, Edy Y. Kim, Shuang Xu, Jeffrey L. Curtis, Luca Pinello, Russell P. Bowler, Edwin K. Silverman, Craig P. Hersh, Xiaobo Zhou
Published 2021-09-01

High throughput single-cell detection of multiplex CRISPR-edited gene modifications

by Elisa ten Hacken, Kendell Clement, Shuqiang Li, María Hernández-Sánchez, Robert Redd, Shu Wang, David Ruff, Michaela Gruber, Kaitlyn Baranowski, Jose Jacob, James Flynn, Keith W. Jones, Donna Neuberg, Kenneth J. Livak, Luca Pinello, Catherine J. Wu
Published 2020-10-01

Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM

by Huidong Chen, Luca Albergante, Jonathan Y. Hsu, Caleb A. Lareau, Giosuè Lo Bosco, Jihong Guan, Shuigeng Zhou, Alexander N. Gorban, Daniel E. Bauer, Martin J. Aryee, David M. Langenau, Andrei Zinovyev, Jason D. Buenrostro, Guo-Cheng Yuan, Luca Pinello
Published 2019-04-01

Eleven grand challenges in single-cell data science

by David Lähnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Kieran R. Campbell, Niko Beerenwinkel, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P.F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Alicja Rączkowska, Marcel Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
Published 2020-02-01

The histone demethylase UTX regulates the lineage-specific epigenetic program of invariant natural killer T cells

by Beyaz, Semir, Kim, Ji Hyung, Pinello, Luca, Xifaras, Michael E, Hu, Yu, Huang, Jialiang, Kerenyi, Marc A, Das, Partha Pratim, Barnitz, R Anthony, Herault, Aurelie, Dogum, Rizkullah, Haining, William Nicholas, Yilmaz, Omer Hidir, Passegue, Emmanuelle, Yuan, Guo-Cheng, Orkin, Stuart Holland, Winau, Florian
Published 2022

R.P. Lucae Pinelli Societatis Iesu Meditationes de sanctissimo eucharistiae sacramento, et praeparatione ad sacram communionem : item, nonnulla alia ad excellentiam [et] veneration...

by Pinelli, Luca (S.I.), 1542-1607., Mylius, Arnold, imp. (Colonia), Crith, Johann, imp. (Colonia)
Published 1608

Predicting chromatin organization using histone marks

by Huang, Jialiang, Marco, Eugenio, Pinello, Luca, Yuan, Guo-Cheng
Published 2015

Augmenting and Directing Robust, Long-Range CRISPR-Mediated Activation in Human Cells

by Tak, Y. Esther, Horng, Joy E., Perry, Nicholas T., Schultz, Hayley, Iyer, Sowmya, Yao, Qiuming, Zou, Luli S., Aryee, Martin, Pinello, Luca, Joung, Keith
Published 2022

Eleven grand challenges in single-cell data science

by Lähnemann, David (author), Köster, Johannes (author), Robinson, Mark D. (author), Vallejos, Catalina A. (author), Campbell, Kieran R. (author), Beerenwinkel, Niko (author), Pinello, Luca (author), Lelieveldt, B.P.F. (author), Reinders, M.J.T. (author)
Published 2020

GiniClust: detecting rare cell types from single-cell gene expression data with Gini index

by Jiang, Lan, Chen, Huidong, Pinello, Luca, Yuan, Guo-Cheng
Published 2016

Multi-scale chromatin state annotation using a hierarchical hidden Markov model

by Marco, Eugenio, Meuleman, Wouter, Huang, Jialiang, Glass, Kimberly, Pinello, Luca, Wang, Jianrong, Kellis, Manolis, Yuan, Guo-Cheng
Published 2017