HuBMAP (17)
Publication TitleAuthorsJournalPublication DatePage NoPubMedID
A pooled single-cell genetic screen identifies regulatory checkpoints in the continuum of the epithelial-to-mesenchymal transition.McFaline-Figueroa, José L; Hill, Andrew J; Qiu, Xiaojie; Jackson, Dana; Shendure, Jay; Trapnell, ColeNature genetics.2019 Sep;31477929
Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues.Saka, Sinem K; Wang, Yu; Kishi, Jocelyn Y; Zhu, Allen; Zeng, Yitian; Xie, Wenxin; Kirli, Koray; Yapp, Clarence; Cicconet, Marcelo; Beliveau, Brian J; Lapan, Sylvain W; Yin, Siyuan; Lin, Millicent; Boyden, Edward S; Kaeser, Pascal S; Pihan, German; Church, George M; Yin, PengNature biotechnology.2019 Sep;31427819
Comprehensive Integration of Single-Cell Data.Stuart, Tim; Butler, Andrew; Hoffman, Paul; Hafemeister, Christoph; Papalexi, Efthymia; Mauck 3rd, William M; Hao, Yuhan; Stoeckius, Marlon; Smibert, Peter; Satija, RahulCell.2019 Jun 13;31178118
SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues.Kishi, Jocelyn Y; Lapan, Sylvain W; Beliveau, Brian J; West, Emma R; Zhu, Allen; Sasaki, Hiroshi M; Saka, Sinem K; Wang, Yu; Cepko, Constance L; Yin, PengNature methods.2019 Jun;31110282
Continuous State HMMs for Modeling Time Series Single Cell RNA-Seq Data.Lin, Chieh; Bar-Joseph, ZivBioinformatics (Oxford, England).2019 Apr 30;31038684
The 2019 mathematical oncology roadmap.Rockne, Russell C; Hawkins-Daarud, Andrea; Swanson, Kristin R; Sluka, James P; Glazier, James A; Macklin, Paul; Hormuth, David A; Jarrett, Angela M; Lima, Ernesto A B F; Tinsley Oden, J; Biros, George; Yankeelov, Thomas E; Curtius, Kit; Al Bakir, Ibrahim; Wodarz, Dominik; Komarova, Natalia; Aparicio, Luis; Bordyuh, Mykola; Rabadan, Raul; Finley, Stacey D; Enderling, Heiko; Caudell, Jimmy; Moros, Eduardo G; Anderson, Alexander R A; Gatenby, Robert A; Kaznatcheev, Artem; Jeavons, Peter; Krishnan, Nikhil; Pelesko, Julia; Wadhwa, Raoul R; Yoon, Nara; Nichol, Daniel; Marusyk, Andriy; Hinczewski, Michael; Scott, Jacob GPhysical biology.2019 Jun 19;30991381
Imaging mass spectrometry enables molecular profiling of mouse and human pancreatic tissue.Prentice, Boone M; Hart, Nathaniel J; Phillips, Neil; Haliyur, Rachana; Judd, Audra; Armandala, Radhika; Spraggins, Jeffrey M; Lowe, Cindy L; Boyd, Kelli L; Stein, Roland W; Wright, Christopher V; Norris, Jeremy L; Powers, Alvin C; Brissova, Marcela; Caprioli, Richard MDiabetologia.2019 06;30955045
Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH.Eng, Chee-Huat Linus; Lawson, Michael; Zhu, Qian; Dries, Ruben; Koulena, Noushin; Takei, Yodai; Yun, Jina; Cronin, Christopher; Karp, Christoph; Yuan, Guo-Cheng; Cai, LongNature.2019 Apr;30911168
Multiple TOF/TOF Events in a Single Laser Shot for Multiplexed Lipid Identifications in MALDI Imaging Mass Spectrometry.Prentice, Boone M; McMillen, Josiah C; Caprioli, Richard MInternational journal of mass spectrometry.2019 Mar;30906202
Cell lineage inference from SNP and scRNA-Seq data.Ding, Jun; Lin, Chieh; Bar-Joseph, ZivNucleic acids research.2019 Jun 04;30820578
The single-cell transcriptional landscape of mammalian organogenesis.Cao, Junyue; Spielmann, Malte; Qiu, Xiaojie; Huang, Xingfan; Ibrahim, Daniel M; Hill, Andrew J; Zhang, Fan; Mundlos, Stefan; Christiansen, Lena; Steemers, Frank J; Trapnell, Cole; Shendure, JayNature.2019 02;30787437
Dhaka: Variational Autoencoder for Unmasking Tumor Heterogeneity from Single Cell Genomic Data.Rashid, Sabrina; Shah, Sohrab; Bar-Joseph, Ziv; Pandya, RaviBioinformatics (Oxford, England).2019 Feb 15;30768159
Data visualization literacy: Definitions, conceptual frameworks, exercises, and assessments.Börner, Katy; Bueckle, Andreas; Ginda, MichaelProceedings of the National Academy of Sciences of the United States of America.2019 Feb 05;30718386
Cell Hashing with barcoded antibodies enables multiplexing and doublet detection for single cell genomics.Stoeckius, Marlon; Zheng, Shiwei; Houck-Loomis, Brian; Hao, Stephanie; Yeung, Bertrand Z; Mauck 3rd, William M; Smibert, Peter; Satija, RahulGenome biology.2018 12 19;30567574
Forecasting innovations in science, technology, and education.Börner, Katy; Rouse, William B; Trunfio, Paul; Stanley, H EugeneProceedings of the National Academy of Sciences of the United States of America.2018 12 11;30530683
Protein identification strategies in MALDI imaging mass spectrometry: a brief review.Ryan, Daniel J; Spraggins, Jeffrey M; Caprioli, Richard MCurrent opinion in chemical biology.2019 02;30476689
Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data.Zhu, Qian; Shah, Sheel; Dries, Ruben; Cai, Long; Yuan, Guo-ChengNature biotechnology.2018 Oct 29;30371680