Ryan Lister

Search results

• Transient and permanent reconfiguration of chromatin and transcription factor occupancy drive reprogramming. Knaupp & Buckberry et. al.

  Buckberry, S. (Creator), Knaupp, A. (Creator), Lister, R. (Creator) & Polo, J. M. (Creator), Mendeley Data, 8 Jan 2018

  DOI: 10.17632/55v99jz2yy.3, https://data.mendeley.com/datasets/55v99jz2yy

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [ChIP-seq]

  Buckberry, S. (Contributor), Liu, X. (Contributor), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/yky9-2391, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159718

  Dataset

• GSM1977638: xl_st10.5_MethylC-seq

  Bogdanovic, O. (Creator) & Lister, R. M. (Creator), Gene Expression Omnibus (NCBI), 26 Aug 2016

  http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1977638

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [ONT DNA-seq]

  Buckberry, S. (Contributor), Liu, X. (Contributor), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/tek8-as55, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE239579

  Dataset

• A modular dCas9-based recruitment platform for combinatorial epigenome editing

  Swain, T. (Creator), Pflueger, C. (Creator), Freytag, S. (Creator), Poppe, D. (Creator), Pflueger, J. (Creator), Nguyen, T. V. (Creator), Li, J. K. (Creator) & Lister, R. (Creator), The University of Western Australia, 17 Jan 2024

  DOI: 10.26182/v862-2215, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE241460

  Dataset

• Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution

  Herring, C. (Creator), Simmons, R. (Creator), Freytag, S. (Creator), Poppe, D. (Creator), Buckberry, S. (Creator), Martelotto, L. (Creator) & Lister, R. (Creator), Gene Expression Omnibus (NCBI), 31 Oct 2022

  DOI: 10.26182/68b8-jd43, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE168408

  Dataset

• Characterization of DNA methylation reader proteins of Arabidopsis thaliana

  Lloyd, J. P. B. (Creator), Lister, R. (Creator) & Cahn, J. (Creator), Zenodo, 5 Aug 2024

  DOI: 10.5281/zenodo.13218792, https://zenodo.org/records/13218792

  Dataset

• Characterization of DNA methylation reader proteins of Arabidopsis thaliana

  Lloyd, J. P. B. (Creator), Lister, R. (Creator) & Cahn, J. (Creator), Zenodo, 11 Oct 2024

  DOI: 10.5281/zenodo.13917469, https://zenodo.org/records/13917469

  Dataset

• CRISPRi-based circuits for genetic computation in plants

  Khan, M. A. (Creator), Herring, G. (Creator), Oliva, M. (Creator), Fourie, E. (Creator), Zhu, J. Y. (Creator), Johnston, B. (Creator), Potter, J. (Creator), Pflüger, J. (Creator), Swain, T. (Creator), Pflüger, C. (Creator), Lloyd, J. (Creator), Secco, D. (Creator), Small, I. (Creator), Kidd, B. (Creator) & Lister, R. (Creator), Zenodo, 30 Jun 2022

  DOI: 10.5281/zenodo.6935407, https://zenodo.org/record/6935407

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [WGBS 2]

  Buckberry, S. (Contributor), Liu, X. (Creator), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/7cp0-4049, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE160933

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [WGBS]

  Buckberry, S. (Contributor), Liu, X. (Contributor), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/3d4a-2129, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159296

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [ATAC-seq]

  Buckberry, S. (Contributor), Liu, X. (Contributor), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/0pkj-m839, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE178779

  Dataset

• Evolution of CpH methylation in vertebrate brains

  de Mendoza Soler, A. (Creator), Bogdanovic, O. (Creator), Lister, R. (Creator) & Poppe, D. (Creator), Gene Expression Omnibus (NCBI), 26 Oct 2020

  DOI: 10.26182/r3aq-ka95, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE141609

  Dataset

• Characterization of DNA methylation reader proteins of Arabidopsis thaliana

  Lloyd, J. P. B. (Creator), Lister, R. (Creator) & Cahn, J. (Creator), Zenodo, 18 Mar 2024

  DOI: 10.5281/zenodo.10828674, https://zenodo.org10828674

  Dataset

• Characterization of DNA methylation reader proteins of Arabidopsis thaliana

  Lloyd, J. P. B. (Creator), Lister, R. (Creator) & Cahn, J. (Creator), Zenodo, 17 Oct 2024

  DOI: 10.5281/zenodo.13943006, https://zenodo.org/records/13943006

  Dataset

• Comprehensive Evaluation of Human Brain Gene Expression Deconvolution Methods

  Sutton, G. J. (Creator), Poppe, D. (Creator), Simmons, R. (Creator), Nawaz, U. (Creator), Lister, R. (Creator), Gagnon-Bartsch, J. A. (Creator) & Voineagu, I. (Creator), Gene Expression Omnibus (NCBI), 28 Aug 2021

  DOI: 10.26182/2p1z-rx18, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE175772

  Dataset

• CRISPRi-based circuits to control gene expression in plants

  Khan, M. A. (Creator), Herring, G. (Creator), Zhu, J. Y. (Creator), Oliva, M. (Creator), Fourie, E. (Creator), Johnston, B. (Creator), Zhang, Z. (Creator), Potter, J. (Creator), Pineda, L. (Creator), Pflueger, J. (Creator), Swain, T. (Creator), Pflueger, C. (Creator), Lloyd, J. (Creator), Secco, D. (Creator), Small, I. (Creator), Kidd, B. (Creator) & Lister, R. (Creator), Zenodo, 3 May 2024

  DOI: 10.5281/zenodo.11108565, https://zenodo.org/records/11108565

  Dataset

• Single Nucleus RNA Sequencing of Pre-Malignant Liver Reveals Disease-Associated Hepatocyte State with HCC Prognostic Potential

  Carlessi, R. (Creator), Denisenko, E. (Creator), Boslem, E. (Creator), Köhn-Gaone, J. (Creator), Main, N. (Creator), Abu Bakar, N. D. B. (Creator), Shirolkar, G. (Creator), Jones, M. (Creator), Poppe, D. (Contributor), Dwyer, B. J. (Creator), Jackaman, C. (Creator), Tjiam, C. (Creator), Lister, R. (Creator), Karin, M. (Creator), Fallowfield, J. A. (Creator), Kendall, T. J. (Creator), Forbes, S. J. (Creator), Olynyk, J. K. (Creator), Yeoh, G. (Creator), Forrest, A. (Creator), Ramm, G. (Creator), Febbraio, M. A. (Creator) & Tirnitz-Parker, N. (Creator), Gene Expression Omnibus (NCBI), 12 Apr 2022

  DOI: 10.26182/bhy9-q334, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE200366

  Dataset

• Transient naive reprogramming corrects hiPS cells functionally and epigenetically [RNA-Seq]

  Buckberry, S. (Contributor), Liu, X. (Contributor), Poppe, D. (Contributor), Tan, J. P. (Contributor), Polo, J. M. (Contributor) & Lister, R. (Contributor), Gene Expression Omnibus (NCBI), 11 Aug 2023

  DOI: 10.26182/ans0-y578, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159114

  Dataset

• Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows

  Denisenko, E. (Creator), Guo, B. (Creator), Jones, M. (Creator), Hou, R. (Creator), De Kock, L. (Creator), Lassmann, T. (Creator), Poppe, D. (Contributor), Clement, O. (Creator), Simmons, R. (Creator), Lister, R. (Creator) & Forrest, A. (Creator), Gene Expression Omnibus (NCBI), 11 May 2020

  DOI: 10.26182/ybd2-6755, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE141115

  Dataset

• Data from: Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation

  Stuart, T. (Creator), Eichten, S. R. (Contributor), Cahn, J. (Contributor), Karpievitch, Y. (Contributor), Borevitz, J. (Contributor), Lister, R. (Contributor), Eichten, S. R. (Contributor), Borevitz, J. O. (Contributor) & Karpievitch, Y. (Contributor), DRYAD, 1 Jan 2017

  DOI: 10.5061/dryad.187b3, http://datadryad.org/stash/dataset/doi:10.5061/dryad.187b3

  Dataset

• Data from: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements

  Secco, D. (Creator), Wang, C. (Creator), Shou, H. (Creator), Schultz, M. D. (Creator), Chiarenza, S. (Creator), Nussaume, L. (Creator), Ecker, J. R. (Creator), Whelan, J. M. (Creator) & Lister, R. M. (Creator), DRYAD, 6 Aug 2015

  DOI: 10.5061/dryad.40gd6, https://datadryad.org/resource/doi:10.5061/dryad.40gd6

  Dataset

• Characterization of DNA methylation reader proteins of Arabidopsis thaliana

  Lloyd, J. P. B. (Creator), Lister, R. (Creator) & Cahn, J. (Creator), Zenodo, 21 Oct 2024

  DOI: 10.5281/zenodo.13958898, https://zenodo.org/records/13958898

  Dataset

• Additional file 2 of Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability

  de Mendoza Soler, A. (Creator), Nguyen, T. V. (Creator), Ford, E. (Creator), Poppe, D. (Creator), Buckberry, S. (Creator), Pflueger, J. (Creator), Grimmer, M. R. (Creator), Stolzenburg, S. (Creator), Bogdanovic, O. (Creator), Oshlack, A. (Creator), Farnham, P. J. (Creator), Blancafort, P. (Creator) & Lister, R. (Creator), Figshare, 2022

  DOI: 10.6084/m9.figshare.20381820.v1, https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Large-scale_manipulation_of_promoter_DNA_methylation_reveals_context-specific_transcriptional_responses_and_stability/20381820/1

  Dataset

• Additional file 2 of Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability

  de Mendoza Soler, A. (Creator), Nguyen, T. V. (Creator), Ford, E. (Creator), Poppe, D. (Creator), Buckberry, S. (Creator), Pflueger, J. (Creator), Grimmer, M. R. (Creator), Stolzenburg, S. (Creator), Bogdanovic, O. (Creator), Oshlack, A. (Creator), Farnham, P. J. (Creator), Blancafort, P. (Creator) & Lister, R. (Creator), Figshare, 2022

  DOI: 10.6084/m9.figshare.20381820, https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Large-scale_manipulation_of_promoter_DNA_methylation_reveals_context-specific_transcriptional_responses_and_stability/20381820

  Dataset