Continuous genetic recording with self-targeting CRISPR-Cas in human cells

No abstract is available for this paper.

• Publication year

  2016

• Venue

  Science

• Publication date

  2016-05-20

• Fields of study

  Biology, Medicine, Engineering

• Identifiers
  DOI 10.1126/science.aag0511PMID 27540006
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage

  2016cited by this paper
• Rapidly evolving homing CRISPR barcodes

  2016cited by this paper
• Whole-organism lineage tracing by combinatorial and cumulative genome editing

  2016cited by this paper
• Programmable bacteria detect and record an environmental signal in the mammalian gut

  2014cited by this paper
• Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease

  2014cited by this paper
• Cas-OFFinder: a fast and versatile algorithm that searches for potential off-target sites of Cas9 RNA-guided endonucleases

  2014cited by this paper
• Highly Multiplexed Subcellular RNA Sequencing in Situ

  2014cited by this paper
• Genomically encoded analog memory with precise in vivo DNA writing in living cell populations

  2014cited by this paper
• Multiplexed and programmable regulation of gene networks with an integrated RNA and CRISPR/Cas toolkit in human cells.

  2014cited by this paper
• Targeted DNA Demethylation and Endogenous Gene Activation Using Programmable TALE-TET1 Fusions

  2013cited by this paper
• RNA-Guided Human Genome Engineering via Cas9

  2013cited by this paper
• Modernizing the nonhomologous end-joining repertoire: alternative and classical NHEJ share the stage.

  2013cited by this paper
• PEAR: a fast and accurate Illumina Paired-End reAd mergeR

  2013cited by this paper
• RNA-programmed genome editing in human cells

  2013cited by this paper
• Synthetic circuits integrating logic and memory in living cells

  2013cited by this paper
• Multiplex Genome Engineering Using CRISPR/Cas Systems

  2013cited by this paper
• Shifting the Paradigm: The Putative Mitochondrial Protein ABCB6 Resides in the Lysosomes of Cells and in the Plasma Membrane of Erythrocytes

  2012cited by this paper
• Tracking genome engineering outcome at individual DNA breakpoints

  2011cited by this paper
• ViennaRNA Package 2.0

  2011cited by this paper
• Speeding up the Consensus Clustering methodology for microarray data analysis

  2011cited by this paper
• PARP inhibition: PARP1 and beyond

  2010cited by this paper
• Synthetic Gene Networks That Count

  2009cited by this paper
• Inducible and reversible gene silencing by stable integration of an shRNA-encoding lentivirus in transgenic rats

  2008cited by this paper
• Development of a single-chain, quasi-dimeric zinc-finger nuclease for the selective degradation of mutated human mitochondrial DNA

  2008cited by this paper
• The tumor microenvironment and its role in promoting tumor growth

  2008cited by this paper
• Rational design of memory in eukaryotic cells.

  2007cited by this paper
• MAP kinase signalling pathways in cancer

  2007cited by this paper
• Targeting the Hedgehog pathway in cancer

  2006cited by this paper
• Genomic DNA methylation: the mark and its mediators.

  2006cited by this paper
• Acute Inflammatory Response to Endotoxin in Mice and Humans

  2005cited by this paper
• Germline Transmission and Tissue-Specific Expression of Transgenes Delivered by Lentiviral Vectors

  2002cited by this paper
• TGF-β signaling in tumor suppression and cancer progression

  2001cited by this paper
• TGF-beta signaling in tumor suppression and cancer progression.

  2001cited by this paper
• Construction of a genetic toggle switch in Escherichia coli

  2000cited by this paper
• Pathophysiologically relevant concentrations of tumor necrosis factor-alpha promote progressive left ventricular dysfunction and remodeling in rats.

  1998cited by this paper
• Mechanisms of Wnt signaling in development.

  1998cited by this paper
• Suppression of TNF-alpha-induced apoptosis by NF-kappaB.

  1996cited by this paper
• Suppression of TNF-α-Induced Apoptosis by NF-κB

  1996cited by this paper
• LPS-induced sTNF-receptor release in vivo in a murine model. Investigation of the role of tumor necrosis factor, IL-1, leukemia inhibiting factor, and IFN-gamma.

  1993cited by this paper
• Optimal sequence alignment using affine gap costs.

  1986cited by this paper
• Optimal sequence alignment using affine gap costs

  1986cited by this paper

• Microfluidic Modeling of Macrophage-Induced Cardiac Inflammation Using NF-κB Reporter Cardiomyocytes.

  2026cites this paper
• A genetically encoded device for transcriptome storage in mammalian cells.

  2026cites this paper
• Programmable RNA detection generates DNA barcodes for multiplexed phage-host interaction screening

  2026cites this paper
• Encoded cell-material interactions to reroute cytokine signaling for regenerative medicine

  2025cites this paper
• A Guide to Guides: An Overview of SpCas9 sgRNA Scaffold Variants and Modifications

  2025influential citation
• Developing a Sorting Algorithm in Bacteria

  2025cites this paper
• Engineered Living Memory Microspheroid‐Based Archival File System for Random Accessible In Vivo DNA Storage

  2025cites this paper
• Hematopoietic stem cells undergo bidirectional fate transitions in vivo

  2025cites this paper
• Multiplexed, scalable analog recording of gene regulation dynamics over weeks using intracellular protein tapes

  2025cites this paper
• The landscape of cell lineage tracing

  2025cites this paper
• Decoding maize meristems maintenance and differentiation: integrating single-cell and spatial omics.

  2025cites this paper
• Genetically encoded assembly recorder temporally resolves cellular histories in cellulo and in vivo

  2025cites this paper
• Synthetic biology-driven biosensors for healthcare applications: A roadmap toward programmable and intelligent diagnostics.

  2025cites this paper
• Using CRISPR barcoding as a molecular clock to capture dynamic processes at single-cell resolution

  2025cites this paper
• BioFuse: A programmable timer switch of gene expression

  2025cites this paper
• Diary of a cell in DNA ‘chyrons’

  2025cites this paper
• Chromatin‐associated condensates as an inspiration for the system architecture of future DNA computers

  2025cites this paper
• Programming Escherichia coli to Understand Compositional Syntax

  2025cites this paper
• Advances in CRISPR‐Cas9 in lineage tracing of model animals

  2025cites this paper
• MitoScribe single-cell molecular recorder logs graded signaling dynamics into mitochondrial DNA

  2025cites this paper
• Cell Fate Determination and Lineage Tracing: Technological Evolution and Multidimensional Applications

  2025cites this paper
• Development of an inducible DNA barcoding system to understand lineage changes in Arabidopsis regeneration.

  2024cites this paper
• Charting Single Cell Lineage Dynamics and Mutation Networks via Homing CRISPR

  2024cites this paper
• From Hematopoietic Stem Cells to Platelets: Unifying Differentiation Pathways Identified by Lineage Tracing Mouse Models

  2024cites this paper
• Hijacking and recording intracellular RNAs in human cells using eukaryotic reprogrammed tracrRNAs

  2024cites this paper
• Genetic Tools for Cell Lineage Tracing and Profiling Developmental Trajectories in the Skin.

  2024cites this paper
• Post-translational digital data encoding into the genomes of mammalian cell populations

  2024cites this paper
• A massively parallel in vivo assay of TdT mutants yields variants with altered nucleotide insertion biases

  2024cites this paper
• Symbolic recording of signalling and cis-regulatory element activity to DNA

  2024cites this paper
• A DNA circuit that records molecular events

  2024cites this paper
• Specific modulation of CRISPR transcriptional activators through RNA-sensing guide RNAs in mammalian cells and zebrafish embryos

  2024cites this paper
• Temporal recording of mammalian development and precancer

  2024cites this paper
• Toward DNA-Based Recording of Biological Processes

  2024cites this paper
• Optimizing Nucleic Acid Delivery Systems through Barcode Technology.

  2024cites this paper
• A Massively Parallel In Vivo Assay of TdT Mutants Yields Variants with Altered Nucleotide Insertion Biases.

  2024cites this paper
• The lives of cells, recorded

  2024cites this paper
• Towards programming-based synthetic genetic circuit enabled high-lysine maize

  2024cites this paper
• Hypoxia induces ROS-resistant memory upon reoxygenation in vivo promoting metastasis in part via MUC1-C

  2024cites this paper
• Advancements in prospective single-cell lineage barcoding and their applications in research

  2024cites this paper
• Reconstructing signaling history of single cells with imaging-based molecular recording

  2024cites this paper
• Cellular barcoding: From developmental tracing to anti-tumor drug discovery.

  2023cites this paper
• Progress and Prospects of Gene Editing in Pluripotent Stem Cells

  2023cites this paper
• Long-duration environmental biosensing by recording analyte detection in DNA using recombinase memory

  2023cites this paper
• Temporal recording of mammalian development and precancer

  2023cites this paper
• RNA recording in single bacterial cells using reprogrammed tracrRNAs

  2023cites this paper
• DNA Barcoding Technology for Lineage Recording and Tracing to Resolve Cell Fate Determination

  2023cites this paper
• Interaction of Macrophages with Bone Healing Microenvironment: Mechanism and Biomaterials

  2023cites this paper
• Cellular Surveillance: DNA-Based Recording to Monitor and Memorize Biological Events

  2023cites this paper
• Data Storage Using DNA

  2023cites this paper
• A temporally resolved DNA framework state machine in living cells

  2023cites this paper
• Engineering Ca2+-dependent DNA polymerase activity

  2023cites this paper
• CRISPR for neuroscientists.

  2023cites this paper
• Recording of cellular physiological histories along optically readable self-assembling protein chains

  2023cites this paper
• Cellular barcoding tracks heterogeneous clones through selective pressures and phenotypic transitions.

  2023cites this paper
• Reconstructing cell lineage trees with genomic barcoding: approaches and applications.

  2023cites this paper
• Applications of synthetic biology in medical and pharmaceutical fields

  2023cites this paper
• Modularized synthetic biology enabled intelligent biosensors.

  2023cites this paper
• Optimization of Cas9 activity through the addition of cytosine extensions to single-guide RNAs

  2023cites this paper
• Application of CRISPR Cas systems in DNA recorders and writers

  2023cites this paper
• Temporally resolved transcriptional recording in E. coli DNA using a Retro-Cascorder

  2023cites this paper
• Highly active CRISPR-adaptation proteins revealed by a robust enrichment technology

  2023cites this paper
• Frame Editors for Precise, Template-Free Frameshifting

  2022cites this paper
• Molecular recording: transcriptional data collection into the genome.

  2022cites this paper
• Startle: a star homoplasy approach for CRISPR-Cas9 lineage tracing

  2022cites this paper
• RNA-Responsive gRNAs for Controlling CRISPR Activity: Current Advances, Future Directions, and Potential Applications

  2022influential citation
• The expanding vistas of spatial transcriptomics

  2022cites this paper
• DNA barcoding and gene expression recording reveal the presence of cancer cells with unique properties during tumor progression

  2022influential citation
• Reprogramming TracrRNAs for Multiplexed RNA Detection.

  2022cites this paper
• Machine-learning-optimized Cas12a barcoding enables the recovery of single-cell lineages and transcriptional profiles.

  2022cites this paper
• Scalable Biological Signal Recording in Mammalian Cells Using Cas12a Base Editors

  2022cites this paper
• A time-resolved, multi-symbol molecular recorder via sequential genome editing

  2022cites this paper
• DNA nanotechnology-empowered finite state machines.

  2022cites this paper
• Engineered bacterial swarm patterns as spatial records of environmental inputs

  2022cites this paper
• Cancer-associated chromatin variants uncover the oncogenic role of transposable elements.

  2022cites this paper
• A New Generation of Lineage Tracing Dynamically Records Cell Fate Choices

  2022cites this paper
• Single-Cell Technologies to Decipher the Immune Microenvironment in Myeloid Neoplasms: Perspectives and Opportunities

  2022cites this paper
• The Field of Cell Competition Comes of Age: Semantics and Technological Synergy

  2022cites this paper
• Multiplexed microfluidic chip for cell co-culture

  2022influential citation
• Tethering distinct molecular profiles of single cells by their lineage histories to investigate sources of cell state heterogeneity

  2022influential citation
• Synthetic gene circuits as tools for drug discovery.

  2021cites this paper
• Reconstructing transcriptional histories by CRISPR acquisition of retron-based genetic barcodes Diversification of retron-derived transcript barcodes Mechanism of retron-derived prespacer acquisition

  2021cites this paper
• Benchmarked approaches for reconstruction of in vitro cell lineages and in silico models of C. elegans and M. musculus developmental trees.

  2021cites this paper
• Decoding and recoding plant development 5

  2021cites this paper
• Context-aware synthetic biology by controller design: Engineering the mammalian cell.

  2021cites this paper
• Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics

  2021cites this paper
• Recording gene expression order in DNA by CRISPR addition of retron barcodes

  2021cites this paper
• Lineage tracing and analog recording in mammalian cells by single-site DNA writing

  2021cites this paper
• A CRISPR Landing for Genome Rewriting at Locus-Scale

  2021cites this paper
• CRISPR Clocks: The Times They Are a-Changin’

  2021cites this paper
• Applications of high-resolution clone tracking technologies in cancer.

  2021cites this paper
• A method for characterizing Cas9 variants via a one-million target sequence library of self-targeting sgRNAs

  2021cites this paper
• Full-Spectrum Targeted Mutagenesis in Plant and Animal Cells

  2021cites this paper
• Benchmarked approaches for cell lineage reconstructions of in vitro dividing cells and in 1 silico models of Caenorhabditis elegans and Mus musculus developmental trees.

  2021cites this paper
• Recording of elapsed time and temporal information about biological events using Cas9.

  2021cites this paper
• Complex biological questions being addressed using single cell sequencing technologies.

  2021cites this paper
• Decoding and recoding plant development.

  2021cites this paper
• A temporally resolved, multiplex molecular recorder based on sequential genome editing

  2021cites this paper
• Optimizing Calcium Detection Methods in Animal Systems: A Sandbox for Synthetic Biology

  2021cites this paper
• Open-ended molecular recording of sequential cellular events into DNA

  2021cites this paper
• The CRISPR-Cas toolbox and gene editing technologies.

  2021cites this paper