Topic 196

living fluorescence synthetic functions enables molecule engineered dna modified rna applications probe hybridization probes lines demonstrate minimal cognate fluorophores chemical coli biochemical biochemistry situ binding biological library specificity characterization inside roles pest protocol cell purification substrate based developed rnas targets crucial their nucleic useful system interactions adherent membrane heterologous commercially organisms screening manipulation unnatural nanotechnology pesticides suspension junction biology vitro circrnas any hek293 overcoming brightness approach live systems combination simultaneously original methodologies electroporation substrates encoding degradation fluorophore exogenous cellular biosynthetic full ultrashort preventing puwl201 puc19 pij101 pem4 cells bacteria selective challenge rationally enable insecticides identification importantly natural performing successfully resource

31 items. Top items listed below.

A sample preparation protocol for high throughput immunofluorescence of suspension cells 196 18 4

Stealth fluorescence labeling for live microscopy imaging of mRNA delivery 196 18 8 7

Enzymatic RNA Biotinylation for Affinity Purification and Identification of RNA-protein Interactions 196 151 45 8 3

Environmental RNA interference in two-spotted spider mite, Tetranychus urticae, reveals dsRNA processing requirements for efficient RNAi response 196 159 16 9

Photobleaching step analysis for robust determination of protein complex stoichiometries 196 18 4

Radiolabeled Bacterial Metallophores as Targeted PET Imaging Contrast Agents for Accurate Identification of Bacteria and Outer Membrane Vesicles in vivo 196 18 12

Production and Purification of Endogenously Modified tRNA-Derived Small RNAs 196 49

Rational design and implementation of a chemically inducible hetero-trimerization system 196 8

Overcoming efflux of fluorescent probes for actin imaging in living cells 196 18 8

Cell-free synthesis of natural compounds from genomic DNA of biosynthetic gene clusters 196 129 67 18 8

Compartmentalization of enhanced biomolecular interactions for high-throughput drug screening in test tubes 196 8

Engineered unnatural ubiquitin for optimal detection of deubiquitinating enzymes 196 129 63 8

Fluorescence-free quantification of protein/nucleic-acid binding through single-molecule kinetic locking 196 8

An antiviral self-replicating molecular heterotroph 196 41 18 3

Screening for functional circular RNAs using the CRISPR-Cas13 system 196 49 33 3

Gene knockdown via electroporation of short hairpin RNAs in embryos of the marine hydroid Hydractinia symbiolongicarpus 196 118 33

Live cell PNA labelling enables erasable fluorescence imaging of membrane proteins 196 18 8

Evolution from adherent to suspension - systems biology of HEK293 cell line development 196 9

Exceptional biostability of paranemic crossover (PX) DNA, crossover-dependent nuclease resistance, and implications for DNA nanotechnology 196 85 18

Clinically adaptable polymer enables simultaneous spatial analysis of colonic tissues and biofilms 196 18

Combined Proteomic and Genetic Interaction Mapping Reveals New RAS Effector Pathways and Susceptibilities 196 142 45 14 9 3

Production of moth sex pheromones for pest control by yeast fermentation 196 67 12

A novel SHAPE reagent enables the analysis of RNA structure in living cells with unprecedented accuracy 196 18 4

Pharmaceutical-grade Rigosertib is a Microtubule-destabilizing Agent 196 3

Tough Hydrogel-Based Biocontainment of Engineered Organisms for Continuous, Self-Powered Sensing and Computation 196 18

A universal chromosome identification system for maize and wild Zea species 196 40 5

Cryptic, solo acylhomoserine lactone synthase from predatory myxobacterium suggests beneficial contribution to prey quorum signaling 196 12 5

IRESbase: a Comprehensive Database of Experimentally Validated Internal Ribosome Entry Sites 196 49

Isolation and Molecular Characterization of Pesticide Degrading Bacteria in Polluted Soil 196 115 12

Type III-A CRISPR systems as a versatile gene knockdown technology 33 9

Diagnostic of begomoviruses in complex infections -a case study 196 121 41 12

A multiplexed, automated evolution pipeline enablesscalable discovery and characterization of biosensors 18 4

Transcriptional kinetic synergy: a complex landscape revealed by integrating modelling and synthetic biology 31 8

Spatial analysis of ligand-receptor interactions in skin cancer at genome-wide and single-cell resolution 43 9 4

Raman spectroscopy-based measurements of single-cell phenotypic diversity in microbial communities 158 38 18 17 5

Determining the domain-level reaction-diffusion properties of cellular proteins by incorporating genetic engineering to FRAP-based framework 8

Analysis of Metabolic Network Disruption in Engineered Microbial Hosts due to Enzyme Promiscuity 67 38 33 12

Bacterial single-cell genomics enables phylogenetic analysis and reveals population structures from in vitro evolutionary studies 107 52 12 9 5 4

Substrate specificity profiling of SARS-CoV-2 main protease enables design of activity-based probes for patient-sample imaging 44 1

Next-generation sequencing of pIJ101-based Streptomyces-E. coli shuttle vectors 196 115

A viral guide RNA delivery system for CRISPR-based transcriptional activation and heritable targeted DNA demethylation in Arabidopsis thaliana 33 16

Protein manipulation using single copies of short peptide tags in cultured cells and in Drosophila melanogaster 18

PQS-Induced Outer Membrane Vesicles Enhance Biofilm Dispersion in Pseudomonas aeruginosa 52 12 10 3

Establishing live-cell single-molecule localization microscopy imaging and single-particle tracking in the archaeon Haloferax volcanii 18 8

Design of optical imaging probes by screening of diverse substrate libraries directly in disease tissue extracts 129 18 14 4

A novel single-cell based method for breast cancer prognosis 43 26 4

Single-molecule light-sheet microscopy with local nanopipette delivery 70 18 8

Orthogonal fluorescent chemogenetic reporters for multicolor imaging 18 8

Resources for genome editing in livestock: Cas9-expressing chickens and pigs 33 9

Stoichiometric Analysis of Protein Complexes by Cell Fusion and Single Molecule Imaging 18 8 4

Dynamics of chromosomal target search by a membrane-integrated one-component receptor 127 8 3

CEN-tools: An integrative platform to identify the contexts of essential genes 139 112 9 4 3

A new method for distinguishing human and mouse cells in situ 18 4

Identification of ubiquitin Ser57 kinases regulating the oxidative stress response in yeast 102 34 3

Targeted Genome Editing of Bacteria Within Microbial Communities 33 29 12 5

Detecting nanoscale distribution of protein pairs by proximity dependent super-resolution microscopy 70 18 8 4

CBRPP: a new RNA-centric method to study RNA-protein interactions 151 45 33 3

The landscape of metabolic pathway dependencies in cancer cell lines 186 9 3

Cell-specific and targeted delivery of RNA moieties 153 10 3

Transcriptome-guided parsimonious flux analysis improves predictions with metabolic networks in complex environments 158 112 4

HippoUnit: A software tool for the automated testing and systematic comparison of detailed models of hippocampal neurons based on electrophysiological data 62 4 2

Predicting global dynamics of spatial microbial communities from local interaction rules 158 99 38 17 5

smiFISH and embryo segmentation for single-cell multi-gene RNA quantification in arthropods 70 18 9 4

Functional and structural basis of extreme non-coding conservation in vertebrate mRNAs 134 49 31 9 3

A refined set of rRNA-targeted oligonucleotide probes for in situ detection and quantification of ammonia-oxidizing bacteria 29 12 4

A synthetic biochemical device for sensing microgravity 18

Deep Learning Classification of Lipid Droplets in Quantitative Phase Images 26 18 4

Optimized iLID membrane anchors for local optogenetic protein recruitment 18 8

A recombineering pipeline to clone large and complex genes in Chlamydomonas 33 4

A Lysate Proteome Engineering Strategy for Enhancing Cell-Free Metabolite Production 67 18

Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis 43 9 4

Defining a critical enhancer near Nanog using chromatin-focused approaches identifies RNA Pol II recruitment as required for expression 31 9

Identification of an antiretroviral small molecule that appears to be a host-targeting inhibitor of HIV-1 assembly 41 12 10 3

De Novo Lipid Labeling for Comprehensive Analysis of Subcellular Distribution and Trafficking in Live Cells 18

A high-throughput CRISPR interference screen for dissecting functional regulators of GPCR/cAMP signaling 33 9 3

Imaging and tracking mRNA in live mammalian cells via fluorogenic photoaffinity labeling 18 8

Electric-field-driven microfluidics for rapid CRISPR-based diagnostics and its application to detection of SARS-CoV-2 35 18 4 1

A versatile reporter system to monitor virus infected cells and its application to dengue virus and SARS-CoV-2 41 1

Non-Langmuir kinetics of DNA surface hybridization 18 8 4

An acoustic platform for single-cell, high-throughput measurements of the viscoelastic properties of cells 18 8

Sequencing ultra-rare targets with compound nucleic acid cytometry 4

Modular cell-free expression plasmids to accelerate biological design in cells 33 18 4

RNA-protein interaction mapping via MS2 or Cas13-based APEX targeting 151 33

Constructing Gene Regulatory Networks using Epigenetic Data 134 31 9 4

Efficient Development of Platform Cell Lines Using CRISPR-Cas9 and Transcriptomics Analysis 33 9

Novel rRNA-depletion methods for total RNA sequencing and ribosome profiling developed for avian species 125 49 4

Method for identification of heme-binding proteins and quantification of their interactions 7 4

Multiplex single-molecule kinetics of nanopore-coupled polymerases 33 18 4

iDePP: a genetically encoded system for the inducible depletion of PI(4,5)P2 in Arabidopsis thaliana. 16 3

Representing Organic Matter Thermodynamics in Biogeochemical Reactions via Substrate-Explicit Modeling 38 4

Assessment of autism zebrafish mutant models using a high-throughput larval phenotyping platform 65 33 4

Single-cell characterization of the eukaryotic transcription cycle using live imaging and statistical inference 18 4

Immunocapture of dsRNA-bound proteins provides insight into tobacco rattle virus replication complexes and reveals Arabidopsis DRB2 to be a wide-spectrum antiviral effector 41 16 12

The RNase J-based RNA degradosome is compartmentalized in the gastric pathogen Helicobacter pylori 49 34 3

Massive-scale biological activity-based modeling identifies novel antiviral leads against SARS-CoV-2 44 1

In vivo characterisation of endogenous cardiovascular extracellular vesicles in larval and adult zebrafish 18

Programmable gene regulation for metabolic engineering using decoy transcription factor binding sites 33 12

Identification of key tissue-specific, biological processes by integrating enhancer information in maize gene regulatory networks 134 7

Single cell transfection of human induced pluripotent stem cells using a droplet-based microfluidic system. 57 18 4

Quantitative microbiome profiling in lumenal and tissue samples with broad coverage and dynamic range via a single-step 16S rRNA gene DNA copy quantification and amplicon barcoding 125 29 4