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Multiplexed Spliced-Leader Sequencing: A high-throughput, selective method for RNA-seq in Trypanosomatids.
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An inverse small molecule screen to design a chemically defined medium supporting long-term growth of Drosophila cell lines.
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Comparison of six methods for Loa loa genomic DNA extraction.
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Optimization of a feed medium for fed-batch culture of insect cells using a genetic algorithm
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Optimization of a fermentation medium using neural networks and genetic algorithms
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Measures of synteny conservation between species pairs.
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Mixing genome annotation methods in a comparative analysis inflates the apparent number of lineage-specific genes.
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Minimally-overlapping words for sequence similarity search.
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Comprehensive determination of transcription start sites derived from all RNA polymerases using ReCappable-seq.
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Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes.
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capCLIP: a new tool to probe translational control in human cells through capture and identification of the eIF4E-mRNA interactome.
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Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
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Accurate genomic variant detection in single cells with primary template-directed amplification.
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The use of melting curves as a novel approach for validation of real-time PCR instruments.
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Simple and efficient measurement of transcription initiation and transcript levels with STRIPE-seq
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The eukaryotic translation initiation factor eIF4E elevates steady-state m7G capping of coding and noncoding transcripts.
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Conformation of sister chromatids in the replicated human genome.
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Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes.
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ZipSeq: barcoding for real-time mapping of single cell transcriptomes.
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Primer Extension Enrichment Reaction (PEER): A New Subtraction Method for Identification of Genetic Differences Between Biological Specimens
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An open-source drug discovery platform enables ultra-large virtual screens.
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Massively multiplexed nucleic acid detection with Cas13.
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Unbiased screen of RNA tailing activities reveals a poly(UG) polymerase.
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MAPCap allows high-resolution detection and differential expression analysis of transcription start sites.
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Long-range single-molecule mapping of chromatin accessibility in eukaryotes.
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RNA sequencing by direct tagmentation of RNA/DNA hybrids.
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5' RACE by tailing a general template-switching oligonucleotide.
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Reverse transcriptase template switching: a SMART approach for full-length cDNA library construction.
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Novel approach reveals genomic landscapes of single-strand DNA breaks with nucleotide resolution in human cells.
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Tn5 transposase and tagmentation procedures for massively scaled sequencing projects.
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FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples.
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Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing
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Integrating Hi-C links with assembly graphs for chromosome-scale assembly
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Acoustic reporter genes for noninvasive imaging of microorganisms in mammalian hosts.
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Using data-compressors for statistical analysis of problems on homogeneity testing and classification
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Inferring whole-genome histories in large population datasets.
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Highly efficient single-stranded DNA ligation technique improves low-input whole-genome bisulfite sequencing by post-bisulfite adaptor tagging.
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Assembly of Long Error-Prone Reads Using Repeat Graphs
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Cloning of the human cDNA for the U1 RNA-associated 70K protein.
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Purifying mRNAs with a high-affinity eIF4E mutant identifies the short 3' poly(A) end phenotype.
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RNA captor: a tool for RNA characterization.
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Detection of splice isoforms and rare intermediates using multiplexed primer extension sequencing.
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Ragout-a reference-assisted assembly tool for bacterial genomes.
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Chromosome assembly of large and complex genomes using multiple references.
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NanoPARE: parallel analysis of RNA 5' ends from low-input RNA.
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Variation graph toolkit improves read mapping by representing genetic variation in the reference.
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Rolling circle amplification shows a sinusoidal template length-dependent amplification bias.
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Preparation of megabase-sized DNA from a variety of organisms using the nuclei method for advanced genomics research.
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Self-biotinylation of DNA G-quadruplexes via intrinsic peroxidase activity.
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Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler
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Targeted chromatin ligation, a robust epigenetic profiling technique for small cell numbers.
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TruePrime is a novel method for whole-genome amplification from single cells based on TthPrimPol.
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Chromosome-scale shotgun assembly using an in vitro method for long-range linkage.
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An improved PCR method for walking in uncloned genomic DNA.
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Highly efficient subtractive hybridization of cDNA
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High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing
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Unamplified cap analysis of gene expression on a single-molecule sequencer.
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Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy.
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Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging.
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C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2.
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Discovery of proteins associated with a predefined genomic locus via dCas9-APEX-mediated proximity labeling.
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Multiplexed precision genome editing with trackable genomic barcodes in yeast.
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Genome-scale engineering of Saccharomyces cerevisiae with single-nucleotide precision.
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STRT-seq-2i: dual-index 5' single cell and nucleus RNA-seq on an addressable microwell array.
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Single-cell whole-genome analyses by Linear Amplification via Transposon Insertion (LIANTI).
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A new method to prevent carry-over contaminations in two-step PCR NGS library preparations.
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Current techniques for single-cell lysis.
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CRISPR-Cas12a target binding unleashes indiscriminate single-stranded DNase activity.
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Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq.
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Targeted reduction of highly abundant transcripts using pseudo-random primers.
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Single-cell full-length total RNA sequencing uncovers dynamics of recursive splicing and enhancer RNAs.
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Cell-type specific sequencing of microRNAs from complex animal tissues.
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Capture and Amplification by Tailing and Switching (CATS). An ultrasensitive ligation-independent method for generation of DNA libraries for deep sequencing from picogram amounts of DNA and RNA.
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Improvements of rolling circle amplification (RCA) efficiency and accuracy using Thermus thermophilus SSB mutant protein.
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Multi-targeted priming for genome-wide gene expression assays.
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Distinct populations of primary and secondary effectors during RNAi in C. elegans.
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Self-similarity of complex networks.
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Optimizing T4 DNA polymerase conditions enhances the efficiency of one-step sequence- and ligation-independent cloning.
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Poly(A)-ClickSeq: click-chemistry for next-generation 3΄-end sequencing without RNA enrichment or fragmentation.
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T4 RNA Ligase 2 truncated active site mutants: improved tools for RNA analysis
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Linear mRNA amplification from as little as 5 ng total RNA for global gene expression analysis.
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RNA amplification strategies for small sample populations.
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Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides.
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Construction and characterization of a full length-enriched and a 5'-end-enriched cDNA library.
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Synthesis of full-length cDNA using DNA-capped mRNA.
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Improved full-length cDNA production based on RNA tagging by T4 DNA ligase.
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Identification and prevention of a GC content bias in SAGE libraries.
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A code for transcription initiation in mammalian genomes.
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The use of ammonium acetate in the precipitation of ribonucleic acid.
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Ethanol precipitation of DNA with linear polyacrylamide as carrier.
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Hexamine cobalt chloride promotes intermolecular ligation of blunt end DNA fragments by T4 DNA ligase.
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Protection of megabase DNA from shearing.
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Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D.
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Increasing the efficiency of SAGE adaptor ligation by directed ligation chemistry.
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Unambiguous identification of miRNA:target site interactions by different types of ligation reactions.
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A genetically encoded tag for correlated light and electron microscopy of intact cells, tissues, and organisms.
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ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells.
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CRISPR-Cas encoding of a digital movie into the genomes of a population of living bacteria.
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NicE-seq: high resolution open chromatin profiling.
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Nm-seq maps 2'-O-methylation sites in human mRNA with base precision.
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Optimized flow cytometric analysis of central nervous system tissue reveals novel functional relationships among cells expressing CD133, CD15, and CD24.
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DNase I behaves as a transcription factor which modulates Fas expression in human cells.
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Cell fixation and preservation for droplet-based single-cell transcriptomics.
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De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly.
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Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos.
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Short structured RNAs with low GC content are selectively lost during extraction from a small number of cells.
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Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing.
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Droplet barcoding for massively parallel single-molecule deep sequencing.
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A cost effective 5' selective single cell transcriptome profiling approach with improved UMI design.
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NaOH concentration and streptavidin bead type are key factors for optimal DNA aptamer strand separation and isolation.
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Locked nucleic acid pentamers as universal PCR primers for genomic DNA amplification.
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Selective single cell isolation for genomics using microraft arrays.
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Disruption of promoter memory by synthesis of a long noncoding RNA.
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UMI-4C for quantitative and targeted chromosomal contact profiling.
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Nanoscale imaging of RNA with expansion microscopy.
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Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis.
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The next generation of target capture technologies - large DNA fragment enrichment and sequencing determines regional genomic variation of high complexity.
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Biochemical identification of A-to-I RNA editing sites by the inosine chemical erasing (ICE) method.
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The paraffin-embedded RNA metric (PERM) for RNA isolated from formalin-fixed, paraffin-embedded tissue.
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RNA-Seq following PCR-based sorting reveals rare cell transcriptional signatures.
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DNA detection using recombination proteins.
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Bioanalyzer chips can be used interchangeably for many analyses of DNA or RNA.
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cual-id: Globally Unique, Correctable, and Human-Friendly Sample Identifiers for Comparative Omics Studies
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Sizing femtogram amounts of dsDNA by single-molecule counting.
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Novel 5'/3'RACE Method for Amplification and Determination of Single-Stranded RNAs Through Double-Stranded RNA (dsRNA) Intermediates.
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Fixed single-cell transcriptomic characterization of human radial glial diversity.
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Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
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Combinatorial control of Drosophila circular RNA expression by intronic repeats, hnRNPs, and SR proteins.
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Application of an RNA amplification method for reliable single-cell transcriptome analysis.
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FDF-PAGE: a powerful technique revealing previously undetected small RNAs sequestered by complementary transcripts.
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Efficient and quantitative high-throughput tRNA sequencing.
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Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments.
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NanoCAGE-XL and CapFilter: an approach to genome wide identification of high confidence transcription start sites.
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Re-use of commercial microfluidics chips for DNA, RNA, and protein electrophoresis.
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Assessing the detection of human papillomavirus late mRNA in liquid base cytology samples for risk stratification of cervical disease.
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Assessing technical performance in differential gene expression experiments with external spike-in RNA control ratio mixtures.
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Quantitative transcriptomics using designed primer-based amplification.
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CAP+ selection: A combined chemical-enzymatic strategy for efficient eukaryotic mRNA enrichment via the 5' cap.
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Conditions for the selective synthesis of DNA complementary to template RNA.
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Single Cell Transcriptome Amplification with MALBAC.
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Assessing the prevalence of mycoplasma contamination in cell culture via a survey of NCBI's RNA-seq archive.
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Genetic variation of human papillomavirus type 16 in individual clinical specimens revealed by deep sequencing.
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Digital encoding of cellular mRNAs enabling precise and absolute gene expression measurement by single-molecule counting.
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Sensitive, multiplex and direct quantification of RNA sequences using a modified RASL assay.
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Four methods of preparing mRNA 5' end libraries using the illumina sequencing platform.
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Second-strand cDNA synthesis with E. coli DNA polymerase I and RNase H: the fate of information at the mRNA 5' terminus and the effect of E. coli DNA ligase.
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Molecular indexing enables quantitative targeted RNA sequencing and reveals poor efficiencies in standard library preparations.
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Targeted sequencing for gene discovery and quantification using RNA CaptureSeq.
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U1 snRNP determines mRNA length and regulates isoform expression.
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Population-specific expression analysis (PSEA) reveals molecular changes in diseased brain.
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High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing.
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Base Preferences in Non-Templated Nucleotide Incorporation by MMLV-Derived Reverse Transcriptases.
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Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells.
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Non-biased and efficient global amplification of a single-cell cDNA library.
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Amine-modified random primers to label probes for DNA microarrays.
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Multiplatform single-sample estimates of transcriptional activation.
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Quantitative assessment of single-cell RNA-sequencing methods.
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Inferring tumour purity and stromal and immune cell admixture from expression data.
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PicoGreen quantitation of DNA: effective evaluation of samples pre- or post-PCR.
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Production of single-stranded DNAs by self-cleavage of rolling-circle amplification products.
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Single-cell Hi-C reveals cell-to-cell variability in chromosome structure.
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Smart-seq2 for sensitive full-length transcriptome profiling in single cells.
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Thermostable group II intron reverse transcriptase fusion proteins and their use in cDNA synthesis and next-generation RNA sequencing.
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CapSeq and CIP-TAP identify Pol II start sites and reveal capped small RNAs as C. elegans piRNA precursors.
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Suspended microfluidics.
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Target inference from collections of genomic intervals.
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Isolation and solubilization of proteins after TRIzol extraction of RNA and DNA from patient material following prolonged storage.
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viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia.
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Methods for qPCR gene expression profiling applied to 1440 lymphoblastoid single cells.
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Generation of high-affinity DNA aptamers using an expanded genetic alphabet.
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Population context determines cell-to-cell variability in endocytosis and virus infection.
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Barcoding cells using cell-surface programmable DNA-binding domains.
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Decombinator: a tool for fast, efficient gene assignment in T-cell receptor sequences using a finite state machine.
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Protein instability following transport or storage on dry ice.
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Precise maps of RNA polymerase reveal how promoters direct initiation and pausing.
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cDNA normalization by hydroxyapatite chromatography to enrich transcriptome diversity in RNA-seq applications.
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Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation.
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Shaping acoustic fields as a toolset for microfluidic manipulations in diagnostic technologies.
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Direct multiplexed measurement of gene expression with color-coded probe pairs.
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Counting absolute numbers of molecules using unique molecular identifiers.
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Digital RNA sequencing minimizes sequence-dependent bias and amplification noise with optimized single-molecule barcodes.
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Improved quantitative real-time RT-PCR for expression profiling of individual cells.
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PCR inhibition by reverse transcriptase leads to an overestimation of amplification efficiency.
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The proteomes of transcription factories containing RNA polymerases I, II or III.
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RNA mimics of green fluorescent protein.
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Generation of a nicking enzyme that stimulates site-specific gene conversion from the I-AniI LAGLIDADG homing endonuclease.
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High-throughput microfluidic single-cell RT-qPCR.
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Acoustic microstreaming increases the efficiency of reverse transcription reactions comprising single-cell quantities of RNA.
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Efficient and specific knockdown of small non-coding RNAs in mammalian cells and in mice.
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An improved one-tube RT-PCR protocol for analyzing single-cell gene expression in individual mammalian cells.
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A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries.
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DNA purification and isolation using a solid-phase.
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Amplification of cDNA ends based on template-switching effect and step-out PCR.
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CapSelect: a highly sensitive method for 5' CAP-dependent enrichment of full-length cDNA in PCR-mediated analysis of mRNAs.
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Increased yield of PCR products by addition of T4 gene 32 protein to the SMART PCR cDNA synthesis system.
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Molecular recognition of DNA by small molecules.
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Detection of the 5'-cap structure of messenger RNAs with the use of the cap-jumping approach.
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A highly efficient method for long-chain cDNA synthesis using trehalose and betaine.
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Mapping of transcription start sites by direct sequencing of SMART RACE products.
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Use of alkyltrimethylammonium bromides for the isolation of ribo- and desoxyribo-nucleic acids.
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The biotin-streptavidin interaction can be reversibly broken using water at elevated temperatures.
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Exogenous AdoMet and its analogue sinefungin differentially influence DNA cleavage by R.EcoP15I--usefulness in SAGE.
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The solution to the streptavidin-biotin paradox: the influence of history on the strength of single molecular bonds.
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Coating of poly(dimethylsiloxane) with n-dodecyl-beta-D-maltoside to minimize nonspecific protein adsorption.
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The RIN: an RNA integrity number for assigning integrity values to RNA measurements.
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Sequencing the termini of capped viral RNA by 5′-3′ ligation and PCR.
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Organization and mobility of water in amorphous and crystalline trehalose.
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Counting low-copy number proteins in a single cell.
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Global alignment of multiple protein interaction networks with application to functional orthology detection.
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A procedure for highly specific, sensitive, and unbiased whole-genome amplification.
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Accurate whole human genome sequencing using reversible terminator chemistry.
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A synthetic snRNA m3G-CAP enhances nuclear delivery of exogenous proteins and nucleic acids.
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Genome-Wide Analysis In Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling.
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Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing.
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Massive transcriptional start site analysis of human genes in hypoxia cells.
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A library-based method to rapidly analyse chromatin accessibility at multiple genomic regions.
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Novel method for high-throughput colony PCR screening in nanoliter-reactors.
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High-throughput verification of transcriptional starting sites by Deep-RACE.
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Chemically inducible inactivation of protein synthesis in genetically targeted neurons.
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Efficient oligonucleotide-mediated degradation of nuclear noncoding RNAs in mammalian cultured cells.
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Digital transcriptome profiling using selective hexamer priming for cDNA synthesis.
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Zip Nucleic Acids: new high affinity oligonucleotides as potent primers for PCR and reverse transcription.
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Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms.
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A guide for in-house design of template-switch-based 5′ rapid amplification of cDNA ends systems.
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Enhanced amplification of GC-rich DNA with two organic reagents.
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FRT-seq: amplification-free, strand-specific transcriptome sequencing.
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Synthetic design of strong promoters.
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Construction of T-vectors, a rapid and general system for direct cloning of unmodified PCR products.
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Optimized design and data analysis of tag-based cytosine methylation assays.
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Size fractionation of double-stranded DNA by precipitation with polyethylene glycol.
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Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction.
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High-efficiency full-length cDNA cloning by biotinylated CAP trapper.
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Thermostabilization and thermoactivation of thermolabile enzyme by trehalose and its application for the synthesis of full length cDNA.
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