EGAS00001001856-sc-20170323 - samples
Ontology highlight
ABSTRACT:
PROVIDER: EGAD00001003254 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:R&D project to develop low input library construction methods.
| EGAS00001001856 | EGA
Project description:R&D project to develop low input library construction methods.
| EGAS00001001855 | EGA
Project description:R&D project to develop low input library construction methods. .
This dataset contains all the data available for this study on 2019-04-01.
| EGAD00001004878 | EGA
Project description:Plant small RNAs are a diverse and complex set of molecules, ranging in length from 21 to 24 nt, involved in a wide range of essential biological processes. Nowadays, high-throughput sequencing is the most commonly used method for the discovery and quantification of small RNAs. However, it is known that several biases can occur during the preparation of small RNA libraries, especially using low input RNA. We used two types of plant biological samples to evaluate the performance of seven commercially available methods for small RNA library construction, using different RNA input amounts. We show that when working with plant material, library construction methods have differing capabilities to capture small RNAs, and that different library construction methods provide better results when applied to the detection of microRNAs, phased small RNAs, or tRNA-derived fragments.
2021-08-01 | GSE156973 | GEO
Project description:Low-input Hi-C library construction
| PRJNA975160 | ENA
Project description:Library Construction Optimization for Low Input Host-Pathogen Samples: Brugia+Wolbachia (wBm)
| PRJNA353918 | ENA
Project description:Advances in Next Generation Sequencing (NGS) have made available a wealth of information that had previously been inaccessible to researchers and clinicians. NGS has been applied to understand genomic, transcriptomic, and epigenomic changes and gained traction as a significant tool capable of accelerating diagnosis, prognosis, and biomarker discovery. However, these NGS assays have yet to be practical methods for patient stratification or diagnosis because of the gap between the tiny quantities of biomaterials provided by a clinical sample and the large DNA input required by most of these assays. Current library preparation methodologies typically require large input amounts of DNA and a long and complicated manual process. Here we present a microfluidic reactor system for NGS library preparation, capable of reducing the number of pipetting steps significantly, automating much of the process, while supporting extremely low DNA input requirement (10 pg per library). This largely automated technology will allow for low-input preparations of 8 libraries simultaneously while reducing batch to batch variation and operator hands-on time.
2020-01-02 | GSE132786 | GEO
Project description:RNA modifications have important function in nearly every aspect of RNA biology. Epitranscriptome RNA modifications detected by high-throughput sequencing technologies is critical for understanding the distribution, regularity, stoichiometry, function of RNA modifications. One of disadvantages about these high-throughput sequencing technologies is needing high-input RNA. Here we use poly(A) tailing, template switching by reverse transcription during DNA synthesis and in vitro transcription (IVT) to develop a cutting-edge library construction strategy for profiling ultra-limited RNA modifications (Uli-Epic). We apply Uli-Epic for RNA-seq using 100 pg of poly A+ RNA. We also apply Uli-Epic to combine with BID-seq to characterize dynamics of pseudouridine in neural stem cells (NSC) and sperm under normal and fetal growth restriction (FGR) mice using as low as 100 pg of rRNA-depleted RNA. In addition, we combined Uli-Epic and GLORI to quantify the m6A methylomes of sperm and NSC under normal and FGR mice using 10ng of rRNA-depleted RNA. Summary, Uli-Epic is a strand-specific, high throughput and low input RNA library construction strategy which is compatible with many RNA modifications detected technologies.
2025-10-21 | GSE277359 | GEO
Project description:RNA modifications have important function in nearly every aspect of RNA biology. Epitranscriptome RNA modifications detected by high-throughput sequencing technologies is critical for understanding the distribution, regularity, stoichiometry, function of RNA modifications. One of disadvantages about these high-throughput sequencing technologies is needing high-input RNA. Here we use poly(A) tailing, template switching by reverse transcription during DNA synthesis and in vitro transcription (IVT) to develop a cutting-edge library construction strategy for profiling ultra-limited RNA modifications (Uli-Epic). We apply Uli-Epic for RNA-seq using 100 pg of poly A+ RNA. We also apply Uli-Epic to combine with BID-seq to characterize dynamics of pseudouridine in neural stem cells (NSC) and sperm under normal and fetal growth restriction (FGR) mice using as low as 100 pg of rRNA-depleted RNA. In addition, we combined Uli-Epic and GLORI to quantify the m6A methylomes of sperm and NSC under normal and FGR mice using 10ng of rRNA-depleted RNA. Summary, Uli-Epic is a strand-specific, high throughput and low input RNA library construction strategy which is compatible with many RNA modifications detected technologies.
2025-10-21 | GSE277358 | GEO
Project description:Systematic comparative analysis of strand-specific, cost-effective, RNA-seq library preparation methods for low input samples
| PRJNA704106 | ENA