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datasets available to search
ShareScore release 0.9.0
Dataset results
50 results for “Library preparation”
A benchmark of hemoglobin blocking during library preparation for mRNA-Sequencing of human blood samples
GEO Series GSE133758. Homo sapiens. 198 samples. Type: Expression profiling by high throughput sequencing.
Performance comparison of small RNA-Seq library preparation methods for biofluid samples
GEO Series GSE149513. Homo sapiens; synthetic RNA. 28 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Systematic evaluation of library preparation methods and sequencing platforms for high-throughput whole genome bisulfite sequencing [Beadchip]
GEO Series GSE128733. Homo sapiens. 12 samples. Type: Methylation profiling by array.
Systematic comparative analysis of strand-specific, cost-effective, RNA-seq library preparation methods for low input samples
GEO Series GSE167300. Homo sapiens. 50 samples. Type: Other.
Sequencing Universal Human Reference RNA by Smart-seq and early barcoding library preparation methods
GEO Series GSE75823. Homo sapiens. 11 samples. Type: Expression profiling by high throughput sequencing.
Large-scale low-cost NGS library preparation using a robust Tn5 purification and tagmentation protocol [i5i7]
GEO Series GSE101518. Homo sapiens. 45 samples. Type: Expression profiling by high throughput sequencing.
A non-radioactive, improved PAR-CLIP and small RNA cDNA library preparation protocol
GEO Series GSE163925. Homo sapiens. 21 samples. Type: Other.
Commercial ChIP-Seq library preparation kits performed differently for different classes of protein targets
GEO Series GSE196402. Homo sapiens. 128 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Data from: A broadly applicable COI primer pair and an efficient single‐tube amplicon library preparation protocol for metabarcoding
The nucleotide variation in the cytochrome c oxidase subunit I (COI) gene makes it ideal for assigning sequences to species. However, this variability also makes it difficult to design truly universal primers. Here, we present the forward primer "Sauron-S878", specifically designed to facilitate library preparation for metabarcoding. This primer is modified to improve the coverage of terrestrial species compared to the primer mCOIintF, optimized for aquatic systems, which raised the in-silico coverage from 74.4% to 98.3% of available NCBI sequences (perfect match in 3'-region, up to 3 mismatches in remaining primer). When paired with the reverse primer "jgHCO2198" (fragment length ~313 bp) these primers amplified 98.4% of 255 tested DNA extracts from various taxa, which is better than many other common COI barcoding primers. Furthermore, a single tube protocol was developed, wherein these primers amplify the target gene, and attach MIDs and Illumina sequencing adapters in one reaction. This eliminates the need for re-amplification or enzymatic ligation during library preparation while keeping the flexibility to modularly combine primers and MIDs. Using the single tube approach, three replicates of three mock samples were sequenced on a MiSeq platform with no adverse effects compared to commercial Nextera indexing kits. From this run 75% of all included taxa could be recovered, with no considerable bias among taxonomic groups. Despite the fact that 98.4% of the extracts were confirmed to amplify in-vitro, this number was lower than expected. A reason for this discrepancy was a clear link between the relative concentration of a specific DNA type in the template and the number of returned reads for this DNA. We would argue that such a bias may be especially problematic in metabarcoding where samples usually contain trace DNA in unknown amounts. However, how this affects the completeness of metabarcoding results has yet been poorly investigated.
Data from: NGS library preparation may generate artifactual integration sites of AAV vectors
[No abstract entered]
Data from: A broadly applicable COI primer pair and an efficient single‐tube amplicon library preparation protocol for metabarcoding
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Data from: NGS library preparation may generate artifactual integration sites of AAV vectors
Open the record for dataset details and reuse information.
Evaluation of three small RNA library preparation kits on serum-derived RNA
GEO Series GSE88914. Mus musculus. 6 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Impact of library preparation on downstream analysis and interpretation of RNA-seq data: comparison between Illumina PolyA and NuGEN Ovation protocol
GEO Series GSE47933. Homo sapiens. 16 samples. Type: Expression profiling by high throughput sequencing.
Whole genome DNA methylation profiling of D2 medium spiny neurons in mouse nucleus accumbens using two independent library preparation methods
GEO Series GSE195752. Mus musculus. 4 samples. Type: Methylation profiling by high throughput sequencing.
Addressing bias in small RNA library preparation for sequencing: a new protocol recovers microRNAs that evade capture by current methods
GEO Series GSE75457. Mus musculus. 9 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Large-scale low-cost NGS library preparation using a robust Tn5 purification and tagmentation protocol [polyA]
GEO Series GSE101519. Homo sapiens. 42 samples. Type: Expression profiling by high throughput sequencing.
An extension to: Systematic assessment of commercially available low-input miRNA library preparation kits
GEO Series GSE141658. synthetic construct; Homo sapiens. 42 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Splinted Ligation Adapter Tagging, a novel library preparation for whole genome bisulphite sequencing
GEO Series GSE89213. Homo sapiens. 8 samples. Type: Methylation profiling by high throughput sequencing.
Microfluidic platform for next-generation sequencing library preparation with low-input samples
GEO Series GSE132786. Mus musculus; Homo sapiens. 19 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.