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Dataset results
18 results for “molecular protocols”
Figure 1. DNA extraction with two different protocols from different noninvasive samples. Lines 1, 3, 5 in Evaluation of methods for molecular sex-typing of three heron species from different DNA sources
Figure 1. DNA extraction with two different protocols from different noninvasive samples. Lines 1, 3, 5, and 7: DNA extraction with commercial kit; Lines 2, 4, 6, and 8: DNA extracted with modified standard protocol. Lines 1–2: eggshells (Grey Heron); lines 3–4: eggshell swabs (Grey Heron); lines 5–6: pin feathers (Purple Heron); lines 7–8: contour feathers (Great Egret); 9: negative control; M: molecular marker.
Molecular Transducers of Physical Activity Consortium (MoTrPAC) - Pediatric Protocol
ClinicalTrials.gov study NCT04151199. IPD Sharing: YES. Countries: 1. Publications: 1.
Protocol for Extraction of High-Molecular-Weight Genomic DNA from Gram-Negative Bacteria
<p>Video demonstrating the protocol for extraction of High-Molecular-Weight Genomic DNA from Gram-negative bacteria based on MagAttract HMW DNA kit QIAGEN. Training video elaborated within the ArtiSaneFood project.</p>
Data from: Improving PCR detection of prey in molecular diet studies: importance of group-specific primer set selection and extraction protocol performances
While morphological identification of prey remains in feces of predators is the method most commonly used to study trophic interactions, many studies indicate that this method does not detect all consumed prey. Polymerase Chain Reaction based methods are increasingly used to detect prey DNA in the predator food bolus and have proved themselves efficient, with high accuracy. When studying complex diet samples, the extraction of total DNA is a critical step, as PCR inhibitors may be co-extracted. Another critical step consist in carefully select suitable group-specific primer sets that should only amplify prey DNA from the targeted taxon. In this study, the food boluses of five Rattus rattus and seven Rattus exulans were analyzed using both morphological and molecular methods. We tested a panel of 30 PCR specific primer sets targeting Bird, Invertebrate and Plant sequences and four were finally selected to be use as group-specific primer pairs in PCR protocols. The performances of four DNA extraction protocols (QIAamp DNA stool mini kit, DNeasy mericon food kit and two CTAB-based methods) were compared using four variables: DNA concentration, A260/A280 absorbance ratio, food compartment analyzed (stomach or fecal contents), total number of prey specific PCR amplification per sample. Our results clearly indicate that the A260/A280 absorbance ratio, which varies between extraction protocols, is positively correlated to the number of PCR amplifications of each prey taxon. We recommend using the DNeasy mericon food kit (Qiagen), which yielded results very similar to those achieved with the morphological approach.
An Integrated Protocol for Exploring Molecular Mechanisms of Schizophrenia Using DNA Microarray Datasets
<p>The gene expression matrices, annotation information of probes and sample descriptions for GSE87610, GSE92538, GSE93577 and GSE93987. </p>
PyRAMD scheme: a protocol for computing the infrared spectra of polyatomic molecules using ab initio molecular dynamics
<p>Here are illustrative examples of how to compute molecular-dynamics-based vibrational infrared spectra of polyatomic molecules using PyRAMD software.</p> <p>The dataset includes the version of the software used (PyRAMD from https://gitlab.desy.de/denis.tikhonov/pyramd, obtained July 15, 2024) for running molecular dynamics (MD) and various examples of MD simulations that illustrate various analysis issues. The large-time-step correction applicability is shown with methane (CH4) as an example. The applicability of the regularized least-squares spectral analysis is demonstrated in the case of carbon dioxide (CO2). The scale factors for the MD are obtained using water, ammonia, methane, ethane, methylamine, and methanol as the training set of molecules. The scale factors were obtained at the BLYP-D3(BJ)/6-31G, PBE-D3(BJ)/6-31G, and PBEh-3c levels of theory. The whole procedure was demonstrated with protonated methane as a test case.</p>
Dataset for "Advances in Docking Protocols for PPIs: Insights from AlphaFold2 and Molecular Dynamics Refinement"
<p>Dataset files used in 'Advances in Docking Protocols for PPIs: Insights from AlphaFold2 and Molecular Dynamics Refinement' (https://github.com/SysBioUAB/docking_benchmark)</p>
Initiative for Molecular Profiling in Advanced Cancer Therapy (IMPACT) Trial, An Umbrella Protocol
ClinicalTrials.gov study NCT00851032. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Improving PCR detection of prey in molecular diet studies: importance of group-specific primer set selection and extraction protocol performances
Open the record for dataset details and reuse information.
Data from: A combined field survey and molecular identification protocol for comparing forest arthropod biodiversity across spatial scales
Open the record for dataset details and reuse information.
Preclinical Validation of a Microarray Method for Full Molecular Karyotyping of Blastomeres in a 24-hour Protocol
GEO Series GSE19247. Homo sapiens. 622 samples. Type: Other.
LAMMPS input files and analysis for estimating the glass transition temperature using ensemble molecular dynamcs of a selection of epoxy resins using different protocols for computing the density-temperature behaviour.
<p>LAMMPS input files and analysis for estimating the glass transition temperature using ensemble molecular dynamcs of a selection of epoxy resins using different protocols for computing the density-temperature behaviour. </p>
DETERMINE (Determining Extended Therapeutic Indications for Existing Drugs in Rare Molecularly Defined Indications Using a National Evaluation Platform Trial) - Master Screening Protocol
ClinicalTrials.gov study NCT05722886. IPD Sharing: YES. Countries: 1. Publications: 0.
Breast Cancer Molecular Analysis Protocol
ClinicalTrials.gov study NCT01855503. IPD Sharing: Not stated. Countries: 1. Publications: 0.
MMRF Molecular Profiling Protocol
ClinicalTrials.gov study NCT02884102. IPD Sharing: Not stated. Countries: 2. Publications: 0.
Molecular Stratification Profiling Protocol in Metastatic Castration Resistant Prostate Cancer (mCRPC) - MAESTRO
ClinicalTrials.gov study NCT03934164. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Molecular Profiling Protocol (SCRI-CA-001)
ClinicalTrials.gov study NCT00530192. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Protocols Development for Single Cells Genomics and Their Implementation for Molecular Diversity Between Cells
ClinicalTrials.gov study NCT02540941. IPD Sharing: Not stated. Countries: 0. Publications: 0.
ScienceDex guides
Understand access before you commit
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.