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19,342 results for “Sequences”
FIG. 1 in A journey through Cyanobacteria in Brazil: a review of novel genera and 16S rRNA sequences
FIG. 1. — Flowchart of search methods for identification and selection of studies.
Data for Isotype-aware Inference of B cell Clonal Lineage Trees from Single-cell Sequencing Data
<p>This is the accompanying data to the manuscript titled<em> Isotype-aware Inference of B cell Clonal Lineage Trees from Single-cell Sequencing Data</em>. To reproduce the TRIBAL output please use this <a href="https://doi.org/10.5281/zenodo.12741290">code repository</a> as the arguments and codebase may have changed since release. </p>
Hummingbirds rapidly respond to the removal of visible light and control a sequence of rate-commanded escape maneuvers in milliseconds
<p>Hummingbirds routinely execute a variety of stunning aerobatic feats, which continue to challenge current notions of aerial agility and controlled stability in biological systems. Indeed, the control of these amazing maneuvers is not well understood. Here we examined how hummingbirds control a sequence of maneuvers within milliseconds and tested whether and when they use vision during this rapid process. We repeatedly elicited escape flights in Calliope hummingbirds and removed visible light during each maneuver at various instants and quantified their flight kinematics and responses. We show that the escape maneuvers were composed of rapidly-controlled sequential modules including evasion, reorientation, nose-down dive, forward flight, and nose-up to hover. The hummingbirds did not respond to the light removal during evasion and reorientation until a critical light-removal time; afterward, they showed two categories of luminance-based responses that rapidly altered maneuvering modules to terminate the escape. We also show that hummingbird maneuvers were rate-commanded and required no active braking, i.e., their body angular velocities were proportional to the change of wing motion patterns, a trait that likely alleviates the computational demand on flight control. This work uncovers key traits of hummingbird agility, which can also inform and inspire designs for next-generation agile aerial systems.</p>
Illumina RNA-Sequencing fastq data from insecticide resistant Anopheles gambiae s.l
<p>This is a dataset of Illumina RNA sequencing reads, for a project investigating resistance to Pirimiphos-methyl in the major malaria vectors, Anopheles gambiae and Anopheles coluzzii. There are four biological replicates for the following conditions:</p> <p> </p> <p>Ngousso (susceptible)</p> <p>Kisumu (susceptible)</p> <p>Bouake gambiae unexposed</p> <p>Bouake gambiae PM survivors</p> <p>Bouake coluzzii unexposed </p> <p>Bouake coluzzii PM survivors </p> <p> </p> <p>SRA submission: SUB14596876</p> <p> </p>
Fig. 2 in Molecular phylogeny of Indonesian Lymantria Tussock Moths (Lepidoptera: Erebidae) based on CO I gene sequences
Fig. 2. Pairwise sequences divergence based on K2P model versus Transition/Transversion (Ts/Tv).
Extracted sequences of fungal OTUs on coarse woody debris Bavarian Forest
<p>Extarcted sequences of fungal communities in coarse woody debris, sampled in the Bavarain Forest, Germany, in 2012, 2013 and 2015. A deadwood experiment with 67 stems (length 5m, dia ~33cm; 34x <em>Fagus sylvatica</em> and 33x <em>Abies alba</em>) was established in 2011. Per sampling year four drilling cores per stem were collected and pooled. PCR was performed on ITS2 region using barcoded gITS7 and ITS4. Treatment describes whether it is an experimentally created forest gap or a closed canopy. Taxonomic information and community composition only references to the most abundant OTUs used in Rieker et al. (2024): How to best detect threatened deadwood fungi – comparing metabarcoding and fruit body surveys. <em>Biological Conservation.</em></p> <p>Sample collection and processing are further described in</p> <p>Rieker et al. (2024): How to best detect threatened deadwood fungi – comparing metabarcoding and fruit body surveys. <em>Biological Conservation.</em></p> <p>and lab protocols follow Baldrian et al. (2016): Fungi associated with decomposing deadwood in a natural beech-dominated forest. <em>Fungal ecology, 23, 109-122.</em></p>
Multiple Sequence Alignments for Octopus bocki
<p><span>Multiple sequence alignments were created in MEGA11: Molecular Evolutionary Genetics Analysis version 11 (<em>Whelan and Goldman, 2001</em>)</span><span> using Muscle default parameters (UPGMA cluster method with -2.9 gap open and 0 gap extension penalties)</span></p> <p><em><span>Whelan, S. and Goldman, N. (2001). A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Molecular Biology and Evolution 18:691-699.</span></em></p>
Relocation of the 2024 MS 7.1 Wushi, Xinjiang earthquake sequence and implications for seismogenic structure
<p>This file is the relocated data of the 2024 Wushi Ms 7.1 earthquake using Double-difference algorithm. It is only used for scientific research.</p>
single-nucleus RNA sequencing data of Minimal Change Disease and Focal Segmental Glomerulosclerosis patients
<p>single-nucleus RNA sequencing data of Minimal Change Disease and Focal Segmental Glomerulosclerosis patients</p>
Theropithecus gelada and Microcebus murinus TBC1D3 Orthologous Sequence
<p>Genomic Sequence of TBC1D3 orthologous regions in Theropithecus gelada hap1 and hap2 used for Guitart et al.2024 journal article: "<strong>Independent expansion, selection and hypervariability of the TBC1D3 gene family in humans</strong>" </p> <p>https://www.biorxiv.org/content/10.1101/2024.03.12.584650v1</p>
Fig. 1 in Marked genetic diversity within Blastocystis in Australian wildlife revealed using a next generation sequencing-phylogenetic approach
Fig. 1. Map showing Melbourne's water catchment areas where samples were collected (2009-2022).
Fig. 1 in Mitochondrial DNA diversity in the acanthocephalan Prosthenorchis elegans in Colombia based on cytochrome c oxidase I (COI) gene sequence
Fig. 1. Photo showing the characteristic external morphology of Prosthenorchis elegans.
Fig. 2 in Molecular phylogeny of Indonesian Zeuzera (Lepidoptera: Cossidae) wood borer moths based on CO I gene sequence
Fig. 2. Scatter plots of K2P model distance for Transition (Ts) versus Transversion (Tv).
Fig. 13 Erythraeus regalis, larva. a Gnathosoma, ventral view. b in Towards resolving the double classification in Erythraeus (Actinotrichida: Erythraeidae): matching larvae with adults using 28S sequence data and experimental rearing
Fig. 13 Erythraeus regalis, larva. a Gnathosoma, ventral view. b Palp tarsus
Do we similarly assess diversity with microscopy and High Throughput Sequencing? Case of microalgae in lakes.
<p>These are the repository files of the paper "Do we similarly assess diversity with microscopy and High Throughput Sequencing? Case of microalgae in lakes" published in Organisms Diversity and Evolution</p> <p>In these files are given:</p> <p>- the sampling sites descrptions (coordinates, lake names)</p> <p>- species relative abundances obtained with light microscopy for each sampling site</p> <p>- OTUs amounts and relative abundances obtained High-Throughput Sequencing for each sampling site</p> <p>- code correspondence between lake codes and FastQ files codes</p> <p>- FastQ files of the sampling sites</p>
Figure 3. Describing the sequence of input sensations sent by the system.-Designing a Growing Functional Modules "Artificial Brain"
<p>To design the controller, first of all, the user should click the button “new” on the toolbar to<br> create an empty canvas and to assign it a controller's name, presently “pathfinder”. Then, the first<br> convenient step is to describe the feedback given by the system as a sequence of sensations (see<br> figure 3). The first sensation named “free”, indicates if the vehicle has been able or not to cross the<br> range of obstacles. Each of the next sixteen values is associated to its corresponding proximity<br> sensors that points out the presence of an obstacle. They are given a name beginning with “s”<br> followed by a number. The red color of the last sensation's field indicates that the given name is<br> invalid; presently, because it contains a blank character.</p>
Multiple sequence alignment of USP Zf-UBD proteins
<p>Using Molsoft's ICM-Pro, a multiple sequence alignment of USP Zf-UBDs was done against HDAC6 Zf-UBD. </p>
Datasets and Scripts: Full-length mRNA sequencing uncovers a widespread coupling between transcription and mRNA processing
<p>The multilayered control of gene expression requires tight coordination of regulatory mechanisms at the transcriptional and post-transcriptional level. In this study, we studied the interdependence of transcription, splicing and polyadenylation events on single mRNA molecules by full-length mRNA sequencing. In MCF-7 breast cancer cells and three human tissues, we found an unforeseen number of genes that demonstrate mutually inclusive or exclusive alternative transcription and mRNA processing events, which can span the entire length of mRNA molecules. Furthermore, alternative poly(A) sites that are coupled with alternative splicing events are depleted for known poly(A) signals and enriched for MBNL binding motifs, supporting a dual role of MBNL proteins in regulating splicing and polyadenylation. We predict thousands of open-reading frames from the sequence of full-length mRNAs, allowing for a more sensitive proteogenomics analysis of MCF-7 mass-spectrometry data. Our findings demonstrate that our understanding of transcriptome complexity is far from complete and provides a framework to reveal largely unresolved mechanisms that coordinate transcription and mRNA processing.</p>
Original NGS dataset from publication "Next-generation sequencing analysis of a cluster of hepatitis C virus infections in a haematology and oncology center".
<p>Original hepatitis C virus hypervariable region 1 NGS sequences in fastq format from patients analyzed in the study "Next-generation sequencing analysis of a cluster of hepatitis C virus infections in a haematology and oncology center". </p> <p> </p>
OTU sequences - Joli et al. Scientific Reports - Janus Gateway
<p>Fasta file representing the sequences of the representative OTUs from the paper Joli et al. published Scientific Reports as <strong>Need for focus on microbial species following ice melt and changing freshwater regimes in a Janus Arctic Gateway. </strong></p> <p>Those sequences have been selected based on 99% identity between reads.</p>
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.