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104 results for “BAM”
.bam alignment files of Illumina and ONT sequencing of pREF plasmid
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Example BAM file for Galaxy Visualization Development Tutorial
<p>An example BAM file that can be used for the tutorial on visualization plugin development in Galaxy.</p>
Easy BAM files from practising RNA-seq and exome-seq visualization
<p>Two sets of small BAM files for practising RNA-seq and WES visualization (human) </p> <p>All data was processed from open access SRA datasets. </p> <p>Description:</p> <table> <tbody> <tr> <td>NAME</td> <td>RNA-EMT</td> <td>WES-LUNG</td> </tr> <tr> <td>SOURCE</td> <td>Yang et al. https://doi.org/10.1128/mcb.00019-16, SRA: PRJNA304419</td> <td>Ju et al. https://doi.org/10.1101/gr.133645.111; SRA: ERP001071)</td> </tr> <tr> <td>DESCRIPTION</td> <td>Human RNA-seq BAM files </td> <td>Human WES BAM files: Lung cancer</td> </tr> <tr> <td>SEQUENCING TYPE</td> <td>Illumina paired-end, stranded</td> <td>Illumina paired-end</td> </tr> <tr> <td>METHODS</td> <td>Original data are from cell lines subjected to epthithelium-mesenchymal transition. We took replicates corresponding to Day 0 (uninduced cells) and Day 7 (7 days after induction). Reads were aligned with STAR. BAM files are restricted to chromosome 18. Gene of interest: CDH2, up in mesenchymal state.</td> <td>WES were obtained from tumor and blood tissues from a non small cell lung cancer patient. Reads were aligned with BWA. A fraction of sequences corresponding to a panel of genes were retained. Genes of interest: DUSP27, KRAS</td> </tr> <tr> <td>MAPPED_TO</td> <td>HG19</td> <td>HG19</td> </tr> <tr> <td>SAMPLING RATE</td> <td>0.50%</td> <td>0.10%</td> </tr> <tr> <td>FILE SIZE</td> <td>2*40Mb</td> <td>2*7Mb</td> </tr> </tbody> </table>
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics: fastq & bam files - Sample S5_Rec
<p>You can find here the fastq and bam files related to the datasets used in the publication: </p> <p>In this particular upload, you can find the fastq (version1) and bam (version2) files of the two replicates of sample S5_Rec (A121573)</p> <p><strong>Valdeolivas, A., Amberg, B., Giroud, N. <em>et al.</em> Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. <em>npj Precis. Onc.</em> 8, 10 (2024). https://doi.org/10.1038/s41698-023-00488-4</strong></p> <p> </p> <p> </p>
Subspecies and Distribution. P. b. breviceps Waterhouse, 1839 — E mainland Australia in New South Wales, Victoria, and South Australia, extending into SE South Australia; also Tasmania (where may be introduced). P. b. ariel Gould, 1842 — N Western Australia through N Northern Territory, including Tiwi Is and Groote Eylandt. Pb. longicaudatus Longman, 1924 — N & E Queensland, including Normanby I (off Russell River, S of Cairns). P. b. papuanus Thomas, 1888 — Moluccas (Halmahera, Ternate I, Bacan Is, Gebe I, Kai Besar I); and New Guinea, including West Papuan Is (Misool, Salawati), Adi I (off S Bomberai = Fakfak Peninsula), islands in Cenderawasih (= Geelvink) Bay (Yapen, Numfoor), islands off N coast (Bagabag, Bam, Blup Blup, Kadovar, Karkar, Koil, Vokeo, Wei), Bismarck Archipelago (New Britain, Duke of York), and islands off SE peninsula (Fergusson, Goodenough, Sudest, Woodlark, Misima, Normanby). in Petauridae
Subspecies and Distribution. P. b. breviceps Waterhouse, 1839 — E mainland Australia in New South Wales, Victoria, and South Australia, extending into SE South Australia; also Tasmania (where may be introduced). P. b. ariel Gould, 1842 — N Western Australia through N Northern Territory, including Tiwi Is and Groote Eylandt. Pb. longicaudatus Longman, 1924 — N & E Queensland, including Normanby I (off Russell River, S of Cairns). P. b. papuanus Thomas, 1888 — Moluccas (Halmahera, Ternate I, Bacan Is, Gebe I, Kai Besar I); and New Guinea, including West Papuan Is (Misool, Salawati), Adi I (off S Bomberai = Fakfak Peninsula), islands in Cenderawasih (= Geelvink) Bay (Yapen, Numfoor), islands off N coast (Bagabag, Bam, Blup Blup, Kadovar, Karkar, Koil, Vokeo, Wei), Bismarck Archipelago (New Britain, Duke of York), and islands off SE peninsula (Fergusson, Goodenough, Sudest, Woodlark, Misima, Normanby).
1000 Genomes Data: Sequencing Data in BAM Format - LPA Region
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Dataset "High-throughput screening of BAM inhibitors in native membrane environment"
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RM1_BAM
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TC track data for BAMS In-Box article
<p>This tarball contains TC best track and model forecasted track data in the ATCF format. </p> <p>b_deck:<br>Contains TC best track files (b_deck) in the North Atlantic basin from 2014 to 2023.</p> <p>a_deck:<br>Contains all model forecasted TC tracks from the GFDL TC tracker in the ATCF data format.<br>models and their index:<br> GFS = AVNO<br> IFS = EMX<br> HWRF = HWRF<br> HAFS-A = HFSA<br> HAFS-B = HFSB<br> 5-day CLIPER5/SHIFOR5 guidance = OCD5</p> <p> SHiELD 2019 = GF95<br> 2020 = FV20<br> 2021 = F206<br> 2022 = F226<br> 2023 = F226</p> <p> T-SHiELD 2020 = T20H<br> 2021 = T21D<br> 2022 = T22D<br> 2023 = T23D</p> <p>Please contact Jan-Huey.Chen@noaa.gov for any questions.</p>
Exponential Synchronization of BAM Neural Networks with Delay on Arbitrary Time Domains
<p>Code to reproduce the plots presented in our manuscript ``Exponential Synchronization of BAM Neural Networks with Delay on Arbitrary Time Domains''. </p>
nPSize 01 SEM BAM
<p>nPSize01 SEM BAM</p>
nPSize 07 SEM BAM
<p>nPSize07 SEM BAM</p>
nPSize 14 SEM BAM
<p>nPSize14 SEM BAM</p>
Summary statistics BAM+Unitsim
<p>Summary statistics of calibration and mock production using BAM and the Unit N-body simulation.</p>
Liposome_BAM_depletion_T_cell
<p>This dataset contains .fcs files from AAV2-SYN transduced animals given clodronate or saline liposomes i.c.v. This experiment specifically investigated T helper subsets.</p>
Liposome_BAM_depletion_4wk
<p>This dataset contains files from flow cytometry performed on brain and meninges. Tissue was taken from animals transduced with AAV2-SYN and given clodronate or PBS filled liposomes i.c.v. Data represents inflammation at 4 weeks post-treatment.</p>
Bifocal & Atropine in Myopia (BAM) Study
ClinicalTrials.gov study NCT03312257. IPD Sharing: Not stated. Countries: 0. Publications: 2.
Ballistic Microscopy (BaM) data repository
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Fig 3 from: Bam A, Addison P, Conlong D (2020) Acridid ecology in the sugarcane agro-ecosystem in the Zululand region of KwaZulu-Natal, South Africa. Journal of Orthoptera Research 29(1): 9-16. https://doi.org/10.3897/jor.29.34626
Fig 3 Population survey showing the relative abundance of the five most prominent acridid species in sugarcane in relation to the damage rating index on the secondary y axis.
Fig 5 from: Bam A, Addison P, Conlong D (2020) Acridid ecology in the sugarcane agro-ecosystem in the Zululand region of KwaZulu-Natal, South Africa. Journal of Orthoptera Research 29(1): 9-16. https://doi.org/10.3897/jor.29.34626
Fig 5 Association between grasshopper species and habitat. Correspondence analysis showing the association between grasshopper species in relation to sugarcane and grassland survey sites sampled over a seven-week period from 21 November 2012–19 February 2013.
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.