Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
8
datasets available to search
ShareScore release 0.9.0
Dataset results
8 results for “siderite”
Data and code from: SIDERITE: Unveiling Hidden Siderophore Diversity in the Chemical Space Through Digital Exploration
<h1>TMAP of COCONUT database</h1> <p>The script and data used in SIDERITE paper to generate TMAP picture (Figure S3 in supplementart material).</p> <p>Requirement: tmap</p> <p>You can install tmap by conda.</p> <blockquote> <p>conda create -n tmap python=3.7</p> <p>conda activate tmap</p> <p>conda install -c tmap tmap</p> <p>pip install faerun</p> <p>pip install matplotlib</p> <p>conda install scipy</p> <p>conda install -c rdkit rdkit</p> <p>conda install -c conda-forge mhfp</p> </blockquote> <p> </p> <p>Usage: python plot_COCONUT.py</p> <p>Then it will use COCONUT.csv to generate index.html and index.js. Open index.html to see result.</p> <h1>Other large input files</h1> <p>Tanimoto_COCONUT_SIDERITE.xlsx is the input file in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/predicted_new/Clustering_coconut.m">SIDERITE/predicted_new/Clustering_coconut.m at main · RuolinHe/SIDERITE</a>.</p> <p> </p> <p>Sid_structure_output3.xlsx is used in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/statistics/Figure1.m" target="_blank" rel="noopener">SIDERITE/statistics/Figure1.m at main · RuolinHe/SIDERITE</a>, <a href="https://github.com/RuolinHe/SIDERITE/blob/main/TAMP/tmap_code.m" target="_blank" rel="noopener">SIDERITE/TAMP/tmap_code.m at main · RuolinHe/SIDERITE</a> and <a href="https://github.com/RuolinHe/SIDERITE/blob/main/siderophore_process/Sid_process_code.m" target="_blank" rel="noopener">SIDERITE/siderophore_process/Sid_process_code.m at main · RuolinHe/SIDERITE</a>.</p> <p> </p> <p>COCONUT4MetFrag_Canonical.xlsx is the input file in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/TAMP/tmap_code.m" target="_blank" rel="noopener">SIDERITE/TAMP/tmap_code.m at main · RuolinHe/SIDERITE</a>.</p> <p> </p> <p>COCONUT_r.txt is the output file in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/TAMP/tmap_code.m" target="_blank" rel="noopener">SIDERITE/TAMP/tmap_code.m at main · RuolinHe/SIDERITE</a>. and the input file in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/predicted_new/isSiderophore1.py" target="_blank" rel="noopener">SIDERITE/predicted_new/isSiderophore1.py at main · RuolinHe/SIDERITE.</a></p> <p> </p> <p>COCONUT4MetFrag.xlsx is the input file in <a href="https://github.com/RuolinHe/SIDERITE/blob/main/TAMP/CheckSMILES2.py" target="_blank" rel="noopener">SIDERITE/TAMP/CheckSMILES2.py at main · RuolinHe/SIDERITE</a>.</p> <p> </p>
Supplementary dataset for "Low molecular weight organic acids stabilise siderite against oxidation and influence the composition of iron (oxyhydr)oxide oxidation products"
<p>Supplementary dataset for "Low molecular weight organic acids stabilise siderite against oxidation and influence the composition of iron (oxyhydr)oxide oxidation products"</p>
Text-fig. 4. Taphonomic features of the studied localities of ammonoids. a: Sandstone slab with fragmentary remains of productid and spiriferid brachiopods, orthocerids, coiled nautiloids and ammonoids (stratigraphic level No. 3). b: Shell debris cluster and fragment of crushed ammonoid conch (stratigraphic level No. 1). c: Epibionts on the surface of an ammonoid conch (stratigraphic level No. 5). d: Cluster of bivalves, gastropods and cephalopods remains in a siderite nodule (stratigraphic level No. 5). e: Fragment of an ammonoid conch (stratigraphic level No. 3). f: Fragment of an ammonoid conch (?) with terminal aperture and brachiopod valve (stratigraphic level No. 3). g: Specimen of?Anthracoceratites sp. with conch injuries (shown by arrows) (stratigraphic level No. 8). h, i: Bioerosion trace fossils Cyclopuncta girtyi ELIAS, 1958 on the fragments of cephalopod conchs (stratigraphic level No. 5). j: Limonitized conchs of the ammonoid (stratigraphic level No. 7). k: Fragment of an ammonoid conch (stratigraphic level No. 5). Scale bars 10 mm. in Late Bashkirian Ammonoids From The Mospyne Formation Of The Donets Basin, Ukraine
Text-fig. 4. Taphonomic features of the studied localities of ammonoids. a: Sandstone slab with fragmentary remains of productid and spiriferid brachiopods, orthocerids, coiled nautiloids and ammonoids (stratigraphic level No. 3). b: Shell debris cluster and fragment of crushed ammonoid conch (stratigraphic level No. 1). c: Epibionts on the surface of an ammonoid conch (stratigraphic level No. 5). d: Cluster of bivalves, gastropods and cephalopods remains in a siderite nodule (stratigraphic level No. 5). e: Fragment of an ammonoid conch (stratigraphic level No. 3). f: Fragment of an ammonoid conch (?) with terminal aperture and brachiopod valve (stratigraphic level No. 3). g: Specimen of?Anthracoceratites sp. with conch injuries (shown by arrows) (stratigraphic level No. 8). h, i: Bioerosion trace fossils Cyclopuncta girtyi ELIAS, 1958 on the fragments of cephalopod conchs (stratigraphic level No. 5). j: Limonitized conchs of the ammonoid (stratigraphic level No. 7). k: Fragment of an ammonoid conch (stratigraphic level No. 5). Scale bars 10 mm.
Low temperature magnetic properties of variably oxidized natural and synthetic siderite Dekkers et al., 2023, G-cubed
<p>The data magnetometric measurements performed on natural and synthetic iron carbonates presented in Dekkers et al. (2023) submitted to G-cubed. Details on the samples and methods can be found in the manuscript and the Additional Supporting Information</p> <p> </p>
Data files for siderite + R. palustris experiment
<p>Full dataset for the siderite + R. palustris experiment. Includes:</p> <ul> <li>Solution and pellet ferrozine assay data (Excel file)</li> <li>Raman data of samples and standards (Excel file)</li> <li>XRD data of samples and standards (Excel file)</li> <li>Normalized XAS absorption data for all standards used in Fe K-edge XANES (Excel file)</li> <li>Representative least-squares fits of 1) siderite-like (reduced) and 2) oxidized sample endmembers (Excel file)</li> </ul>
The dataset archives of SIDERITE (siderophore information database)
<p>The update of <a href="https://siderite.bdainformatics.org/">SIDERITE</a>.</p> <p>It covers all 918 known siderophores from 1635 records as of Jan 2025.</p> <p dir="auto"><strong>SIDERITE_records_20250131.xlsx</strong><br>contains 1635 siderophore records</p> <p dir="auto"><strong>SIDERITE_unique_structures_20250131.xlsx</strong><br>contains 918 unique siderophore structures</p> <p>The same siderophore structures can be found in different species, leading to multiple records. Therefore, the number of siderophore records can exceed the number of unique siderophore structures.</p> <p><strong>Non-natural_siderophore_records_20250131.xlsx</strong><br>As SIDERITE is a natural product database, it doesn’t include artificial siderophores, those synthesized by supplementing precursors, or variants produced by gene knock-out strains, though we record their names and references as supplements.</p> <p>If you find SIDERITE useful, please cite:</p> <p>Ruolin He, Shaohua Gu, Jiazheng Xu, et al. 2024. “ SIDERITE: Unveiling Hidden Siderophore Diversity in the Chemical Space Through Digital Exploration.” iMeta e192. <a href="https://doi.org/10.1002/imt2.192">https://doi.org/10.1002/imt2.192</a></p> <div> </div> <div><span><span><span>Ruolin</span> <span>He</span></span>, <span><span>Jiazheng</span> <span>Xu</span></span>, <span><span>Jiqi</span> <span>Shao</span></span>, et al.<span><span> 2025. " Tracing Siderophore Precursors to Primary Metabolism for Ecological Applications. " </span></span></span><span>bioRxiv.</span><span> <a href="https://doi.org/10.1101/2025.04.30.651379">https://doi.org/10.1101/2025.04.30.651379</a></span></div>
Siderit
Siderit Siderite Source: Objaverse 1.0 / Sketchfab
Siderite pseudomorph BIRUG 839
Siderite pseudomorph, after scalenohedral calcite (specimen number: BIRUG 839). This specimen was found in Cornwall, UK and donated to the Lapworth Museum by W. McLean (1915). Model created by Andrew Jones using photogrammetry in Agisoft Photoscan. Source: Objaverse 1.0 / Sketchfab
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.