cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/1msec-qac86
title: Clostridium thermocellum 6

description: Raw data files of Clostridium thermocellum 6
description: <strong>Tilt Series Date:</strong> 2015-05-20</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Clostridium thermocellum</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 18000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Eric Matson</p>
description: Files available via S3 at ps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-05-20-9/rawdata/</p>Cthermo_60005.mrc,  Tilt Series (Pixel Size 0.63 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-05-20-9/rawdata/Cthermo_60005.mrc"
        > <i class="download icon"></i> Download </a></p>

        Cthermo_60005_full.rec,  Reconstruction (Pixel Size 2.52 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-05-20-9/3dimage_57335/Cthermo_60005_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/38grn-38598
title: NR1769/R1-16 conjugation

description: Grid box YWC228NR1769/R1-16 conjugating with NR1769 skinny E. coli
description: <strong>Tilt Series Date:</strong> 2016-11-01</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 190.0 eV/Å²,  defocus: -8.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain and sample prepared by Carrie Shaffer</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-01-18/rawdata/</p>20161101_YWC228_10018.mrc,  Tilt Series (Pixel Size 0.48 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-01-18/rawdata/20161101_YWC228_10018.mrc"
        > <i class="download icon"></i> Download </a></p>

        20161101_YWC228_10018_part81_7.rec,  Reconstruction (Pixel Size 1.92 nm), 534.5 MB  
        
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DOI: 10.13020/4xxz-ay41
title: Data in Support of Online Affinity Micro Free-Flow Electrophoresis for the Continuous Monitoring of Insulin via a Competitive Immunoassay

description: An online, micro free-flow electrophoresis (µFFE) assay was developed for the real-time measurement of insulin in a continuous, competitive immunoassay. In the manuscript corresponding to this dataset, fluorescently labeled insulin and anti-insulin monoclonal antibody were mixed with the sample stream online and flowed through an incubation capillary into the µFFE device. Under an electric field, the bound antibody:insulin-FITC complex was separated from free insulin-FITC. When unlabeled insulin was introduced, labeled and unlabeled insulin competed for binding sites on the antibody, and the separated peaks of the bound complex and free insulin-FITC changed in real-time. Temporal resolution of 30 seconds was achieved following injections of unlabeled insulin, with a limit of detection of 63 nM and a linear response over the tested range of 50 nM to 1 µM insulin. To approximate an online cellular response, glucose-stimulated insulin secretion was collected offline from human islets and injected into the affinity µFFE instrument. A measurable change in insulin secretion was observed between samples exposed to low and high glucose, demonstrating sufficient limit of detection, linearity, the compatibility of the instrument with a complex biological matrix.
description: Data files include MATLAB code, raw data (.csv) and processed data (.csv). The matlab code is used to process all raw data files (matrices) for generation of figures and extraction of linescans or post-processing matrices for further analysis. Raw data files are included for any experiment shown in the manuscript. These are titled "FigX_raw...". Separate files with already-extracted linescans and peak-heigh-over-time traces are included for any data shown in manuscript. These are titled "FigX_Extracted...".
DOI: 10.22002/1mycw-e4t98
title: NR1769/R1-16 conjugation

description: Grid box YWC234
description: <strong>Tilt Series Date:</strong> 2016-12-08</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain and sample prepared by Carrie Shaffer</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-12-08-99/3dimage_80042/</p>20161208_YWC234_10098_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-12-08-99/3dimage_80042/20161208_YWC234_10098_full.rec"
        > <i class="download icon"></i> Download </a></p>

        20161208_YWC234_10098.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
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DOI: 10.22002/hsbrk-hxe54
title: 411V mass spec

description: CF4Q 30µM CF4Q3µM CheA6µMCheW725 µM Vesicle in Kinase buffer .  [added 2015-09-21 10:47:53] CF4Q 411V30µM CF4Q3µM CheA6µMCheW725 µM Vesicle in Kinase buffer
description: <strong>Tilt Series Date:</strong> 2015-03-30</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Escherichia coli in vitro</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 80.0 eV/Å²,  defocus: 8.0 μm,  magnification: 34000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Lynmarie Thompson</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-03-30-15/rawdata/</p>MassSpec411V2015March0015.mrc,  Tilt Series (Pixel Size 0.32 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-03-30-15/rawdata/MassSpec411V2015March0015.mrc"
        > <i class="download icon"></i> Download </a></p>

        MassSpec411V2015March0015_full.rec,  Reconstruction (Pixel Size 1.28 nm), 445.4 MB  
        
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DOI: 10.22002/t4cvr-bkj13
title: Caulobacter crescentus ftsE del

description: Caulobacter crescentus, ftsE, FtsZ, Long cell, PYE
description: <strong>Tilt Series Date:</strong> 2017-01-17</p>
<strong>Data Taken By:</strong> Qing Yao</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 1.0°, constant angular increment, dosage: 190.0 eV/Å²,  defocus: -12.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> Undefined</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> UCSFTOMO</p>
<strong>Collaborators and Roles:</strong> Goley ED at Johns Hopkins University School of Medicine</p>
  qya2017-01-17-44_zap18970.jpg: dividing cell, cell wall
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2017-01-17-44/rawdata/</p>montage8re5.mrc,  Tilt Series (Pixel Size 0.48 nm), 2.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2017-01-17-44/rawdata/montage8re5.mrc"
        > <i class="download icon"></i> Download </a></p>

        montage8re5_full.rec,  Reconstruction (Pixel Size 1.92 nm), 311.8 MB  
        
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DOI: 10.22002/qf5c0-vza51
title: E.coli minicell/Pul T2SS

description: grid box YWC252strain PAP5359 (minCDE knockout)Cells were grown on plate before freezing
description: <strong>Tilt Series Date:</strong> 2017-05-15</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain provided by Ingrid Guilvout in Olivera Francetic lab</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-05-15-63/3dimage_84636/</p>20170515_YWC252b_10068_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-05-15-63/3dimage_84636/20170515_YWC252b_10068_full.rec"
        > <i class="download icon"></i> Download </a></p>

        20170515_YWC252b_10068.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-05-15-63/rawdata/20170515_YWC252b_10068.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/msm2b-9g817
title: P. aeruginosa T6SS minicell

description: Pseudomonas JT1599Grid box YWC247
description: <strong>Tilt Series Date:</strong> 2017-04-14</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain from Jonida Toska at John Mekalanos lab</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-95/rawdata/</p>20170414_YWC247_10104.mrc,  Tilt Series (Pixel Size 0.39 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-95/rawdata/20170414_YWC247_10104.mrc"
        > <i class="download icon"></i> Download </a></p>

        20170414_YWC247_10104_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-95/3dimage_83858/20170414_YWC247_10104_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.17632/bzp7jdvzyt
title: Effects of Mobile-based Ethnobiology Instruction on Students’ Metacognitive Skills

description: The dataset for this study was generated as part of a quasi-experimental one-group pretest–posttest design investigating the effects of Mobile-based Ethnobiology Instruction (MBEI) on students’ metacognitive skills in biology. Data were gathered from 30 Grade 10 students in a public high school in San Gabriel, La Union, during the third quarter of School Year 2020–2021, through synchronous and asynchronous online distance learning. Students completed the Metacognitive Skills Scale (MSS), which measures knowledge of learning strategies, planning, monitoring, and evaluation, before and after the intervention. Additional qualitative data were obtained from weekly reflection journals and structured interviews, providing insights into students’ self-regulation, motivation, collaboration, and technological self-efficacy. The dataset includes anonymized pretest and posttest scores, coded reflection journal entries, and interview transcripts. These data can be interpreted to evaluate both statistical changes in metacognitive skills and the qualitative themes emerging from students’ learning experiences, and may be used by other researchers to explore links between mobile-based instruction, ethnobiology integration, and metacognitive development in secondary education.
DOI: 10.22002/x09ka-0pv84
title: Vibrio cholerae PM5

description: C6706Z- ∆vc1394 (MCP F9 system- uncat)
description: <strong>Tilt Series Date:</strong> 2015-06-04</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O1 biovar El Tor</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 μm,  magnification: 33000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Simon Ringgaard</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-04-14/rawdata/</p>PM5June0010.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-04-14/rawdata/PM5June0010.mrc"
        > <i class="download icon"></i> Download </a></p>

        PM5June0010_full.rec,  Reconstruction (Pixel Size 1.28 nm), 688.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-04-14/3dimage_58031/PM5June0010_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.17632/bzp7jdvzyt.1
title: Effects of Mobile-based Ethnobiology Instruction on Students’ Metacognitive Skills

description: The dataset for this study was generated as part of a quasi-experimental one-group pretest–posttest design investigating the effects of Mobile-based Ethnobiology Instruction (MBEI) on students’ metacognitive skills in biology. Data were gathered from 30 Grade 10 students in a public high school in San Gabriel, La Union, during the third quarter of School Year 2020–2021, through synchronous and asynchronous online distance learning. Students completed the Metacognitive Skills Scale (MSS), which measures knowledge of learning strategies, planning, monitoring, and evaluation, before and after the intervention. Additional qualitative data were obtained from weekly reflection journals and structured interviews, providing insights into students’ self-regulation, motivation, collaboration, and technological self-efficacy. The dataset includes anonymized pretest and posttest scores, coded reflection journal entries, and interview transcripts. These data can be interpreted to evaluate both statistical changes in metacognitive skills and the qualitative themes emerging from students’ learning experiences, and may be used by other researchers to explore links between mobile-based instruction, ethnobiology integration, and metacognitive development in secondary education.
DOI: 10.15468/dl.295zuq
title: Occurrence Download

description: A dataset containing 275 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cedrus deodara",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 275 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046968-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/apvek-99h14
title: nanowires+type4pili+22500mag+-5d

description: These cells were imaged to detect nanowires (grown using serum bottles) but we did not find them. We found type 4 pili instead.
description: <strong>Tilt Series Date:</strong> 2015-03-06</p>
<strong>Data Taken By:</strong> Poorna Subramanian</p>
<strong>Species / Specimen:</strong> Shewanella oneidensis</p>
<strong>Strain:</strong> MR-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 55.0 eV/Å²,  defocus: -8.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Moh at USC</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-03-06-19/rawdata/</p>atlas1_22500mag0020.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-03-06-19/rawdata/atlas1_22500mag0020.mrc"
        > <i class="download icon"></i> Download </a></p>

        atlas1_22500mag0020_full.rec,  Reconstruction (Pixel Size 1.92 nm), 445.4 MB  
        
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DOI: 10.22002/sc4t7-sga67
title: Unspecified

description: Raw data files of Unspecified
description: <strong>Tilt Series Date:</strong> 2015-11-13</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Unspecified</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 μm,  magnification: 34000x. </p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Batchruntomo</p>
<strong>Collaborators and Roles:</strong> Joe Falke</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Sample unknown; likely ΔcheA with fluorescently-labeled chemoreceptors</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-11-13-3/3dimage_70974/</p>LMEMPosO1manual.rec,  Reconstruction (Pixel Size 1.28 nm), 1.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-11-13-3/3dimage_70974/LMEMPosO1manual.rec"
        > <i class="download icon"></i> Download </a></p>

        LMEMPosO1manual.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-11-13-3/rawdata/LMEMPosO1manual.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/46f0t-zxw30
title: T9_wt

description: This was a sample prepared when Paul visited
description: <strong>Tilt Series Date:</strong> 2017-02-05</p>
<strong>Data Taken By:</strong> Poorna Subramanian</p>
<strong>Species / Specimen:</strong> Porphyromonas gingivalis</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 170.0 eV/Å²,  defocus: -8.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Paul Veith and Eric Reynolds</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2017-02-05-14/rawdata/</p>sq160002.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2017-02-05-14/rawdata/sq160002.mrc"
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        sq160002_part121_1.rec,  Reconstruction (Pixel Size 1.56 nm), 712.7 MB  
        
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        > <i class="download icon"></i> Download </a></p>