cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/ryc2n-gym57
title: JV9082_K3_janelia

description: JV9082:DotF-sfGFP fusion
description: <strong>Tilt Series Date:</strong> 2019-12-02</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-54.0°, 54.0°), step: 3.0°, constant angular increment, dosage: 90.0 eV/Å²,  defocus: -2.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 4.5 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Data collected at Janelia Krios (K3 camera). Mag: 26000, pixel size: 2.61A. Defocus range -2 to -4 um.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-02-3/rawdata/</p>9082_Box1_No1_S117.mrc,  Tilt Series (Pixel Size 0.261 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-02-3/rawdata/9082_Box1_No1_S117.mrc"
        > <i class="download icon"></i> Download </a></p>

        9082_Box1_No1_S117_part37_2.rec,  Reconstruction (Pixel Size 1.044 nm), 737.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-02-3/3dimage_112453/9082_Box1_No1_S117_part37_2.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/xzwgt-4hv13
title: JV9082_Janelia42k

description: DotF-sfGFP fusion
description: <strong>Tilt Series Date:</strong> 2018-08-29</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-54.0°, 54.0°), step: 3.0°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -7.0 μm,  magnification: 42000x. </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> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal. Janelia Krios.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine.</p>
<strong>Sample Preparation:</strong> 6 grids were frozen for the JV9082 strain (2x concentrated culture); Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 4.5 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2018-08-29-132/rawdata/</p>JV9082_201808290154.mrc,  Tilt Series (Pixel Size 0.26 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2018-08-29-132/rawdata/JV9082_201808290154.mrc"
        > <i class="download icon"></i> Download </a></p>

        JV9082_201808290154_full.rec,  Reconstruction (Pixel Size 1.04 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2018-08-29-132/3dimage_96630/JV9082_201808290154_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/rdc45-2mj97
title: Hpylori_dFliF_FISE

description: These are H_pylori cells that are lacking FliP protein. In these cells, FliF protein was knocked out  .  to examine its relation to the hat-like complex.
description: <strong>Tilt Series Date:</strong> 2020-10-08</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Helicobacter pylori</p>
<strong>Strain:</strong> 26695</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -8.0 μm,  magnification: 19500x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> The cells were prepared and sent by Carrie Schaffer from the university of Kentucky. The cells were grown at 37C with 5% CO2 on sheep blood agar plates for 2 days from a -80C. No growth was seen . on the plates after 24 hr therefore the plates were kept in the . incubator for another 24Hr.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The samples were prepared with Vitrobot IV. Blotting conditions were either: blot force 6, blot . time 3, drain time 1 OR blot force -3, blot time 4, drain time 1, 100%  humidity. Cu grids. 10 nm . gold</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-261/rawdata/</p>Hpylori_DFliF_FISE_255.mrc,  Tilt Series (Pixel Size 0.452 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-261/rawdata/Hpylori_DFliF_FISE_255.mrc"
        > <i class="download icon"></i> Download </a></p>

        Hpylori_DFliF_FISE_255_full.rec,  Reconstruction (Pixel Size 1.808 nm), 737.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-261/3dimage_114001/Hpylori_DFliF_FISE_255_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/qptse-svz69
title: Legionella IcmQ71::TevS 42C_On

description: Legionella IcmQ71::TevS 42C_On (HS004 E)
description: <strong>Tilt Series Date:</strong> 2019-05-31</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-51.0°, 51.0°), step: 3.0°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 42000x. </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> Strain sent to us by Howard Shuman (University of Chicago). Data collected by Debnath Ghosal and Yuxi Liu.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-05-31-38/rawdata/</p>HS004E-area2-tomo0005.mrc,  Tilt Series (Pixel Size 0.26 nm), 996.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-05-31-38/rawdata/HS004E-area2-tomo0005.mrc"
        > <i class="download icon"></i> Download </a></p>

        HS004E-area2-tomo0005_part35_3.rec,  Reconstruction (Pixel Size 1.04 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-05-31-38/3dimage_103706/HS004E-area2-tomo0005_part35_3.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/10q0h-s3a20
title: JV9082_K3_janelia

description: JV9082:DotF-sfGFP fusion
description: <strong>Tilt Series Date:</strong> 2019-12-04</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-54.0°, 54.0°), step: 3.0°, constant angular increment, dosage: 90.0 eV/Å²,  defocus: -3.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 4.5 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Data collected at Janelia Krios (K3 camera). Mag: 26000, pixel size: 2.61A. Defocus range -2 to -4 um.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-04-30/rawdata/</p>9082_Box1_No4_S62.mrc,  Tilt Series (Pixel Size 0.261 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-04-30/rawdata/9082_Box1_No4_S62.mrc"
        > <i class="download icon"></i> Download </a></p>

        9082_Box1_No4_S62_full.rec,  Reconstruction (Pixel Size 1.044 nm), 737.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2019-12-04-30/3dimage_113000/9082_Box1_No4_S62_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/wxf78-ngy18
title: P_aeruginosa_PA14_DfliF_Krios

description: Raw data files of P_aeruginosa_PA14_DfliF_Krios
description: <strong>Tilt Series Date:</strong> 2018-09-29</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (50.0°, -50.0°), step: 2°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -9.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Collaborators and Roles:</strong> I (mohammed) obtained the cells from Shannon Park (Dianne Newman lab). The cells are available in their library of Pseudomonas aeruginosa PA14.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> I inoculated one colony from an LB agar plate and grew the cells overnight in LB with 100 ug/ml of Gentamycin. Then I concentrated the cells three times and mixed them with gold nanoparticles and added 3 ul on to thick carbon R2 grids and blotted them and plunge froze them (force either 6 or 3, time either 3 or 2 seconds respectively, drain time 1 second).</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-09-29-41/rawdata/</p>Pseudomonas_DfliF4.mrc,  Tilt Series (Pixel Size 0.53 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-09-29-41/rawdata/Pseudomonas_DfliF4.mrc"
        > <i class="download icon"></i> Download </a></p>

        Pseudomonas_DfliF4_full.rec,  Reconstruction (Pixel Size 2.12 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-09-29-41/3dimage_97219/Pseudomonas_DfliF4_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.6v6agw
title: Occurrence Download

description: A dataset containing 170669 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Ribes rubrum"
 ]
}

 The dataset includes 170669 records from 1087 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025338-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ks5fv9
title: Occurrence Download

description: A dataset containing 585 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei, Macao, Hong Kong)",
 "OccurrenceStatus is Present",
 "TaxonKey is Amaranthus blitum L."
 ]
}

 The dataset includes 585 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022311-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15601184
title: P vs NP problem

description: Title: Clay Institute Version: Proof of P ≠ NP

Description:This paper presents a formal and rigorous proof resolving the P vs NP Millennium Prize Problem by demonstrating that P ≠ NP. Using foundational results in computational complexity theory—specifically the deterministic time hierarchy theorem and classical diagonalization—we show that there exist problems verifiable in nondeterministic polynomial time that cannot be solved in deterministic polynomial time.

The proof begins by assuming P = NP and then derives a contradiction through the construction of a language that cannot be computed by any deterministic polynomial-time Turing machine. By simulating all such machines and applying diagonalization techniques, the result reveals a strict separation between the complexity classes P and NP. The argument is constructed using only established, verifiable methods consistent with Clay Mathematics Institute standards.

This document is intended for formal peer review and submission under the Clay Millennium Prize guidelines and meets all professional mathematical expectations for publication.

Keywords: P vs NP, Complexity Theory, Computational Complexity, Turing Machines, Diagonalization, Time Hierarchy, NP-complete, Polynomial Time, Millennium Problems, Clay Mathematics Institute
DOI: 10.5281/zenodo.15601185
title: P vs NP problem

description: Title: Clay Institute Version: Proof of P ≠ NP

Description:This paper presents a formal and rigorous proof resolving the P vs NP Millennium Prize Problem by demonstrating that P ≠ NP. Using foundational results in computational complexity theory—specifically the deterministic time hierarchy theorem and classical diagonalization—we show that there exist problems verifiable in nondeterministic polynomial time that cannot be solved in deterministic polynomial time.

The proof begins by assuming P = NP and then derives a contradiction through the construction of a language that cannot be computed by any deterministic polynomial-time Turing machine. By simulating all such machines and applying diagonalization techniques, the result reveals a strict separation between the complexity classes P and NP. The argument is constructed using only established, verifiable methods consistent with Clay Mathematics Institute standards.

This document is intended for formal peer review and submission under the Clay Millennium Prize guidelines and meets all professional mathematical expectations for publication.

Keywords: P vs NP, Complexity Theory, Computational Complexity, Turing Machines, Diagonalization, Time Hierarchy, NP-complete, Polynomial Time, Millennium Problems, Clay Mathematics Institute
DOI: 10.15468/dl.tt74b2
title: Occurrence Download

description: A dataset containing 569 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sphagnum capense Hornsch."
 ]
}

 The dataset includes 569 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022312-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xzz3s6
title: Occurrence Download

description: A dataset containing 1884 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Euterpe edulis"
 ]
}

 The dataset includes 1884 records from 178 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050223-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/24060
title: Chandra X-ray Observatory ObsId 24060

description: Flows of hot Baryons in the Milky Way center: How are fountains & chimneys linked to the Galactic-scale outflow?
DOI: 10.25829/idiv.3576-hskx59
title: NUTRITION nutrient (soil, leachate, aboveground plant biomass) and biomass data from harvests 1 and 2

description: In the NUTRITION Ecotron experiment we experimentally manipulated resource area and concentration to create an inequality gradient quantified by the Gini coefficient to assess the influences on the diversity and functioning of model grassland communities.
DOI: 10.25403/upresearchdata.29245094
title: Analysis of neutrophil cell-viability, neutrophil degranulation and neutrophil reactive oxygen species generation post lopinavir and dolutegravir exposure

description: The aim of the study was to determine the pro-inflammatory effects of the drugs lopinavir and dolutegravir (comparator) on isolated human neutrophils. The pro-inflammatory effects investigated were neutrophil degranulation as well as reactive oxygen species generation. Spectrophotometry and luminol-enhanced chemiluminescence were utilised. The effects of the drugs on intracellular calcium fluxes were also investigated using spectrofluorimetry.
DOI: 10.25403/upresearchdata.29245094.v1
title: Analysis of neutrophil cell-viability, neutrophil degranulation and neutrophil reactive oxygen species generation post lopinavir and dolutegravir exposure

description: The aim of the study was to determine the pro-inflammatory effects of the drugs lopinavir and dolutegravir (comparator) on isolated human neutrophils. The pro-inflammatory effects investigated were neutrophil degranulation as well as reactive oxygen species generation. Spectrophotometry and luminol-enhanced chemiluminescence were utilised. The effects of the drugs on intracellular calcium fluxes were also investigated using spectrofluorimetry.
DOI: 10.7910/dvn/bw2ueg
title: Emotion analysis data of LATEA framework

description: Emotion analysis data of LATEA framework, including source texts and emotional data by LLMs.
DOI: 10.15468/dl.naztsq
title: Occurrence Download

description: A dataset containing 203 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aechmea floribunda Mart. ex Schult. & Schult.f."
 ]
}

 The dataset includes 203 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022491-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a9sche
title: Occurrence Download

description: A dataset containing 1357 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aquilegia coerulea coerulea"
 ]
}

 The dataset includes 1357 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006964-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gnvzh4
title: Occurrence Download

description: A dataset containing 196160 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Potentilla sterilis"
 ]
}

 The dataset includes 196160 records from 996 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006859-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/tp3-r3r-76h
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/35e-790-txl
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/llf-a1q-zj9
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ny0-zr5-hky
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/40q-3yk-sm9
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ks6-nyf-l0s
title: Amaranthus albus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.