cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10722526
title: Tue-strains Julian raw

description: Tue-strains Julian raw, recorded on Bender. Spotted after 1 min.
DOI: 10.17630/3740516e-691b-4ca2-89e0-3e465f8e2552
title: Thionylimide and Related Systems (thesis data)

description: The data files are embargoed until 22/03/2022
DOI: 10.6084/m9.figshare.11987316
title: Using RNA sequencing to identify a putative lncRNA-associated ceRNA network in laryngeal squamous cell carcinoma

description: Accumulating evidence indicates that lncRNAs can interact with miRNAs to regulate target mRNAs through competitive interactions. However, this mechanism remains largely unexplored in laryngeal squamous cell carcinoma (LSCC). In this study, transcriptome-wide RNA sequencing was performed on 3 pairs of LSCC tissues and adjacent normal tissues to investigate the expression profiles of lncRNAs, miRNAs and mRNAs, with differential expression of 171 lncRNAs, 36 miRNAs and 1709 mRNAs detected. Seven lncRNAs, eight mRNAs and three miRNAs were identified to be dysregulated in patients’ tissues by using qRT-PCR. GO and KEGG pathway enrichment analyses were performed to elucidate the potential functions of these differentially expressed genes in LSCC. Subsequently, a ceRNA (lncRNA-miRNA-mRNA) network including 4631 ceRNA pairs was constructed based on predicted miRNAs shared by lncRNAs and mRNAs. Cis- and transregulatory lncRNAs were analysed by bioinformatics-based methods. Importantly, mRNA-related ceRNA networks (mRCNs) were further obtained based on potential cancer-related coding genes. Coexpression between lncRNAs and downstream mRNAs was used as a criterion for the validation of mRCNs, with the ZNF561-AS1-miR217-WNT5A and SATB1-AS1-miR1299-SAV1/CCNG2/SH3 KBP1/JADE1/HIPK2 ceRNA regulatory interactions determined, followed by experimental validation after siRNA transfection. Moreover, ceRNA activity analysis revealed that different activities of ceRNA modules existing in specific pathological environments may contribute to the tumorigenesis of LSCC. Consistently, both downregulated SATB1-AS1 and ZNF561-AS1 significantly promoted laryngeal cancer cell migration and invasion, indicating their important roles in LSCC via a ceRNA regulatory mechanism. Taken together, the results of this investigation uncovered and systemically characterized a lncRNA-related ceRNA regulatory network that may be valuable for the diagnosis and treatment of LSCC.
DOI: 10.15468/gwpvac
title: Megafauna at the Haakon Mosby mud volcano (the Barents Sea) based on image analysis.

description: A photographic survey was carried out during the expedition ARK-XVIII/1b of the research icebreaker R/V Polarstern in August 2002 to the Haakon Mosby Mud Volcano (HMMV). Different habitats inside the volcano caldera and outside were photographed using a towed camera system (Ocean Floor Observation System, OFOS). Four OFOS transects were carried out in total: three across the caldera (I-III) and one outside the caldera (IV) to the south of volcano. The length of each transect was ca. 2 km. 1045 images were used for statistical analyses. Among the analysed images, 894 were taken along the three transects across the caldera and 151 images along the transect outside the volcano. All images within the volcano were taken in the soft-sediment environment. Part of images along the transect outside the volcano were taken on hard substrata (boulders, carbonate rocks and crust). Those images were excluded from the analysis because the aim of our study was to compare fauna from similar sediment environments. All visible nonsymbiotrophic megafauna were counted and identified to the lowest possible taxonomic level.Density was not determined for the two pogonophorans. For these and for bacterial mats we estimated the degree of seafloor area coverage using the laser scale. Identification and ground-truthing was aided by previously collected material and samples taken outside the caldera using an Agassiz trawl and inside the caldera using a box corer, ROV, trap lander and baited traps.
DOI: 10.6084/m9.figshare.8841602
title: Additional file 5: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S4. GO analysis of differentially expressed genes. (XLSX 191 kb)
DOI: 10.17630/d62c8236-0b6f-4d2d-9e79-227d7e8e2d5d
title: Zeolite Catalysts for Nitric Oxide Production (Thesis Data)

description: Thesis data, mainly in Excel or Origin. Main data is EDX values, PXRD data and NO production. 

The data files are embargoed until 19/02/2020
DOI: 10.6084/m9.figshare.8841602.v1
title: Additional file 5: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S4. GO analysis of differentially expressed genes. (XLSX 191 kb)
DOI: 10.6084/m9.figshare.21424515
title: FBXO34 promotes latent HIV-1 activation by post-transcriptional modulation

description: Acquired immunodeficiency syndrome (AIDS) cannot be completely cured, mainly due to the existence of a latent HIV-1 reservoir. However, our current understanding of the molecular mechanisms underlying the establishment and maintenance of HIV-1 latent reservoir is not comprehensive. Here, using a genome-wide CRISPR-Cas9 activation library screening, we identified E3 ubiquitin ligase F-box protein 34 (FBXO34) and the substrate of FBXO34, heterogeneous nuclear ribonucleoprotein U (hnRNP U) was identified by affinity purification mass spectrometry, as new host factors related to HIV-1 latent maintenance. Overexpression of FBXO34 or knockout of hnRNP U can activate latent HIV-1 in multiple latent cell lines. FBXO34 mainly promotes hnRNP U ubiquitination, which leads to hnRNP U degradation and abolishment of the interaction between hnRNP U and HIV-1 mRNA. In a latently infected cell line, hnRNP U interacts with the ReV region of HIV-1 mRNA through amino acids 1-339 to hinder HIV-1 translation, thereby, promoting HIV-1 latency. Importantly, we confirmed the role of the FBXO34/hnRNP U axis in the primary CD4<sup>+</sup> T lymphocyte model, and detected differences in hnRNP U expression levels in samples from patients treated with antiretroviral therapy (ART) and healthy people, which further suggests that the FBXO34/hnRNP U axis is a new pathway involved in HIV-1 latency. These results provide mechanistic insights into the critical role of ubiquitination and hnRNP U in HIV-1 latency. This novel FBXO34/hnRNP U axis in HIV transcription may be directly targeted to control HIV reservoirs in patients in the future.
DOI: 10.6084/m9.figshare.21424515.v2
title: FBXO34 promotes latent HIV-1 activation by post-transcriptional modulation

description: Acquired immunodeficiency syndrome (AIDS) cannot be completely cured, mainly due to the existence of a latent HIV-1 reservoir. However, our current understanding of the molecular mechanisms underlying the establishment and maintenance of HIV-1 latent reservoir is not comprehensive. Here, using a genome-wide CRISPR-Cas9 activation library screening, we identified E3 ubiquitin ligase F-box protein 34 (FBXO34) and the substrate of FBXO34, heterogeneous nuclear ribonucleoprotein U (hnRNP U) was identified by affinity purification mass spectrometry, as new host factors related to HIV-1 latent maintenance. Overexpression of FBXO34 or knockout of hnRNP U can activate latent HIV-1 in multiple latent cell lines. FBXO34 mainly promotes hnRNP U ubiquitination, which leads to hnRNP U degradation and abolishment of the interaction between hnRNP U and HIV-1 mRNA. In a latently infected cell line, hnRNP U interacts with the ReV region of HIV-1 mRNA through amino acids 1-339 to hinder HIV-1 translation, thereby, promoting HIV-1 latency. Importantly, we confirmed the role of the FBXO34/hnRNP U axis in the primary CD4<sup>+</sup> T lymphocyte model, and detected differences in hnRNP U expression levels in samples from patients treated with antiretroviral therapy (ART) and healthy people, which further suggests that the FBXO34/hnRNP U axis is a new pathway involved in HIV-1 latency. These results provide mechanistic insights into the critical role of ubiquitination and hnRNP U in HIV-1 latency. This novel FBXO34/hnRNP U axis in HIV transcription may be directly targeted to control HIV reservoirs in patients in the future.
DOI: 10.6084/m9.figshare.9890180
title: MOESM1 of Cloning and characterization of the lignin biosynthesis genes NcCSE and NcHCT from Neolamarckia cadamba

description: Additional file 1. Additional tables and figures.
DOI: 10.4121/aa0a24fc-b7e2-4e05-b0cb-f1dc2af1c9ac.v1
title: Prometheus: An Open-Source SSCV

description: This data set provides detailed geometrical, inertial and hydromechanic information of Prometheus SSCV. An open-source semi-submersible crane vessel. The rotational inertia of the vessel was estimated based on the work of Peach and Brook [1]. The RAOs were computed using the diffraction code Capytaine [2, 3]. For more information see [4].<br>References:[1] Peach, R., Brook, A. 1987. "The Radii of Gyration of Merchant Ships", in : Proceedings of North East Coast Institute of Engineers and Shipbuilding.[2] Ancellin, M., Dias, F., 2019. "Capytaine: A Python-Based Linear Potential Flow Solver". Journal of Open Source Software 4, 1341. doi:10.21105/joss.01341.[3] Babarit, A., Delhommeau, G., 2015. "Theoretical and Numerical Aspects of the Open Source BEM Solver NEMOH", in: Proceedings of EWTEC, Nantes, France.[4] Domingos, D., Wellens, P., van Wingerden, J.W., 2024. "Frequency-domain framework for floating installation of wind-turbine towers". <br>
DOI: 10.6084/m9.figshare.9890180.v1
title: MOESM1 of Cloning and characterization of the lignin biosynthesis genes NcCSE and NcHCT from Neolamarckia cadamba

description: Additional file 1. Additional tables and figures.
DOI: 10.6084/m9.figshare.21424521
title: First identification of human infection with <i>Erysipelothrix Piscisicarius</i> by metagenomic next-generation sequencing

description: First identification of human infection with <i>Erysipelothrix Piscisicarius</i> by metagenomic next-generation sequencing
DOI: 10.6084/m9.figshare.21424521.v2
title: First identification of human infection with <i>Erysipelothrix Piscisicarius</i> by metagenomic next-generation sequencing

description: First identification of human infection with <i>Erysipelothrix Piscisicarius</i> by metagenomic next-generation sequencing
DOI: 10.6084/m9.figshare.25305115.v1
title: Whole-exome sequencing and functional analysis reveal a PLCD1 novel rare missense variant that confers recurrent spontaneous abortion risk

description: 实验过程中使用HTR8细胞，使用PLCD1基因突变、野生型，未做任何处理的HTR8细胞作为对照组，进行了迁移、侵袭、粘附等功能实验，在细胞中验证了MMP9的表达，以进一步探讨基因突变与复发性流产的机制研究，wewenwenzha文章we文
DOI: 10.6084/m9.figshare.25305115
title: Whole-exome sequencing and functional analysis reveal a PLCD1 novel rare missense variant that confers recurrent spontaneous abortion risk

description: 实验过程中使用HTR8细胞，使用PLCD1基因突变、野生型，未做任何处理的HTR8细胞作为对照组，进行了迁移、侵袭、粘附等功能实验，在细胞中验证了MMP9的表达，以进一步探讨基因突变与复发性流产的机制研究，wewenwenzha文章we文
DOI: 10.15468/eu2rfj
title: Elymus

description: Genus Elymus L. in the flora of Uzbekistan.
DOI: 10.6084/m9.figshare.8841623
title: Additional file 7: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S5. KEGG analysis of differentially expressed genes. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.8841623.v1
title: Additional file 7: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S5. KEGG analysis of differentially expressed genes. (XLSX 16 kb)
DOI: 10.17630/f10bb398-ede1-42d6-82b7-dbe5d9e237d6
title: Data underpinning Francisco Tenopala Carmona's PhD Thesis

description: The data files are embargoed until 20/03/2022
DOI: 10.6084/m9.figshare.8841635
title: Additional file 8: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S6. The classification of integrated analysis results on transcriptome and proteome. (XLSX 308 kb)
DOI: 10.6084/m9.figshare.8841635.v1
title: Additional file 8: of Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus

description: Table S6. The classification of integrated analysis results on transcriptome and proteome. (XLSX 308 kb)
DOI: 10.17630/eed8dad8-836b-40e7-8e57-89c8dabed070
title: Spin- and angle-resolved photoemission study of topological band inversions within a single orbital manifold (Thesis dataset)

description: Dataset for a thesis. All files are in .txt or .nxs formats and can be opened with a text editor. Information on individual data files as well as their relation to thesis figures can be found in the enclosed .xls file. All analysis can be recreated with Igor Pro.

The data files are embargoed until 02/04/2021
DOI: 10.17630/a21df9d8-0298-4360-9c62-9425870a1b28
title: Experiment 3: Signal Strength vs. Response Effector (dataset)

description: The data files are embargoed until 03/06/2020
DOI: 10.6084/m9.figshare.14608820.v1
title: Additional file 1 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 1. The differentially expressed genes between NEFM high-expression group and NEFM low-expression group.
DOI: 10.6084/m9.figshare.14608826
title: Additional file 3 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 3. 28 tumor-infiltrating lymphocytes (TILs) and related gene signatures in TISIDE database.
DOI: 10.6084/m9.figshare.14608820
title: Additional file 1 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 1. The differentially expressed genes between NEFM high-expression group and NEFM low-expression group.
DOI: 10.6084/m9.figshare.14608826.v1
title: Additional file 3 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 3. 28 tumor-infiltrating lymphocytes (TILs) and related gene signatures in TISIDE database.
DOI: 10.6084/m9.figshare.14608823
title: Additional file 2 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 2. The differentially expressed genes between NEFM high-methylation group and NEFM low-methylation group.
DOI: 10.6084/m9.figshare.14608823.v1
title: Additional file 2 of NEFM DNA methylation correlates with immune infiltration and survival in breast cancer

description: Additional file 2. The differentially expressed genes between NEFM high-methylation group and NEFM low-methylation group.
DOI: 10.17630/f7d830a6-aea0-452f-8efc-54fb68f9184c
title: Experiment 2: Signal Duration vs. Task-Irrelevant Stimulation (dataset)

description: The data files are embargoed until 03/06/2020.
DOI: 10.25405/data.ncl.25226174
title: Supplementary Figure 2 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection.
20211119_Pbp2B-Epi_UNCROPPED is the uncropped image for the anti-PBP2B blot with white light epi illumination.
20211119_Pbp2B-increment-30-x10_1_UNCROPPED is the uncropped image for the anti-PBP2B blot with chemiluminescence.
20211119_Pbp2B-increment-30-x10_1_CROPPED is the cropped image for the anti-PBP2B blot with chemiluminescence.
20211119_Spo0J-Epi_UNCROPPED is the uncropped image for the anti-Spo0J blot with white light epi illumination.
20211119_Spo0J-increment-30-x10_1_UNCROPPED is the uncropped image for the anti-Spo0J blot with chemiluminescence.
20211119_Spo0J-increment-30-x10_1_CROPPED is the cropped image for the anti-Spo0J blot with chemiluminescence.
Sfig2_blot_annotated is a ppt file with images of uncropped blots with annotation.
231213_Nov2021_western_sh147_levels_scatter is the figure for Sfig 2b.
Whitley_2024_Sfig2_SourceData contains the data from 231213_Nov2021_western_sh147_levels_scatter (Sfig 2b).
DOI: 10.25405/data.ncl.25226174.v1
title: Supplementary Figure 2 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection.
20211119_Pbp2B-Epi_UNCROPPED is the uncropped image for the anti-PBP2B blot with white light epi illumination.
20211119_Pbp2B-increment-30-x10_1_UNCROPPED is the uncropped image for the anti-PBP2B blot with chemiluminescence.
20211119_Pbp2B-increment-30-x10_1_CROPPED is the cropped image for the anti-PBP2B blot with chemiluminescence.
20211119_Spo0J-Epi_UNCROPPED is the uncropped image for the anti-Spo0J blot with white light epi illumination.
20211119_Spo0J-increment-30-x10_1_UNCROPPED is the uncropped image for the anti-Spo0J blot with chemiluminescence.
20211119_Spo0J-increment-30-x10_1_CROPPED is the cropped image for the anti-Spo0J blot with chemiluminescence.
Sfig2_blot_annotated is a ppt file with images of uncropped blots with annotation.
231213_Nov2021_western_sh147_levels_scatter is the figure for Sfig 2b.
Whitley_2024_Sfig2_SourceData contains the data from 231213_Nov2021_western_sh147_levels_scatter (Sfig 2b).
DOI: 10.6084/m9.figshare.13560281
title: An Open Dataset for Wearable SSVEP-Based Brain-Computer Interfaces

description: The
brain-computer interfaces (BCIs) provide humans a new communication channel by
encoding and decoding brain activities. Steady-state visual evoked potential
(SSVEP)-based BCI stands out among many BCI paradigms because of its
non-invasiveness, little user training, and high information transfer rate
(ITR). However, the use of conductive gel and bulky hardware in the traditional
Electroencephalogram (EEG) method hinder the application of SSVEP-based BCIs.
Besides, continuous visual stimulation in long time use will lead to visual
fatigue and pose a new challenges to the practical application. This study
presents an open dataset collected with a wearable SSVEP-based BCI system that
compared wet and dry electrodes comprehensively with continuous recording of
multiple sessions. The dataset consists of 8-channel SSVEP data from 102
healthy subjects while they performed a cue-guided target selecting task with a
12-target SSVEP-based BCI. For each subject, wet and dry electrodes were used
to record 10 consecutive blocks respectively in an overall duration of around
two hours. The dataset can be used to evaluate the performance of wet and dry
electrodes in SSVEP-based BCIs. The dataset also provide sufficient data for
developing new target identification algorithms to improve the performance of
wearable SSVEP-based BCIs.<br>
DOI: 10.17630/661e6127-c704-4866-945d-b249ff5e66bd
title: Conjugated, Rigidified Bibenzimidazole Ancillary Ligands for Enhanced Photoluminescence Quantum Yields of Orange/Red-Emitting Iridium(III) Complexes (dataset)
DOI: 10.17630/e60bce64-2926-42d4-a69f-91e36ade4629
title: Quantifying regional biodiversity in the tropics: a case study of freshwater fish in Trinidad and Tobago (dataset)

description: Data are from the Trinidad and Tobago freshwater fish assemblage survey, conducted by Dawn Phillip & Anne Magurran in 1997-1998. Each row refers to a different species (current nomenclature used) and each column is a different survey site.
DOI: 10.6084/m9.figshare.14608874
title: Additional file 6 of Postoperative circulating tumor DNA as markers of recurrence risk in stages II to III colorectal cancer

description: Additional file 6: Dataset S1. List of somatic variants in the primary tumors of 240 patients.
DOI: 10.6084/m9.figshare.14608874.v1
title: Additional file 6 of Postoperative circulating tumor DNA as markers of recurrence risk in stages II to III colorectal cancer

description: Additional file 6: Dataset S1. List of somatic variants in the primary tumors of 240 patients.
DOI: 10.6084/m9.figshare.14608877
title: Additional file 7 of Postoperative circulating tumor DNA as markers of recurrence risk in stages II to III colorectal cancer

description: Additional file 7: Dataset S2. Serial ctDNA profiling results of 240 evaluable patients.
DOI: 10.6084/m9.figshare.14608877.v1
title: Additional file 7 of Postoperative circulating tumor DNA as markers of recurrence risk in stages II to III colorectal cancer

description: Additional file 7: Dataset S2. Serial ctDNA profiling results of 240 evaluable patients.
DOI: 10.17630/85ec8d37-ad7e-41c3-bce5-7aa40d9ec56a
title: Towards practical earth abundant reductant catalysis (dataset)

description: Kinetic data and structural data.
DOI: 10.25405/data.ncl.25226189
title: Supplementary Figure 3 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection.
230606_sh147_lb_30c_growth_curve is Sfig 3a (growth across [IPTG]).
230606_sh147_lb_30c_growth_curve_xylose is Sfig 3b (growth across [xylose]).
Whitley_2024_Sfig3_SourceData is the excel file with all growth curve data.
DOI: 10.25405/data.ncl.25226189.v1
title: Supplementary Figure 3 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection.
230606_sh147_lb_30c_growth_curve is Sfig 3a (growth across [IPTG]).
230606_sh147_lb_30c_growth_curve_xylose is Sfig 3b (growth across [xylose]).
Whitley_2024_Sfig3_SourceData is the excel file with all growth curve data.
DOI: 10.17630/750fa720-9bdb-4fe6-8f54-87c54fa1b56f
title: A hybrid fluoride layered perovskite, (enH2)MnF4 (dataset)
DOI: 10.25405/data.ncl.25226273.v1
title: Supplementary Figure 4 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection. 
231127_bWM4_sh147_treadmilling_violin_all_conditions_147first_annotated is Sfig 4.
Whitley_2024_Sfig4_SourceData contains all the data used to produce 231127_bWM4_sh147_treadmilling_violin_all_conditions_147first_annotated.
DOI: 10.6084/m9.figshare.24046092
title: Additional file 1 of Mycobacterium abscessus pulmonary disease presenting with spontaneous pneumomediastinum and subcutaneous emphysema in childhood acute lymphoblastic leukemia: a case report and literature review

description: Additional file 1.
DOI: 10.25405/data.ncl.25226273
title: Supplementary Figure 4 source data

description: This dataset is part of the 'Source data and representative raw data for "Peptidoglycan synthesis drives a single population of septal cell wall synthases during division in Bacillus subtilis"' collection. For a link to the related paper, study-level information and guide to the data, as well as viewing all other related research data, please visit the collection. 
231127_bWM4_sh147_treadmilling_violin_all_conditions_147first_annotated is Sfig 4.
Whitley_2024_Sfig4_SourceData contains all the data used to produce 231127_bWM4_sh147_treadmilling_violin_all_conditions_147first_annotated.