cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.zkh1893pc
title: Data from: Improved specificity and efficiency of in vivo adenine base editing therapies with hybrid guide RNAs

description: Phenylketonuria (PKU), pseudoxanthoma elasticum (PXE), and hereditary
 tyrosinemia type 1 (HT1) are autosomal recessive disorders linked to the
 PAH, ABCC6, and FAH and HPD genes, respectively. Here we evaluated the
 off-target editing profiles of clinical lead guide RNAs (gRNAs) that, when
 combined with adenine base editors (ABEs), correct the
 recurrent PAH P281L variant, PAH R408W variant,
 or ABCC6 R1164X variant or disrupt either of two sites
 in the HPD gene (a modifier gene of HT1) in human
 hepatocytes. To mitigate off-target mutagenesis, we systematically
 screened hybrid gRNAs with DNA nucleotide substitutions. Comprehensive and
 variant-aware specificity profiling of these hybrid gRNAs revealed
 dramatically reduced off-target editing and reduced bystander editing in
 cells. In humanized PAH P281L and ABCC6 R1164X
 mouse models of PKU and PXE, we showed that when formulated in lipid
 nanoparticles (LNPs) with ABE mRNA, selected hybrid gRNAs reverted disease
 phenotypes, reduced off-target editing, increased on-target editing, and
 reduced bystander editing in vivo. These studies highlight the
 utility of hybrid gRNAs to improve the safety and efficiency of adenine
 base editing therapies. We performed ONE‑seq in this manuscript, and here
 is the original dataset for all the ONE‑seq experiments conducted for this
 study.
description: # Data from: Improved specificity and efficiency of in vivo adenine base
 editing therapies with hybrid guide RNAs Dataset DOI:
 [10.5061/dryad.zkh1893pc](10.5061/dryad.zkh1893pc) ## Description of the
 data and file structure We performed ONE‑seq in the study titled
 **“Improved Specificity and Efficiency of In Vivo Adenine Base Editing
 Therapies with Hybrid Guide RNAs.”** Here is the original dataset for all
 ONE‑seq experiments conducted for this work. In each tab, the tab name
 corresponds to the ONE-seq name. Within each tab: * **Column A** contains
 the aligned sequence in each ONE-seq library. * **Column B** shows the
 chromosome location of the sequence in Column A. * **Column C** indicates
 the orientation of the sequence in Column A. * **Column D** provides the
 mismatch information of the sequence compared to the on-target sequence. *
 **Column E** lists the calculated ONE-seq score. ## Code/software The
 analysis pipeline described in the paper below was used to process the
 data. It assigned a score to each potential off‑target site, quantifying
 the editing efficiency relative to the on‑target site. Sites were ranked
 based on this ONE-seq score, which was used for site prioritization.
 Petri, K. et al. *Global-scale CRISPR gene editor specificity profiling by
 ONE-seq identifies population-specific, variant off-target effects*.
 Preprint at
 [https://www.biorxiv.org/content/10.1101/2021.04.05.438458v1](https://www.biorxiv.org/content/10.1101/2021.04.05.438458v1) (2021).
DOI: 10.15468/dl.zeh3rp
title: Occurrence Download

description: A dataset containing 5210 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "OccurrenceStatus is Present",
 "TaxonKey is Triatoma dimidiata"
 ]
}

 The dataset includes 5210 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004447-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18408200
title: Extensive Crustal Magma Storage Beneath the Broad Changbaishan Intraplate Volcanic Field (China–North Korea) Revealed by Synchronous and Asynchronous Ambient Noise Imaging

description: This dataset contains the two-station and three-station interferograms, Rayleigh-wave phase-velocity dispersion data at each grid node, and the final 3-D S-wave velocity model for our research paper "Extensive Crustal Magma Storage Beneath the Broad Changbaishan Intraplate Volcanic Field (China–North Korea) Revealed by Synchronous and Asynchronous Ambient Noise Imaging".
DOI: 10.5281/zenodo.17542133
title: Extensive Crustal Magma Storage Beneath the Broad Changbaishan Intraplate Volcanic Field (China–North Korea) Revealed by Synchronous and Asynchronous Ambient Noise Imaging

description: This dataset contains the two-station and three-station interferograms, Rayleigh-wave phase-velocity dispersion data at each grid node, and the final 3-D S-wave velocity model for our research paper "Extensive Crustal Magma Storage Beneath the Broad Changbaishan Intraplate Volcanic Field (China–North Korea) Revealed by Synchronous and Asynchronous Ambient Noise Imaging".
DOI: 10.15468/dl.5qktng
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pelmatosphaera polycirri",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004448-260126135527185/datasets/export for details.
DOI: 10.5061/dryad.zcrjdfnrv
title: Efficacy of a novel galvanic shark deterrent to reduce catch of elasmobranchs in longline fisheries

description: Juxtaposing zinc and graphite together produces a galvanic electric field
 in seawater that may deter electrosensitive species, and thus reduce
 elasmobranch capture on longlines. The number of coastal carcharhiniform
 sharks caught on untreated and procedural control treatments did not
 differ, but significantly fewer sharks were caught on the zinc/graphite
 treatment (14.5%) compared to the procedural control (38.4%) and the
 untreated hook (47.1%). This translates to a 62.3-69.5% reduction in
 sharks caught on the zinc/graphite treatment. There was no significant
 difference in catch among the zinc/graphite and control treatments for
 piked dogfish. Too few sharks were captured in the pelagic trials to allow
 statistical comparison; however, capture of targeted bony fishes was
 highest on hooks with the zinc/graphite treatment, suggesting no negative
 effect on target catch rates. The difference in efficacy between
 carcharhiniform sharks and dogfish indicates the behavioral response to
 this deterrent may vary among elasmobranchs. Large-scale testing of the
 zinc/graphite treatment in pelagic fisheries is needed to establish
 whether it is a viable option to reduce shark bycatch and increase
 profitability in commercial fisheries.
description: # Efficacy of a novel galvanic shark deterrent to reduce catch of
 elasmobranchs in longline fisheries Dataset DOI:
 [10.5061/dryad.zcrjdfnrv](10.5061/dryad.zcrjdfnrv) ## Description of the
 data and file structure Sheet 1: Electric field measurements of
 zinc/graphite treatment at various distances from the recording electrode.
 Ten trials were conducted with measurements taken in random order. Voltage
 measurements were recorded as milliVolts. Sheet 2: Coastal fishing trial
 results. A total of 47 longline sets were conducted, each with a total of
 60 hooks. For each treatment type, the number of sharks, teleosts, and
 empty hooks was recorded for every set. The total number of hooks and the
 total number of sharks were used to calculate the CPUE (sharks/1000
 hooks). Sheet 3: Commercial fishing trial results. Column 1 is the set
 number, column 2 is the treatment (control, zinc/graphite, plastic),
 column 3 is the result (catch or no bait), and column 4 is the species.
 ### Files and variables #### File: Raw_data.xlsx **Description:** Electric
 field measurements and fishing trial results ##### Variables * Electric
 field measurements: distance from recording electrode (cm) and voltage
 (mV) for 10 trials * Number of sharks, teleosts, and empty hooks for 3
 treatments in 47 sets. * Set number, treatment (control, zinc/graphite,
 plastic), result (catch, no bait), and species
DOI: 10.5061/dryad.f1vhhmh8b
title: Data from: Effects of danger cues on mating interactions are size dependent in freshwater crayfish

description: Non-consumptive effects (NCEs) can have substantial effects on prey
 populations. For example, they may alter mating interactions or interfere
 with foraging behavior, with potential repercussions for the
 entire community. Crayfish, the dominant macroinvertebrates in many
 temperate freshwater ecosystems, are prey to many aquatic and terrestrial
 species, and show behavioral responses to both predator and conspecific
 alarm cues. However, effects of danger cues on mating interactions have
 not been investigated. We exposed heterosexual pairs of Faxonius virilis
 to conspecific alarm cues in the mating season and compared their
 interactions with those of unexposed pairs. We found that almost all
 crayfish in both groups mated within the experimental period, but latency
 to begin mating varied with treatment and body size. Specifically, in the
 exposed group, small pairs showed increased latency to begin mating
 relative to larger pairs, while crayfish in the unexposed group showed the
 opposite pattern. Thus, crayfish responses to danger cues may be a
 function of their perceived risk based on body size, as smaller crayfish
 are likely to be more vulnerable to predators. We propose that, under
 natural conditions including the presence of mate competition, an
 increased latency to begin mating is likely to result in decreased mating
 success for smaller crayfish in the presence of danger cues. Such
 behavioral NCEs may result in differential selection on body size in
 environments with different predator pressure with consequent effects on
 crayfish populations and aquatic communities.
description: # Data from: Effects of danger cues on mating interactions are size
 dependent in freshwater crayfish Greta Achenbach, Josephine Conlon, Divya
 Kumar, Madeleine Ruley, Brooke Struble, Lauren Mathews Department of
 Biology, Worcester Polytechnic Institute, Worcester, MA 01609, USA\
 Corresponding author (LM): [lmathews@wpi.edu](mailto:lmathews@wpi.edu),
 Orcid ID:
 [https://orcid.org/0000-0001-5966-570X](https://orcid.org/0000-0001-5966-570X) Dataset DOI: [10.5061/dryad.f1vhhmh8b](10.5061/dryad.f1vhhmh8b) ## Description of the data and file structure All data are included in a single .csv file. The dataset includes information on crayfish body size as well as behavioral interactions, including whether or not pairs mated, and if they did so, how long it took them to begin mating (latency) and how long that mating event lasted. ### Files and variables #### File: data_for_BE_manuscript_2025.csv * maleID * femaleID * condition (1=treated, 2=control) * maleCP (male carapace length in mm) * femaleCP (female carapace length in mm) * mating (whether or not mating occurred, 0=mated, 1= did not mate) * latency (time to begin mating in seconds; N/A=did not mate) * duration (duration of first mating in seconds; 0=did not mate) ## Code/software Any program that can read a .csv file can be used.
DOI: 10.5517/ccdc.csd.cc2qp79z
title: CCDC 2522851: Experimental Crystal Structure Determination

description: Related Article: Dongqiu Li, Jiale Wu, LuLu Yang, Shuangshuang Cai, Yuhai Tang, Yang Li, Silong Xu|2024|Org.Lett.|27|51|doi:10.1021/acs.orglett.4c03842
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2qp7b0
title: CCDC 2522852: Experimental Crystal Structure Determination

description: Related Article: Dongqiu Li, Jiale Wu, LuLu Yang, Shuangshuang Cai, Yuhai Tang, Yang Li, Silong Xu|2024|Org.Lett.|27|51|doi:10.1021/acs.orglett.4c03842
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2qp7c1
title: CCDC 2522853: Experimental Crystal Structure Determination

description: Related Article: Dongqiu Li, Jiale Wu, LuLu Yang, Shuangshuang Cai, Yuhai Tang, Yang Li, Silong Xu|2024|Org.Lett.|27|51|doi:10.1021/acs.orglett.4c03842
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mfh4q
title: CCDC 2426033: Experimental Crystal Structure Determination

description: Related Article: Yajuan Zhang, Meng Chang, Yu Lei, Qiong Hu, Zhongwei Xu, Yimin Hu|2026|Chem.Asian J.|21|e70598|doi:10.1002/asia.70598
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.zwtbc7
title: Occurrence Download

description: A dataset containing 24123 records in GBIF matching the query:
SELECT
 '519' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 51.21395264452012
 AND decimalLatitude &lt;= 56.135291543055025
 AND decimalLongitude &gt;= 80.17725619669127
 AND decimalLongitude &lt;= 93.5416324485818
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 24123 records were derived from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004442-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.4mw6m90q5
title: <em>Strobilanthes sharavathiensis</em> (Acanthaceae), a new species from Ambaragudda, a high-altitude shola grassland, central Western Ghats, Karnataka, India

description: Strobilanthes sharavathiensis, a newly discovered species from the
 high-altitude shola grasslands of the Sharavathi river basin in the
 central Western Ghats, is described and illustrated. Morphologically, this
 species is closely allied to Strobilanthes jomyi, particularly in its
 pendulous spike inflorescence, exerted stamens, and glandular hairs near
 the capsule apex. However, it is distinct in having smaller leaves,
 crenate-margined bracts, distinctive longer hairs on each bract notch,
 shorter inflorescence, a non-villous peduncle during the fruiting stage,
 black dots on the calyx, and the unique colouration of bracts. This is
 also similar to Strobilanthes ixiocephala in its echinulate, spheroidal
 pollen and differs in its pendulous inflorescence, exerted stamens, and
 non-viscid bracts. The pollen morphology is also considered as a critical
 diagnostic feature for describing this as a new species. Comprehensive
 notes on its taxonomy, ecology, conservation status, and distinguishing
 characters with other interspecific species in the location are also
 provided.
description: # *Strobilanthes sharavathiensis* (Acanthaceae), a new species from
 Ambaragudda, a high-altitude shola grassland, central Western Ghats,
 Karnataka, India Dataset DOI:
 [10.5061/dryad.4mw6m90q5](10.5061/dryad.4mw6m90q5) ## Description of the
 data and file structure This dataset supports the formal taxonomic study
 and description of a new species of *Strobilanthes* from Ambaragudda,
 located in the central Western Ghats, India. The data were collected
 through extensive fieldwork focused on floristic documentation and
 morphological analysis. The holotype specimen included here represents the
 primary reference material for the species and was critical in
 establishing its distinct identity within the genus. Comparative studies
 with closely related taxa were conducted using available literature, a few
 live encounters and an online herbarium specimen to confirm diagnostic
 characters. ### Files and variables #### File: Holotype.jpg
 **Description:** The specimen collected from Ambaragudda, Sharavathi river
 basin, central Western Ghats. This was deposited in UASB.
DOI: 10.21947/3014814
title: WINDPROF: Merged Best-Estimate Wind Profile Data – Rhode Island (WFIP3 Campaign)

description: WINDPROF provides 10-minute wind and turbulence profiles, integrating Doppler lidars, wind profiling radars, and sonic anemometers across Northeast U.S. coastal/offshore sites during the WFIP3 campaign. Key data include wind speed, direction, vertical velocity, and turbulence parameters, with standardized quality control (e.g., instrument-specific thresholds and inter-instrument validation). Profiles are interpolated to a height grid (20 m spacing below 100 m; 30 m above) and include comprehensive uncertainty estimates. The Rhode Island dataset covers February 2024–September 2025, offering reproducible methods for atmospheric research, model validation, and wind energy studies.
DOI: 10.5061/dryad.vmcvdnd55
title: High-speed photoacoustic and ultrasonic computed tomography of the breast tumor for early diagnosis with enhanced accuracy

description: We have developed a high-speed dual-modal imaging system (HDMI), designed
 to concurrently reveal anatomical and hematogenous details of the human
 breast within seconds. Through innovative system design and technical
 advancements, HDMI integrates large-view photoacoustic and ultrasonic
 computed tomography with standardized scanning and batch data processing
 for computer-aided diagnosis. It achieves dual-modal imaging at a 10 Hz
 frame rate and completes a whole-breast scan in 12 seconds, providing
 penetration up to 5 cm in vivo. In a clinical study involving 170 patients
 with 186 breast tumors, we developed a diagnostic model leveraging
 combined photoacoustic and ultrasound features. In a triple-blinded
 comparison using pathological diagnosis as the ground truth, HDMI
 significantly improved diagnostic specificity from 22.5% to 75.0% compared
 to clinical ultrasonography. This technology shows strong potential for
 early breast tumor diagnosis, offering enhanced accuracy without the need
 for ionizing radiation, exogenous contrast agents, pain, invasiveness,
 operator dependence, or extended examination times.
description: # High-speed photoacoustic and ultrasonic computed tomography of the
 breast tumor for early diagnosis with enhanced accuracy Dataset DOI:
 [10.5061/dryad.vmcvdnd55](10.5061/dryad.vmcvdnd55) ## Description of the
 data and file structure We shared Photoacoustic Computed Tomography (PACT)
 and Ultra-Resolution Computed Tomography (URCT) imaging data of 161 human
 breast tumors (ground truth population), capturing both anatomical and
 hematogenous characteristics of the lesions. ### Files and variables ####
 File: DATA.zip **Description:**  The PACT and URCT images of 161 human
 breast tumors, comprising a total of 322 “.mat” files. ## Code/software
 All data files can be opened in MATLAB. ## Human subjects data This study
 was approved by the Ethics Committees of Zhejiang University (2023-001)
 and the First Affiliated Hospital, Zhejiang University School of Medicine
 (IIT20230241B). All participants signed informed consent forms. All HDMI
 data files were de-identified, with personal identifiers removed and coded
 labels used to ensure confidentiality.
DOI: 10.15468/dl.hy2xgb
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ciliocincta julini",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004449-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.r4xgxd2rz
title: Multiple full-length variants of the Mitochondrial COI DNA Barcode Region are prevalent in North European Sawflies

description: DNA barcoding, the use of standard DNA fragment for species
 identification, has emerged as a major field of biodiversity research. The
 effectiveness of these approaches rests on the premise that much less
 variation exists within species than between them. While exceptions occur,
 this has been demonstrated in many animal taxa where the COI gene is
 effective in species discrimination. Sawflies are an exception to this
 pattern because DNA barcodes often fail to distinguish congeneric species.
 Using high-throughput single-molecule DNA sequencing to recover COI
 sequences from thousands of sawflies, we found that single individuals
 often possess multiple, seemingly functional, full-length DNA barcodes – a
 phenomenon not documented at similar prevalence in any animal taxon. While
 the evolutionary causes of multiple variants require further
 investigation, our observation is remarkable as it violates the
 one-barcode-one-specimen assumption. The presence of multiple variants of
 barcodes within individuals does not jeopardize the concept, but it
 introduces a complexity for species inventories based on metabarcoding.
 They will overestimate the species count when barcode-based operational
 species units are used as species proxies. Similarly, reference libraries
 must consider how best to deal with the high frequency of multiple
 intraindividual variants.
description: # Multiple full-length variants of the Mitochondrial COI DNA Barcode
 Region are prevalent in North European Sawflies Dataset DOI:
 [10.5061/dryad.r4xgxd2rz](10.5061/dryad.r4xgxd2rz) ## Description of the
 data and file structure Reference sawfly COI sequences in fastA format ###
 Files and variables #### File: DatasetS3.fas **Description:** Reference
 sawfly COI protein sequences in fastA used for re-identification of PacBio
 reads. #### File: DatasetS2.fas **Description:** Reference sawfly COI
 sequences in fastA format used for re-identification of PacBio reads. 
 #### File: DatasetS4.fas **Description:** Sawfly specimens with
 intraindividual COI variants (fastA alignment used to build the tree in
 Fig. S1) after the most stringent filtering steps (sequences supported by
 at least three reads, with minimum of two differences between the
 intraindividual variants, no contaminations, no variants identifiable as
 NUMTs, no chimeras).
DOI: 10.15468/dl.gbm9a3
title: Occurrence Download

description: A dataset containing 83 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Leptosema bossiaeoides",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 83 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004450-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.