cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10261258
title: Phylum Cnidaria (Anthozoa: Hexacorallia) CANTATA Transcriptomes

description: CANTATA is a Community bAsed Non-bilaTeriAn Transcriptome Archive aiming to provide an archive of non-bilaterian transcriptomic resources assembled and annotated in a standardized manner.
 
In this repository, we provide the transcriptomes assemblies corresponding to the Phylum Cnidaria (Class Anthozoa, Subclass Hexacorallia).
 
Currently, the following species are available:

Acropora aculeus
Acropora cervicornis
Acropora digitifera
Acropora millepora
Acropora tenuis
Actinia tenebrosa
Agaricia lamarcki
Alveopora japonica
Anemonia sulcata
Anemonia viridis
Anthopleura dowii
Anthopleura elegantissima
Antipathes caribbeana
Aulactinia veratra
Calliactis polypus
Coelastrea aspera
Condylactis gigantea
Corynactis australis
Ctenactis echinata
Cyphastrea serailia
Dipsastraea rotumana
Edwardsiella carnea
Entacmaea quadricolor
Favites acuticollis
Fungia fungites
Galaxea astreata
Goniastrea retiformis
Goniopora columna
Heteractis crispa
Lobactis scutaria
Megalactis griffithsi
Montastraea cavernosa
Montipora aequituberculata
Montipora capitata
Montipora digitata
Nematostella vectensis
Palythoa caribaeorum
Palythoa variabilis
Plesiastrea versipora
Plumapathes pennacea
Pocillopora damicornis
Porites astreoides
Porites australiensis
Porites lobata
Porites lutea
Protopalythoa variabilis
Pseudodiploria strigosa
Rhodactis indosinensis
Seriatopora hystrix
Siderastrea siderea
Stichodactyla haddoni
Stichodactyla helianthus
Tubastraea coccinea
The details about the read files used to assemble each transcriptome can be found at the CANTATA repository (https://gitlab.lrz.de/palmuc/cantata)
DOI: 10.5281/zenodo.17378468
title: Transcriptomic profile of mouse liver in an HCC model after treatment with DNA-loaded lipid nanoparticles

description: The study focus on the characterization of the molecular mechanisms underlying the antitumor activity induced by DNA-loaded lipid nanoparticles (DNA–LNPs) in a mouse model of hepatocellular carcinoma. The transcriptomic profiles of livers from vehicle- and DNA–LNP–treated mice were compared using the nCounter® PanCancer Mouse IO 360 Panel (NanoString). 
description: Growth protocol: Mice were maintained at the animal facility of the School of Medicine at the University of Barcelona in a specific pathogen free facility in accordance with an approved Animal Care and Use Protocol. 

Treatment protocol: A genetically engineered mouse model (GEMM) of HCC was generated by delivering oncogene constructs to hepatocytes by using the hydrodynamic transfection technique. Briefly, pT3-EF1a–c-MET (20 μg), pT3-EF1a–ΔN90-β-catenin (20 μg), pT3-Gluc (4 μg) and HSB2 (4.4 μg) were diluted in saline solution (Braun) in a total volume of 1mL per mouse. This volume was adjusted to a 10% of each mouse body weight at the moment of administration (approximately 2mL) and injected over 5-7 seconds into the lateral tail veins. Hepatocellular carcinoma mice were treated with a single intravenous injection of either vehicle (PBS) or DNA–lipid nanoparticles (LNPs) at 1 µg of dose in a total volume of 100 µL. 

Extract protocol: Livers from treated mice were harvested 5 and 14 days post treatment, snap frozen on dry ice and kept at -80°C for later manipulations. Frozen livers were disrupted and homogenized using the TissueLyser LT technology (Qiagen). RNA was isolated by using the RNeasy mini kit (Qiagen) following manufacturer's protocol.

Label protocol: According to manufacturer's protocol (Nanostring)

Data processing:  Data analysis was conducted using the nSolver 4.0 software and gene expression levels were normalized against the housekeeping genes

 

 
description: The ZIP archive contains the raw RCC files generated by the NanoString nCounter system, along with a metadata spreadsheet detailing sample information and the corresponding expression matrix result.
DOI: 10.5281/zenodo.17494146
title: Quaternary aminostratigraphies for the eastern North European Plain.

description: This is the accompanying dataset for:

Ellie Nelson, Dustin White, Lucy Wheeler, Stefan Meng, Marcin Szymanek, Jaqueline Strahl, Michael Hein, Witold P. Alexandrowicz, Brigitte Urban, Samantha Greeves, Ralf Dietrich Kalke, Mareike Stahlsschmidt, Tobias Lauer, David C. Tanner, and Kirsty E.H. Penkman (In submission). Quaternary aminostratigraphies for the eastern North European Plain.

The dataset contains results from ICPD analysis of opercula from Quaternary desposits within the eastern North European Plain, and the correlated pollen zones used to compare the extent of IcPD within an interglacial.
DOI: 10.5281/zenodo.10804051
title: Undetermined Non-Bilaterian CANTATA Transcriptomes

description: CANTATA is a Community bAsed Non-bilaTeriAn Transcriptome Archive aiming to provide an archive of non-bilaterian transcriptomic resources assembled and annotated in a standardized manner.

 

In this repository, we provide the transcriptomes assemblies corresponding to different undetermined non-bilaterian animals. In all cases, the specimens can be assigned to a Phylum. Some specimens are determined to genus level. We include these specimens for completeness and leave the user the decision to use them or not in their analyses.

Currently, the following species are available:

 

 

The details about the read files used to assemble each transcriptome can be found at the CANTATA repository (https://gitlab.lrz.de/palmuc/cantata)
DOI: 10.15468/dl.h2w8j3
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sadleriana pannonica",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038179-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cp44gb
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sabanejewia bulgarica",
 "HasCoordinate is true"
 ]
}

 The dataset includes 46 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038180-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xsu4ha
title: Occurrence Download

description: A dataset containing 484 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sabanejewia balcanica",
 "HasCoordinate is true"
 ]
}

 The dataset includes 484 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038181-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/hdk-hq0-49p
title: Holcophylloceras

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vcf-mjr-rd7
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/sfp-typ-x2p
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/y3m-75h-kwf
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/g55-sk4-wzf
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zd0-gw5-4rj
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aw6-2re-qcv
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dzd-69q-qqq
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jjj-skj-9d4
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0c3-dsb-lft
title: †Belemnitida

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ygz-n97-ap0
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2xz-l9z-wf3
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8ls-bvv-366
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.29264867.v2
title: Acetate imparts resistance to oxidative stress in <i>Neisseria meningitidis</i>

description: <i>Neisseria meningitidis </i>utilizes host acetate to develop oxidative stress resistance by upregulating the oxidative stress response genes. In presence of acetate meningococci suppress the macrophage ROS and RNS production to persist longer inside the macrophages.
DOI: 10.3535/7wp-2mm-6bq
title: Duvalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0gd-hq2-ngy
title: Belemnites

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mt9-sqt-hfc
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4kh-d6t-6ax
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/c5d-hel-208
title: †Belemnitida

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7gy-5tq-spk
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zrx-ba5-fbq
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fs7-nkc-aa2
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mls-rsl-0jw
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/01h-7t7-h8w
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25574/23565
title: Chandra X-ray Observatory ObsId 23565

description: Locating the Ejected Envelopes of Massive Stars: Followup Observations of Stripped Envelope Supernovae
DOI: 10.3535/tz2-wyl-9yf
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vwv-pg8-1t2
title: †Gervillia Defrance, 1820

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7yc-5vx-q45
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.xgxm6w
title: Occurrence Download

description: A dataset containing 61368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-60 -2.95,-59.85 -2.95,-59.85 -2.83,-60 -2.83,-60 -2.95))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 61368 records from 205 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012115-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vsqtqu
title: Occurrence Download

description: A dataset containing 772 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Diospyros sumatrana Miq."
 ]
}

 The dataset includes 772 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011024-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15538299
title: ParamScope-apps-dataset

description: Update: We have uploaded the apk dataset in ParamScope repository, You can ignore the dataset here. See https://zenodo.org/records/15546562 for details.

 

The apps dataset of ParamScope.



To avoid too large files in one repository. We have uploaded the 327 apks to the separate repository



 



Paper Abstract:

 

Cryptographic API misuses, such as the use of predictable secrets or insecure cryptographic algorithms, have led to numerous incidents involving data breaches, financial theft, and privilege escalation in real-world applications. These consequences highlight the critical importance of detecting cryptographic misuses. Most existing studies focus on identifying such issues through the analysis of API parameter values. However, dynamic detection approaches often suffer from low code coverage, which limits their ability to cover all misuse instances. As a result, increasing attention has been given to static approaches. Nevertheless, these static methods also exhibit notable limitations, as they typically focus on direct parameter value propagation while ignoring values that are transformed through expressions or method calls. These semantically dynamic values are often opaque to static analysis, leading to significant blind spots and an underestimation of existing static tools.



To address the aforementioned limitations, this paper presents ParamScope, a static analysis tool for cryptographic API misuse detection. ParamScope first obtains high-quality Intermediate Representation (IR) and comprehensive coverage of cryptographic API calls through fine-grained static analysis. It then performs assignment-driven program slicing and lightweight IR simulation to reconstruct the complete propagation and assignment chain of parameter values. This approach enables effective analysis of value assignments that can only be determined at runtime, which are often missed by existing static analysis, while also addressing the coverage limitations inherent in dynamic approaches. We evaluated ParamScope by comparing it with leading static and dynamic tools, including CryptoGuard, CrySL, and RvSec, using four cryptographic misuse benchmarks and a dataset of 327 Google Play applications. The results show that ParamScope outperforms the other tools, achieving an accuracy of 96.22% and an F1-score of 96.85%. In real-world experiments, ParamScope identifies 27% more misuse cases than the best-performing tools, while maintaining a comparable analysis time.
DOI: 10.5281/zenodo.15538300
title: ParamScope-apps-dataset

description: Update: We have uploaded the apk dataset in ParamScope repository, You can ignore the dataset here. See https://zenodo.org/records/15546562 for details.

 

The apps dataset of ParamScope.



To avoid too large files in one repository. We have uploaded the 327 apks to the separate repository



 



Paper Abstract:

 

Cryptographic API misuses, such as the use of predictable secrets or insecure cryptographic algorithms, have led to numerous incidents involving data breaches, financial theft, and privilege escalation in real-world applications. These consequences highlight the critical importance of detecting cryptographic misuses. Most existing studies focus on identifying such issues through the analysis of API parameter values. However, dynamic detection approaches often suffer from low code coverage, which limits their ability to cover all misuse instances. As a result, increasing attention has been given to static approaches. Nevertheless, these static methods also exhibit notable limitations, as they typically focus on direct parameter value propagation while ignoring values that are transformed through expressions or method calls. These semantically dynamic values are often opaque to static analysis, leading to significant blind spots and an underestimation of existing static tools.



To address the aforementioned limitations, this paper presents ParamScope, a static analysis tool for cryptographic API misuse detection. ParamScope first obtains high-quality Intermediate Representation (IR) and comprehensive coverage of cryptographic API calls through fine-grained static analysis. It then performs assignment-driven program slicing and lightweight IR simulation to reconstruct the complete propagation and assignment chain of parameter values. This approach enables effective analysis of value assignments that can only be determined at runtime, which are often missed by existing static analysis, while also addressing the coverage limitations inherent in dynamic approaches. We evaluated ParamScope by comparing it with leading static and dynamic tools, including CryptoGuard, CrySL, and RvSec, using four cryptographic misuse benchmarks and a dataset of 327 Google Play applications. The results show that ParamScope outperforms the other tools, achieving an accuracy of 96.22% and an F1-score of 96.85%. In real-world experiments, ParamScope identifies 27% more misuse cases than the best-performing tools, while maintaining a comparable analysis time.
DOI: 10.15468/dl.d6ubep
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Osmeriformes",
 "Geometry POLYGON ((26.9648 10.8496, 17.9648 10.8496, 17.9648 1.8496, 26.9648 1.8496, 26.9648 10.8496))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008230-250525065834625/datasets/export for details.
DOI: 10.15468/dl.mk9c8c
title: Occurrence Download

description: A dataset containing 185 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cercis griffithii Boiss."
 ]
}

 The dataset includes 185 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014733-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.headeu
title: Occurrence Download

description: A dataset containing 499 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Lamprolobium Benth."
 ]
}

 The dataset includes 499 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004510-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xzucdp
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Oncorhynchus rhodurus Jordan & McGregor, 1925"
 ]
}

 The dataset includes 33 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004511-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aam3va
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "PublishingOrg is da86174a-a605-43a4-a5e8-53d484152cd3",
 "TaxonKey is Mandevilla laxa (Ruiz & Pav.) Woodson"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004514-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y2s7xy
title: Occurrence Download

description: A dataset containing 13970 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Lannea A.Rich."
 ]
}

 The dataset includes 13970 records from 225 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004513-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vz3euw
title: Occurrence Download

description: A dataset containing 67297 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((131.0609 -4.182004, 133.9396 -4.182004, 133.9396 -0.9367197, 131.0609 -0.9367197, 131.0609 -4.182004))"
 ]
}

 The dataset includes 67297 records from 196 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004503-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w5rn9a
title: Occurrence Download

description: A dataset containing 2820464 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Larus argentatus Pontoppidan, 1763",
 "HasCoordinate is true",
 "Year is greater than 1989",
 "Year is less than 2026",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is Absent"
 ]
 }
 },
 "CoordinateUncertaintyInMeters is less than or equal to 1000"
 ]
}

 The dataset includes 2820464 records from 408 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004507-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vqq5mg
title: Occurrence Download

description: A dataset containing 292 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Lansium Corrêa"
 ]
}

 The dataset includes 292 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004516-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jx4s4f
title: Occurrence Download

description: A dataset containing 48275 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((133.9396 -4.182004, 136.8184 -4.182004, 136.8184 -0.9367197, 133.9396 -0.9367197, 133.9396 -4.182004))"
 ]
}

 The dataset includes 48275 records from 239 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004515-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w9z7mk
title: Occurrence Download

description: A dataset containing 1755 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Larus armenicus Buturlin, 1934",
 "HasCoordinate is true",
 "Year is greater than 1989",
 "Year is less than 2026",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is Absent"
 ]
 }
 },
 "CoordinateUncertaintyInMeters is less than or equal to 1000"
 ]
}

 The dataset includes 1755 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004517-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.