cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17617/3.396q7i
title: Back-Side SEM Images and Respective Modified GDSII Chip Designs

description: &lt;p&gt;
This data set consists of backside scanning electron microscope (SEM) images of four different CMOS integrated circuits (90nm, 65nm, 40nm and 28nm technologies) recorded for this study. The images are tiled with a 10% overlap and arranged in a grid according to their respective file names (&lt;code&gt;Tile_001-YYY-XXX-[...].tif&lt;/code&gt;). More precise coordinates generated by stitching can be found in the file "stitching.zip" which is included in the data set, as well as in the corresponding GitHub repository.
&lt;/p&gt;&lt;p&gt;
Additionally, the data set contains the GDSII design files of all imaged chips, although only an abstracted version. The abstracted design files contain only the standard cell area and furthermore only the bounding boxes of the cells with anonymized identifiers. Some of the identifiers contain the keyword "&lt;code&gt;FILL_&lt;/code&gt;" denoting a filler cell. Identifiers not containing the keyword refer to functional standard cells. Identical identifiers also denote identical cell types. As detailed in our study, each of the GDSII files is trojanized in the sense that it contains 10 manipulations where cells have been exchanged by different cells of the same size (4 filler cell replacements and 6 standard cell replacements). The positions of the modifications on each chip are neither revealed in our study nor in this data set. Yet, verification of your own detection results should be possible to some extent with the image cutouts provided in the appendix of the study. Should the exact positions be needed for related research, or should the benign, untrojanized files be required, do not hesitate to contact the authors.
&lt;/p&gt;&lt;p&gt;
Software and details how to use the dataset can be found in the respective GitHub repository at the following URL: &lt;a href="https://github.com/emsec/ChipSuite" target="_blank"&gt;https://github.com/emsec/ChipSuite&lt;/a&gt;
&lt;/p&gt;&lt;p&gt;
Please make sure to always cite &lt;a href="https://ieeexplore.ieee.org/document/10179341" target="_blank"&gt;our study&lt;/a&gt; when using any part of our data set or code for your own research publications!
&lt;/p&gt;&lt;p&gt;&lt;blockquote&gt;&lt;pre&gt;
@inproceedings {2023puschner,
 author = {Endres Puschner and Thorben Moos and Steffen Becker and Christian Kison and Amir Moradi and Christof Paar},
 booktitle = {2023 IEEE Symposium on Security and Privacy (SP)},
 title = {Red Team vs. Blue Team: A Real-World Hardware Trojan Detection Case Study Across Four Modern CMOS Technology Generations},
 year = {2023},
 pages = {763-781},
 keywords = {hardware-trojans;very-large-scale-integration;gdsii;integrated-circuits-verification},
 doi = {10.1109/SP46215.2023.00044},
 url = {https://doi.ieeecomputersociety.org/10.1109/SP46215.2023.00044},
 publisher = {IEEE Computer Society},
 address = {Los Alamitos, CA, USA},
 month = {may}
}
&lt;/pre&gt;&lt;/blockquote&gt;&lt;/p&gt;
DOI: 10.17617/3.44rhfz
title: Fortuitously compatible protein surfaces primed allosteric control in cyanobacterial photoprotection

description: Source dataset corresponding to the homonymous article by Steube & Moldenhauer et al. in Nature Ecology & Evolution (2023).
DOI: 10.17617/3.d7bqxn
title: Characterizing and utilizing oxygen-dependent promoters for efficient dynamic metabolic engineering

description: This collection contains DNA sequences of plasmids constructed for the research article "Characterizing and utilizing oxygen-dependent promoters for efficient dynamic metabolic engineering" published by Julian Wichmann, Gerrich Behrendt, Simon Boecker, and Steffen Klamt (klamt@mpi-magdeburg.mpg.de) as GenBank files.
description: Snapgene
DOI: 10.17617/3.rkkfw7
title: Data for "Cuticle supplementation and nitrogen recycling by a dual bacterial symbiosis in a family of xylophagous beetles (Coleoptera: Bostrichidae)"

description: Data for "Cuticle supplementation and nitrogen recycling by a dual bacterial symbiosis in a family of xylophagous beetles (Coleoptera: Bostrichidae)", including gene alignments for phylogenetic analyses, phylogenetic trees, editable figures of phylogenetic trees and annotated mitochondrial genome contigs of Xylobiops basilaris
DOI: 10.17617/3.nehzn1
title: Hydrogels with stiffness-degradation spatial patterns allow the emergence of anisotropic 3D cell response

description: In nature, tissues are patterned, but most biomaterials used in human applications are not. Patterned biomaterials offer the opportunity to mimic spatially segregating biophysical and biochemical properties found in nature. Engineering such properties allows to study cell-matrix interactions in anisotropic matrices in great detail. Here, we developed alginate-based hydrogels with patterns in stiffness and degradation, composed of distinct areas of soft non-degradable (Soft-NoDeg) and stiff degradable (Stiff-Deg) material properties. The hydrogels exhibit emerging patterns in stiffness and degradability over time, taking advantage of dual crosslinking: Diels-Alder covalent crosslinking (norbornene-tetrazine, non degradable) and UV-mediated peptide crosslinking (matrix metalloprotease sensitive peptide, enzymatically degradable). The materials were mechanically characterized using rheology for single-phase and surface micro-indentation for patterned materials. 3D encapsulated mouse embryonic fibroblasts (MEFs) allowed to characterize the anisotropic cell-matrix interaction in terms of cell morphology by employing a novel image-based quantification tool. Live/dead staining showed no differences in cell viability but distinct patterns in proliferation, with higher cell number in Stiff-Deg materials at day 14. Patterns of projected cell area became visible already at day 1, with larger values in Soft-NoDeg materials. This was inverted at day 14, when larger projected cell areas were identified in Stiff-Deg. This shift was accompanied by a significant decrease in cell circularity in Stiff-Deg. The control of anisotropic cell morphology by the material patterns was also confirmed by a significant increase in filopodia number and length in Stiff-Deg materials. The novel image-based quantification tool was useful to spatially visualize and quantify the anisotropic cell response in 3D hydrogels with stiffness-degradation spatial patterns. Our results show that patterning of stiffness and degradability allows to control cell anisotropic response in 3D and can be quantified by image-based strategies. This allows a deeper understanding of cell-matrix interactions in a multicomponent material.
DOI: 10.21233/t9yr-t566
title: Mondor Creek water chemistry dataset

description: Raw data for the Mondor Creek water chemistry dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.3isoyc
title: Data for "Strong particle production and condensational growth in the upper troposphere sustained by biogenic VOCs from the canopy of the Amazon Basin"
DOI: 10.17617/3.y1kjmf
title: Paleogenomics of Upper Paleolithic to Neolithic European hunter-gatherers

description: Modern humans have populated Europe for more than 45,000 years1,2. Our knowledge of the genetic relatedness and structure of ancient hunter-gatherers is however limited, owing to the scarceness and poor molecular preservation of human remains from that period3. Here we analyse 356 ancient hunter-gatherer genomes, including new genomic data for 116 individuals from 14 countries in western and central Eurasia, spanning between 35,000 and 5,000 years ago. We identify a genetic ancestry profile in individuals associated with Upper Palaeolithic Gravettian assemblages from western Europe that is distinct from contemporaneous groups related to this archaeological culture in central and southern Europe4, but resembles that of preceding individuals associated with the Aurignacian culture. This ancestry profile survived during the Last Glacial Maximum (25,000 to 19,000 years ago) in human populations from southwestern Europe associated with the Solutrean culture, and with the following Magdalenian culture that re-expanded northeastward after the Last Glacial Maximum. Conversely, we reveal a genetic turnover in southern Europe suggesting a local replacement of human groups around the time of the Last Glacial Maximum, accompanied by a north-to-south dispersal of populations associated with the Epigravettian culture. From at least 14,000 years ago, an ancestry related to this culture spread from the south across the rest of Europe, largely replacing the Magdalenian-associated gene pool. After a period of limited admixture that spanned the beginning of the Mesolithic, we find genetic interactions between western and eastern European hunter-gatherers, who were also characterized by marked differences in phenotypically relevant variants.
description: This link contains the genotypes of all 356 individuals included in the dataset, of which 116 are newly reported or with increased coverage. Note that for 4 individuals we report both the PMD and non-PMD filtered versions, and that we re-genotyped some previously published samples for consistency (see Methods section).
Here you can find two genotypes in eigenstrat format:
- select_final.*: all SNPs in the 1240K panel
- select_final.1240K.auto/*: only autosomal SNPs in the 1240K panel
DOI: 10.17617/3.zkx9js
title: Reducing errors on estimates of the carbon uptake period based on time series of atmospheric CO2

description: R
DOI: 10.17617/3.gixtt3
title: PAVO pipeline for analysis of monarch butterfly wing colour

description: R project containing the PAVO code, spectra of butterfly wings and Asclepias leaves and identifying information on the spectra, to analyse the conspicuousness of monarch wing colours
description: R
DOI: 10.17617/3.yc1br4
title: Data on oxidative state markers and colouration of monarch butterflies

description: Data from Blount et al on the oxidative state markers, cardenolide concentrations, and wing colouration of monarch butterflies reared on different species of Asclepias. Column names contain description of the data in comments.
DOI: 10.15468/dl.5ws4ra
title: Occurrence Download

description: A dataset containing 318 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Schizopepon bryoniifolius Maxim.",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2010",
 "HasCoordinate is true"
 ]
}

 The dataset includes 318 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021476-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17617/3.dtcrqt
title: Post-embedding iodine staining for contrast-enhanced 3D imaging of bone tissue using focused ion beam-scanning electron microscopy (FIB-SEM)
DOI: 10.17617/3.trgfi0
title: Data related to Andreae et al.: "Age estimates for the rock art at the Rocky Ridge site (Utah) based on archaeological and archaeometric evidence"

description: Original data from portable X-ray fluorescence measurements on rock art (petroglyphs) at the Rocky Ridge site, Utah.
DOI: 10.17617/3.hrw0oe
title: Real and Synthetic data for Hypergraph Benchmarking (processed for the Hy-MMSBM generative model)

description: This dataset contains the preprocessed real hypergraph data utilized in the experiments for 
"Generalized inference of mesoscale structures in higher-order networks",
Ruggeri N., Contisciani M., Battiston F., De Bacco C.

and synthetic hypergraph data generated for experiments in the above, as well as in 
"A Principled, Flexible and Efficient Framework for Hypergraph Benchmarking",
Ruggeri N., Battiston F., De Bacco C.
description: Python, 3.8
DOI: 10.17617/3.i6nkxm
title: Data for "Behavioural individuality determines infection risk in clonal ant colonies"
DOI: 10.17617/3.30mfes
title: Data from probing the open ocean with the research sailing yacht Eugen Seibold

description: This collection contains data for paper "Preface: Special Issue on Probing the Open Ocean With the Research Sailing Yacht Eugen Seibold for Climate Geochemistry" (Schiebel et al., 2024). When using the data, please refer to the paper mentioned above . If further data needed, please contact the corresponding authors.
description: All files are UTF-8 encoded. Each file contains a tab-separated table, which is preceded by a header describing the individual columns.
DOI: 10.17617/3.8u7ehd
title: seabirds' wind niche

description: This data set, along with the accompanying code available at https://github.com/mahle68/seabirds_storms_public, allows for reproducing the results of Nourani et al 2023, Current Biology.
The data is provided in rds files, to be opened and manipulated in R.
description: R
DOI: 10.17617/3.crsjqv
title: Dataset for GAP and GPrep training for Ru and RuO; dftb parameters for Ru and RuO

description: Dataset for GAP and GPrep training for Ru and RuO; dftb parameters for Ru and RuO.
Ru and RuO datasets are divided into generations, used for the iterative convergence of the GAP. DFTB parameters were obtained using the last training set for each system.
DOI: 10.17617/3.u7vkbm
title: DECAF — A Fuzzy Classification Framework to Identify Equivalent Atoms in Complex Materials and Molecules

description: This data set contains implementation code and examples for the methodology described in the research article with the title "A Fuzzy Classification Framework to Identify Equivalent Atoms in Complex Materials and Molecules". The article is accepted by The Journal of Chemical Physics (&lt;a href=https://doi.org/10.1063/5.0160369&gt;DOI: 10.1063/5.0160369&lt;/a&gt;). To find the implementation of methodology, please refer to README.md for direction. For code updates after May 2023, please also refer to the &lt;a href="https://gitlab.mpcdf.mpg.de/klai/decaf"&gt;GitLab repository&lt;/a&gt; linked below.
DOI: 10.17617/3.wrdugo
title: [Data] Visual short-term memory related EEG components in a virtual reality setup
DOI: 10.17617/3.sqsr84
title: MD simulation data and analysis for the article: The thylakoid proton antiporter KEA3 regulates photosynthesis in response to the chloroplast energy status

description: MD simulation data and analyses for the related publication.

Please cite the article listed under "Related Publication" when using the data or scripts/analysis tools provided, and also specify the doi of this dataset.
description: Gromacs, 2022.4
DOI: 10.21233/81mg-2a43
title: Soap Lake water chemistry dataset

description: Raw data for the Soap Lake water chemistry dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.kmqpzy
title: Data for the manuscript entitled "Topological features in the ferromagnetic Weyl semimetal CeAlSi: Role of domain walls"

description: This dataset contains the experimental data used in the manuscript entitled "Topological features in the ferromagnetic Weyl semimetal CeAlSi: Role of domain walls". It is composed by magnetization and resistivity curves as a function of temperature, magnetic field and/or external pressure.
DOI: 10.17617/3.nylegv
title: Structures of Li-GICs for the calculation of SOC-dependent dielectric constant
DOI: 10.17617/3.75pwrf
title: MST_dataset: The K+ exchange antiporter 3 senses the chloroplast energy status to synchronize photosynthesis

description: The N-terminal His-tag of the regulatory C-terminus of KEA3 or a mutant carrying a G65&gt;A point mutation was labelled with the RED-tris-NTA kit (NanoTemper Technologies GmbH, Munich, Germany). After 10 minutes incubation on ice, 50 nM of protein sample in PBS together with the indicated concentrations of nucleotides were loaded into standard Monolith NT.115 capillaries (NanoTemper Technologies GmbH, Munich, Germany). TRIC measurements were performed using the Monolith NT.115 instrument (NanoTemper Technologies GmbH, Munich, Germany) at ambient temperature of 23 °C. Instrument parameters were adjusted to 80 % LED and 60 % MST power. TRIC as differences in normalized fluorescence was calculated between the initial fluorescence and 1.5 s after the onset of the laser. 10 mM nucleotide stocks were prepared freshly in PBS pH 8.0 directly before the experiment and the pH was checked.
description: PALMIST software
DOI: 10.17617/3.gocs2d
title: Understanding the evolution of lithium dendrites at the Li6.25Al0.25La3Zr2O12 grain boundaries via operando microscopy techniques

description: We provide the data for the measurements of the work "Understanding the evolution of lithium dendrites at the Li6.25Al0.25La3Zr2O12 grain boundaries via operando microscopy techniques" published in Nature Communications (https://doi.org/10.1038/s41467-023-36792-7).
DOI: 10.17617/3.jua2lw
title: Neuronal and network mechanisms for the emergence of neural computations
DOI: 10.17617/3.wgvdyv
title: Metal_rich_stars_planets_habitability
DOI: 10.17617/3.3jm5wx
title: Quantifying single cell lipid signaling kinetics after photo-stimulation
DOI: 10.17617/3.nzupn4
title: Analysis scripts and raw data for VPN ecosystem measurements

description: This collection contains analysis scripts and raw data to reproduce our analysis for the active measurements on the VPN server ecosystem. The results are published in the paper "Characterizing the VPN Ecosystem in the Wild" published at the "Passive and Active Measurement Conference 2023" (PAM 2023). More information and updates can be found on the project's website: https://vpnecosystem.github.io/
DOI: 10.17617/3.ruim5i
title: Evidence for vocal signatures and voice-prints in a wild parrot

description: A README for all data, code and results can be found inside the main zip file.
DOI: 10.17617/3.1muyfx
title: Analysis scripts and raw data for BannerClick web measurements

description: This collection contains analysis scripts and raw data to reproduce our analysis for the web cookie measurements using BannerClick. The results are published in the paper "Exploring the Cookieverse: A Multi-Perspective Analysis of Web Cookies" published at the "Passive and Active Measurement Conference 2023" (PAM 2023). More information and updates can be found on the project's website: https://bannerclick.github.io/
DOI: 10.17617/3.nrnssh
title: Data - Contrasting torpor use by reproductive male common noctule bats in the laboratory and in the field
DOI: 10.17617/3.pnrurg
title: A subwavelength atomic array switched by a single Rydberg atom

description: Data presented in the publication.
DOI: 10.17617/3.6j4za0
title: Data from: 30 Years Brings Changes to the Arthropod Community of Kibale National Park, Uganda

description: Data from: 30 Years Brings Changes to the Arthropod Community of Kibale National Park, Uganda by Opito, E.A., T. Alanko, U. Kalbitzer, M. Nummelin, P. Omeja, A. Valtonen, and Colin A. Chapman. 2023, Biotropica, Article DOI: 10.1111/btp.13206
DOI: 10.21233/d8xb-t424
title: Karelia testate amoebae surface sample dataset

description: Raw data for the Karelia testate amoebae surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.a6vvvu
title: Data for Multi-segmented Adaptive Feet for Versatile Legged Locomotion in Natural Terrain

description: The dataset contains:
'SLD_all' folder: all Solidworks part files (.SLDPRT) and the assembly file (__Frame__.SLDASM) of the robot in the experimental setup
'STL_assemblies' folder: the assembly file of the robot in the experimental setup, and the assembly file of the robot without the experimental setup, both in .STL format
'STL_files_3D_print' folder: the files of the 3D printed parts of the robot in .STL format

Publication link: https://arxiv.org/abs/2209.08499
description: SOLIDWORKS, 2021
DOI: 10.17617/3.hvw8zn
title: Histological and MRI brain atlas of the common shrew, Sorex araneus, with brain region-specific gene expression profiles

description: The dataset contains data and supplementary material of the paper "Histological and MRI brain atlas of the common shrew, Sorex araneus, with brain region-specific gene expression profiles" published in Frontiers in Neuroanatomy on May 3rd, 2023.
DOI: 10.17617/3.v78oa4
title: High-throughput cell-based RNAi screen of cell cycle progression
DOI: 10.17617/3.dfu3sq
title: Convection Spectra from the Thesis of B. Proxauf

description: This repository contains the curves to reproduce Figure 3.3 from B. Proxauf 2021 Thesis "Observations of large-scale solar flows"
DOI: 10.17617/3.jnr97g
title: Carabid beetles in the Jena Experiment (2003, 2005, 2010, 2012)
DOI: 10.17617/3.bcwocd
title: Cell-free quorum sensing to drive feedback and communication within populations of droplet interface bilayers
DOI: 10.17617/3.thjwg8
title: Data for Slack-based tunable damping leads to a trade-off between robustness and efficiency in legged locomotion

description: Dataset contains CAD model of the robot leg, and data analysis codes.
Publication link: https://doi.org/10.48550/arXiv.2212.00475
description: Matlab, R2021b
description: Autodesk Inventor, 2018
DOI: 10.17617/3.3xhtja
title: callsync: an R package for alignment and analysis of multi-microphone animal recordings

description: README with meta data at top level in zip.
DOI: 10.17617/3.wzyvba
title: AquaDiva project groundwater and soil seepage DOM HR-MS raw data
DOI: 10.17617/3.1gttfe
title: Simulation and experimental files, datasets and equipment setup for "Nonlinear frequency response analysis of oxygen reduction reaction on silver in strong alkaline media"

description: This batch contains simulation and experimental datasets, along with the simulation files and generated publication figures.

The experimental files (equipment setup, datasets, runs) have "experimental" in their description.

Each file title corresponds to the published figure.
description: Matlab, 2019b
DOI: 10.17617/3.ur3eca
title: Molecular dynamics simulations reveal the importance of amyloid-beta oligomer β-sheet edge conformations in membrane permeabilization
DOI: 10.17617/3.n1gtkl
title: Jena Experiment subsoil C N
DOI: 10.17617/3.vhxfd3
title: Absence of visual cues motivates desert ants to build their own landmarks

description: All data relevant to the manuscript 'Absence of visual cues motivates desert ants to build their own landmarks'. It includes data sheets, gpx files, adobe illustrator files and photos.
DOI: 10.17617/3.pubrkr
title: FUS Air-Buffer Figure Data
DOI: 10.17617/3.ytlqyh
title: Data on Influx of African smoke into the Amazon

description: This collection contains data for the paper "African biomass burning affects aerosol cycling over the Amazon" (Holanda et al., 2023, doi:10.1038/s43247-023-00795-5).
When using the data, please refer to the paper mentioned above. If further data are needed, please contact the corresponding authors. The files contain several atmospheric parameters measured at the ATTO (Amazon Tall Tower Observatory) site over the years 2019 and 2020 as well as measurements onboard the High Altitude and Long Range (HALO) research aircraft in the course of two intensive campaigns (ACRIDICON-CHUVA in Sep-Oct 2014 and CAFE-Africa in Aug-Sep 2018).