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opencc-zeroJun 2023View details →

Data from: Geographical variation and discrimination of social calls in male great Himalayan leaf-nosed bats: Do functionally similar calls have similar patterns?

Geographical variation in animals' acoustic signals has received much attention. However, few studies have compared the patterns and underlying selective forces driving geographical divergence of vocalizations with similar and different functions within the same species. Also, the social consequences of geographical divergence in acoustic signals are still rather poorly understood. Here we recorded three types of social calls of male great Himalayan leaf-nosed bats (Hipposideros armiger) across eight colonies in China. Two calls share similar functions and the third has a function distinct from the other two. We examined the patterns and causes of geographical variation of each of these calls. We found that all three calls had significant geographic variation with similar patterns of spatial variation. Only one of the two social calls with similar functions was found to be affected by genetic drift, while the other two calls were not affected by selection and drift, or morphological constraints. Furthermore, we found that bats could discriminate between vocalizations of their own colony and those of an allopatric colony. Overall, these results suggest that acoustic signals with similar functions may be shaped by different driving forces and acoustic signals with different functions may exhibit similar geographical patterns. This study expands our limited knowledge of the patterns of geographical variation of vocalizations emitted at different emotional states and highlights the importance of comparing simultaneously patterns and causes of geographical divergence of vocalizations with similar and different functions.

opencc-zeroJul 2023View details →

Nestling begging calls resemble maternal vocal signatures when mothers call slowly to embryos

Vocal production learning (the capacity to learn to produce vocalizations) is a multi-dimensional trait that involves different learning mechanisms during different temporal and socio-ecological contexts. A key outstanding question is whether vocal production learning begins during the embryonic stage and whether mothers play an active role in this through pupil-directed vocalization behaviors. We examined variation in vocal copy similarity (an indicator of learning) in eight species from the songbird family Maluridae, using comparative and experimental approaches. We found that: (1) incubating females from all species vocalized inside the nest and produced call types including a signature 'B element' that was structurally similar to their nestlings' begging call; (2) in a prenatal playback experiment using superb fairywrens (Malurus cyaneus), embryos showed a stronger heart rate response to playbacks of the B element than to another call element (A); and (3) mothers that produced slower calls had offspring with greater similarity between their begging call and the mother's B element vocalization. We conclude that malurid mothers display behaviors concordant with pupil-directed vocalizations and may actively influence their offspring's early-life through sound learning shaped by maternal call tempo.

opencc-by-4.0Jul 2023View details →

Model Weights for FLAG on the Earnings Call Dataset

Model weights for the GATv2 variant of our FLAG approach on the earnings call dataset in the tech sector. Files are in pytorch ".pt" format.

opencc-by-4.0Jul 2023View details →

Called peaks for 8 D. melanogaster functional genomics data sets

Analyses were performed on chromatin accessibility (ATAC-seq, DNase-seq, FAIRE-seq), histone modification ChIP-seq (H3K4me1, H3K4me3, and H3K27ac), and direct enhancer activity reporter via an ectopic plasmid based assay (STARR-seq) data sets generated from experiments in D. melanogaster. The ATAC-seq and FAIRE-seq data sets were generated using wandering third instar larvae eye antennal imaginal disc tissue extracted from the FRT82 stock (Davie et al., 2015), while all other data sets were generated from Drosophila melanogaster S2 cells (Arnold et al., 2013; Henriques et al., 2018; de Almeida et al., 2022). Sequencing reads were downloaded from the NIH SRA, cleaned and trimmed using Trimmomatic v0.39 (Bolger et al., 2014), and aligned to the D. melanogaster r6.45 genome (Hoskins et al., 2015) using BWA (bwa aln, default settings) v0.7.17-r1188 (Li and Durbin, 2009). The D. melanogaster genome was downloaded from Fly Base (Gramates et al., 2022). Aligned reads were filtered for mapping quality (-q 10 -F 0x0200 -F 0x0100 -F 0x004) using SAMTools v1.11 (using htslib v1.11-4) (Li et al., 2009). Peaks were called using MACS2 v 2.2.7.1 (Zhang et al., 2008) with FDR correction (-q 0.01) and the preset D. melanogaster genome size (-g dm). The data sets varied in terms of read lengths, single-end or paired-end, and the availability of control data, so parameters were adjusted appropriately. MACS peak calling parameters for ATAC-seq and FAIRE-seq data were taken from Davie et al. (2015).

opencc-zeroJul 2023View details →

Call attenuation data of three frog species in tree plantations and a native forest in southern Brazil

Call transmission is influenced by the acoustics of the propagation environment, including vegetation. Thus, forestry monocultures of non-native trees represent artificial environments that could modify call transmission. These monocultures have substituted large areas of the Atlantic Forest in southern Brazil, representing a conservation challenge. Considering this context, we hypothesized that anurans have calls less attenuated in their native environment than in forest plantations. To test it, we performed sound transmission experiments using calls of three anuran species native to southern Brazil: Boana bischoffi, B. leptolineata, and Hylodes meridionalis. We compared sound attenuation between the native forest and forestry monocultures (Eucalyptus sp. and Pinus sp. forests), and included distance from the sound source, air temperature, humidity, and vegetation density as co-factors in linear mixed models.

opencc-by-4.0Aug 2023View details →

Artifact for "Total Recall? How Good are Static Call Graphs Really?"

The artifact is password protected to provide exclusive access to the reviewers. To decompress the archive, run `7z x artifact.7z` and enter the password when asked. The password is provided on HotCRP.

opencc-zeroAug 2023View details →

Supplementary material: for Using anticipation to unveil drivers of local livelihoods in Transfrontier Conservation Areas: a call for more environmental justice

<ol> <li> Calling on the concept of environmental justice in its distributive, procedural, and recognition dimensions, we implemented a collaborative scenario-building approach to explore sustainable livelihood pathways in four sites belonging to two Transfrontier Conservation Areas (TFCAs) in southern Africa. </li> <li>Grounded on participation and transdisciplinarity, as a foundation for decolonised anticipatory action research, we aimed at stimulating knowledge exchange and providing insights on the future of local livelihoods by engaging experts living within these TFCAs. </li> <li>Our results show that wildlife and wildlife-related activities are not seen as the primary drivers of local livelihoods, despite the focus and investments of dominant stakeholders in these sectors. Instead, local governance and land use regulations emerged as key drivers in the four study sites. The state of natural resources, including water, and appropriate farming systems also appeared critical to sustain future livelihoods in TFCAs, together with the recognition of indigenous culture, knowledge, and value systems.</li> <li>Nature conservation, especially in Africa, is rooted in its colonial past and struggles to free or decolonise itself from the habits of this past despite decades of reconsideration. To date, the enduring coloniality of conservation prevents local citizens from truly participating in the planning and designing of the TFCAs they live in, leaving room for limited benefits to local citizens and often limiting indigenous people's capacity to conserve. </li> <li> A practical way forward is to consider environmental justice as a cement between the two pillars of the TFCA concept, i.e.nature conservation and socioeconomic development of local or neighbouring communities, as part of a more broad and urgent need to rethink the relationships between people in, and with, the rest of nature. </li> </ol>

opencc-zeroDec 2022View details →

Frequency jumps and subharmonic components in calls of female Odorrana tormota differentially affect the vocal behaviors of male frogs

Many studies have demonstrated that sounds containing nonlinear phenomena (NLP) can influence the behavior of receivers. However, the specific functions of different NLP components have received less attention. In most frog species, females produce few or no vocalizations; in contrast, female Odorrana tormota exhibit a diverse range of calls that are rich in NLP components. Previous field playbacks have shown that female calls can elicit responses from male frogs. Therefore, we conducted a phonotaxis experiment to investigate the differential effects of different NLP calls by female O. tormota on the vocal behavior of male frogs. The results of our study revealed that calls with subharmonics elicited a greater number of short calls and answering calls from male frogs than calls with frequency jumps. Conversely, calls with frequency jumps triggered more staccato calls from males than calls with subharmonics. Additionally, during the phonotaxis experiments, we recorded the initial vocalizations of males in response to playbacks of female calls. The majority of males first produced short calls. Under calls with frequency jumps, most of the male frogs approaching within 10 cm of the loudspeaker produced staccato calls instead of "meow" calls or short calls. While under calls with subharmonics, most male frogs preferred to produce short calls. Our findings demonstrate that frequency jumps and subharmonic components in the calls of female O. tormota have different effects on male vocal behaviors.

opencc-by-4.0Sep 2023View details →

CHIP calls for BioVU cohort – resolving vs. non-resolving AKI analysis

Data for analysis examining clonal hematopoiesis of indeterminate potential (CHIP) and AKI recovery patterns in cohort of individuals from the BioVU biorepository

opencc-by-4.0Jul 2023View details →

Supporting data for "Software pipelines for RNA-Seq, ChIP-Seq and Germline Variant calling analyses in Common Workflow Language (CWL)"

Datasets produced during the validation of CWL-based pipelines, designed for the analysis of data from RNA-Seq, ChIP-Seq and germline variant calling experiments. Specifically, the workflows were tested using publicly available High-throughput (HTS) data from published studies on Chronic Lymphocytic Leukemia (CLL) (accession numbers: E-MTAB-6962, GSE115772) and Genome in a Bottle (GIAB) project samples (accession numbers: SRR6794144, SRR22476789, SRR22476790, SRR22476791). The supporting data include: <ul> <li>Differential transcript and gene expression results produced during the analysis with the CWL-based RNA-Seq pipeline</li> <li>Bigwig and narrowPeak files, differential binding results, table of consensus peaks and read counts of EZH2 and H3K27me3, produced during the analysis with the CWL-based ChIP-Seq pipeline</li> <li>VCF files containing the detected and filtered variants, along with the respective hap.py () results regarding comparisons against the GIAB golden standard truth sets for both CWL-based germline variant calling pipelines</li> </ul>

opencc-by-4.0Oct 2023View details →

Datasets for the paper: "SpotFlow: Tracking Method Calls and States at Runtime"

Datasets for the paper: "SpotFlow: Tracking Method Calls and States at Runtime".Datasets generated with SpotFlow (https://github.com/andrehora/spotflow). We analyze the test suites of 15 Python libraries: gzip, calendar, locale, json, ast, csv, ftplib, collections, os, tarfile, pathlib, smtplib, argparse, configparser, and email.Dataset 1: Variables Values at Runtime. We extracted every variable name and their respective values at runtime. The dataset contains 1,234 distinct variables and a total of 133,169 distinct values.Dataset 2: Mapping Between Test Cases and Application Methods. We extracted every test method that executes at least one application method and mapped each test to their respective executed methods. The dataset contains 2,458 test methods and 42,218 executed application methods. In total, the application methods were executed 2,722,746 times by the tests.

opencc-byOct 2020View details →

Excavación calle Ruiz Romero, 1 (Jaén)

Corte 2 de la intervención arqueológica realizada en el año 2019 en la calle Ruiz Romero número 1 de Jaén. El sondeo se planteaba en la zona del semisótano de la vivienda que fue demolida. En él se localizó bajo la solería actual, un pavimento de cantos rodados y bajo él los rtestos de una bodega formada por doce tinajas de cerámica de grandes dimensiones que contendrían vino. Estas tinajas fueron destruidas en gran parte para la construcción del semisótano, quedando tan solo la base de las mismas que se encontraban encajadas sobre la propia base geológica. Modelo obtenido a través de fotogrametría y optimizado en Blender. Se ha pasado de un modelo original de 5.278.706 polígono a otro optimizdao de 146.331 polígonos. Source: Objaverse 1.0 / Sketchfab

opencc-byFeb 2020View details →

Estructura 3 Impacto Arq. Calle Jujuy, Córdoba

Estructura 3 del Impacto Arqueológico de la Calle Jujuy en la Ciudad de Córdoba, Pozo asociado a funciones sanitarias, que fue rellenado con distintas capas de sedimento tras su inhabilitacion. Constituido por ladrillos de tamaño actual (30×15×5 cm), unidos con mortero de cemento. La estructura se diferencia de las halladas en el mismo lote por sus dimensiones, siendo el diámetro mínimo de 180 cm y el máximo de 255 cm, mientras que su extensión en profundidad alcanza los 300 cm. En cuanto a su tipologia constructiva, los ladrillos se disponen horizontalmente, superpuestos y, algunos se hallan en fragmentos para el modelado de la forma circular, alcanzando así los 300cm de profundidad preestablecidos para el pozo. Source: Objaverse 1.0 / Sketchfab

opencc-byOct 2021View details →

Quaker Boy Inc. Grand Old Master Box Turkey Call

Quaker Boy Inc. Grand Old Master Box Turkey Call Orchard park, NY Manufactured from Cherry (Lid) and Poplar (Bottom) wood. This was a test scan to see the capabilities of the Leo. Note the scanner had some difficulty resolving areas on the lid with black ink. Scanned with an Artec Leo Processed with Artec Studio 16, Zbrush, Blender, and XNormal Source: Objaverse 1.0 / Sketchfab

opencc-by-4.0Jul 2024View details →

Dataset for "Benchmarking for the automated detection of southern yellow-cheeked crested gibbon calls from passive acoustic monitoring data"

"Benchmarking automated detection and classification approaches for long-term acoustic monitoring of endangered species: a case study on gibbons from Cambodia" <div> Recent advances in deep learning and transfer learning have revolutionized our ability for the automated detection of acoustic signals from long-term soundscape recordings. Here, we provide a benchmark for the automated detection of southern yellow-cheeked crested gibbon (Nomascus gabriellae) calls recorded in Jahoo, Cambodia. For the benchmarking, we compared the performance of support vector machines (SVMs), a quasi-DenseNet architecture (Koogu), transfer learning with ResNet50 models trained on the ‘ImageNet’ dataset (ResNet), and transfer learning with embeddings from a global birdsong model (BirdNET). We also investigated the impact of varying the number of training samples on the performance of these models. Transfer learning models based on BirdNET embeddings had superior performance with a smaller number of training samples, whereas Koogu and ResNet models only had acceptable performance with a larger number of training samples (>200 gibbon samples). We deployed the BirdNET-based model over > 130,000 hours of continuous soundscape data, which, after manual review, resulted in >12,000 verified true positive detections. We found that gibbon calling events occurred mostly in the early morning hours between 05:00 to 0:600 local time. We had fewer gibbon detections during the monsoon period and found substantial variation in spatial patterns of calling events across months and years. We show that automated detection can be used to investigate long-term spatial and temporal patterns of gibbon calling events. Reliable automated detection approaches are a critical first step for using passive acoustic monitoring to assess endangered gibbon populations at ecologically relevant temporal- and spatial-scales.  Detailed instructions regarding use are provided on GitHub. </div> Link to GitHub: https://github.com/DenaJGibbon/benchmark-gibbon-calls. Please cite both if you use these data:  Clink, D., Cross-Jaya, H., Kim, J., Ahmad, A. H., Hong, M., Sala, R., Birot, H., Agger, C., Vu, T. T., Thi, H. N., Chi, T. N., & Klinck, H. (2024). Dataset for "Benchmarking for the automated detection of southern yellow-cheeked crested gibbon calls from passive acoustic monitoring data" [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.12706803" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12706803</a> Clink DJ, Cross-Jaya H, Kim J, Ahmad AH, Hong M, Sala R, Birot H, Agger C, Vu TT, Thi HN, Chi TN. Benchmarking for the automated detection and classification of southern yellow-cheeked crested gibbon calls from passive acoustic monitoring data. bioRxiv. 2024:2024-08.

closedIPD-NOFeb 2026View details →

Call for Life Youth ART Adherence Study

ClinicalTrials.gov study NCT04718974. IPD Sharing: NO. Countries: 1. Publications: 1.

closedIPD-NOFeb 2026View details →

A Study to Learn About Study Medicine Called PF-07261271 in Healthy People

ClinicalTrials.gov study NCT05536440. IPD Sharing: NO. Countries: 1. Publications: 0.

controlledIPD-YESFeb 2026View details →

Using Emails and Personalized Phone Calls to Increase Affordable Care Act Marketplace Enrollment Among Households Losing Medicaid

ClinicalTrials.gov study NCT05327712. IPD Sharing: YES. Countries: 1. Publications: 1.

restrictedIPD-UNDECIDEDFeb 2026View details →

Comparison of Full-Field Digital Mammography With Digital Breast Tomography for Screening Call-Back Rates

ClinicalTrials.gov study NCT01236781. IPD Sharing: Not stated. Countries: 1. Publications: 2.