Kantor, Rose · Shakya, Migun · Ruth, Nelson · et al.
2,095 rows · 907 KB · fasta, tsv
A virus genome database representing 21,015 near-complete virus genomes collected from untargeted ultra-deep RNA/DNA combined sequencing of wastewater. Sequence data was provided by the CASPER consortium and raw data may be found on NCBI SRA under bioprojects PRJNA1247874 and PRJNA1198001. Data underwent read trimming, rRNA and human read removal, de novo assembly, and selection of high-quality viral contigs. Contigs were clustered at 95% identity and 85% query coverage to dereplicate. Chimera-checking required at least two independent assemblies of the same viral genome or presence of the genome in another reference database. Annotation made use of RdRpCATCH, geNomad, checkV, BLASTN against NCBI core-nt, and RNAVirHost. The RdRp fasta files contain representative RdRp sequences identified through homology to major RdRp reference databases and clustered at 90% sequence identity over 75% sequence coverage. Included sequences contain all three conserved RdRp motifs (A, B, and C) arranged in either the canonical ABC configuration or the permuted CAB configuration.
Hubbard, Alfred · Solares, Edwin · Hemming-Schroeder, Elizabeth
88 rows · 18 KB · fasta
These are the files needed to run the Broad Institute's malaria amplicon pipeline for the PvGAP Plasmodium vivax panel, described in detail here . They consist of FASTA files containing the forward and reverse primers and another FASTA file containing reference sequences for each target, derived from the PvP01 reference genome.
This dataset supports the findings of the manuscript "Root anatomical traits modulate the assembly and nitrogen transformation potential of root-associated microbiomes in a temperate steppe" (NPH-MS-2026-55667). It contains root traits data, bacterial 16S rRNA gene absolute abundances, functional genes relative abundances, DNA extraction metadata, and phylogenetic marker sequences for 37 plant species from a temperate steppe ecosystem. The dataset includes the following files: 1. root traits.csv - Root traits including average diameter (AD), specific root length (SRL), specific root area (SRA), root tissue density (RTD), root nitrogen content (RNC), root carbon content (RCC), carbon‑nitrogen ratio (RCN), cortex layer number (CLN), cortex thickness (CT), and the ratio of cortex thickness to root diameter (CTRD). The first column lists plant species names. 2. Absolute abundance of 16S rRNA gene.csv - Quantitative PCR (qPCR) derived absolute abundances of bacterial 16S rRNA gene copies (copies/ng DNA) across different root compartments (rhizosphere, rhizoplane, endosphere), host species, root orders, and cotyledon classes (monocot/dicot). 3. DNA extraction sample weight.csv - Fresh weight (grams) of root material used for DNA extraction for each sample, linked by SampleID to the abundance data. 4. DNA extraction concentration.csv - Qubit‑measured DNA concentrations (ng/μL) and the sample volume (μL) used for quality control, together with sample metadata. 5. 37species.fasta - DNA sequences of two chloroplast markers (matK and rbcL) for the 37 plant species included in the study. The sequences are in FASTA format with headers formatted as ">Species". These were used for host phylogeny construction and Pagel's λ analyses. 6. Quantitative PCR results of functional gene.csv - Quantitative PCR (qPCR) derived relative abundances of bacterial 16S rRNA gene and functional genes across different root compartments (rhizosphere, rhizoplane, endosphere), host species, root orders, and cotyledon classes (monocot/dicot). 7. README.md - A detailed description of each file, column headers, abbreviations, units, and any missing value codings (NA). All data are provided to ensure transparency and reproducibility of the analyses. For methodological details, please refer to the Materials and Methods section of the associated publication. These data are under embargo until the associated research article is published. After that date, they will be freely available under a Creative Commons Attribution 4.0 International (CC BY 4.0) license. During the embargo period, the metadata (title, authors, abstract) and the DOI remain publicly visible, but the data files are not accessible. For access requests before the embargo expires, please contact the corresponding author.
Requena Rolanía, Jose María · Greif, Gonzalo · ROBELLO, CARLOS
1 files · 8.0 MB · fasta
This dataset contains the genome sequence for Trypanosoma cruzi (strain Dm28c). This genome sequence was de novo assembled using PacBio Hi-Fi and Illumina sequencing platforms by Greif et al (2026. PMID: 41501640). The genome was assembled into 32 contigs, which represent complete chromosomes. The provided Fasta file also contains an additional contig corresponding to the maxicircle (mitochondrial genome) sequence. The Fasta files included in this dataset were downloaded from GenBank (assembly GCA_044048535.1; May 22, 2026). Additional information about the Dm28cT2T genome assembly and gene annotations may be accessed through the link: https://cruzi.pasteur.uy/
Burman, Nathaniel · Buyukyoruk, Murat · Wiegand, Tanner · et al.
4 files · 8.0 MB · fasta
This folder contains a multiple sequence alignment of Cas7 homologs in .fasta format, the domain-level annotations from PFAM and CasFinder, and an associated phylogenetic tree in .newick format.
Large language models (LLMs) are trained on massive, publicly available text datasets comprising trillions of tokens, enabling them to excel at general language tasks like next-token prediction. However, LLMs often struggle with domain-specific prompts, exhibiting reduced accuracy or generating inaccurate information (hallucinations). This is because they lack sufficient subject matter expertise. Two primary approaches exist to address this limitation for augmenting LLMs knowledge: Retrieval-Augmented Generation (RAG) and fine-tuning. This presentation focuses on fine-tuning smaller LLMs with domain-specific instruct datasets using the LoRA (Low-Rank Adaptation) technique on Gaudi hardware. We will leverage publicly available LLMs and datasets from the Hugging Face Hub for this demonstration. Though it is possible to fine tune LLMs with plain text data - sourced from documents, articles, and other materials.
EuroFlood is an open, cloud-native index over the JRC/Copernicus CEMS-EFAS Satellite-Derived Flood Depth Maps for Europe (Betterle & Salamon, 2025; CC-BY-4.0) - ~3,280 satellite-derived observed flood-depth maps across Europe, 2015-2024. The bundle is a sparse Cloud-Optimized GeoTIFF encoding, per pixel, the set of flood events that inundated it, plus a combo_id -sorted GeoParquet dictionary and a small events table. Query by region and time via HTTP range reads (GDAL /vsicurl + DuckDB) to retrieve matching events, then fetch only the source depth rasters needed. Built with the open-source EuroFlood Python package ( pip install euroflood ).
Njie, Adama · Torkayesh, Ali E · Venghaus, Prof. Dr. Sandra
10 files · 1.6 GB · csv, gzip, parquetdeclared
Structured, speaker-attributed corpus of all German Bundestag plenary session transcripts ( Plenarprotokolle ) from the first legislative period to the present (WP01-WP21, September 1949 - April 2026). Every attributed speech is extracted from the official PDFs published by the Deutscher Bundestag under open data policy and linked to the speaker's name, parliamentary role, party affiliation, and gender. Scale: 4,611 sessions · 1,033,723 speeches · 4,205 identified MdBs · 76 years of parliamentary debate Dataset files speeches.parquet - one row per attributed speech: speaker name, role, party, gender, stammdaten_id, full German text (~1 GB) persons.parquet - one row per MdB: cross-session identity linking all name variants via stammdaten_id; canonical name, birth date, career span, total speeches. Use this - not speakers.parquet - for person-level analysis sessions.parquet - one row per plenary session: date, city, Wahlperiode, source PDF hash, extraction engine speakers.parquet - name-string index: one row per unique name string as extracted from the transcripts. Useful for understanding extraction quality; not suitable for person-level aggregation (the same politician often appears under several name variants across sessions) parties.csv - reference table of 31 German parliamentary parties, 1949-present speeches.csv.gz - CSV fallback for Stata and Excel users (same columns as speeches.parquet) datapackage.json - Frictionless Data schema with column descriptions and foreign key constraints Cross-session identity The same politician often appears under different name strings across sessions (e.g. "Schmidt", "Dr. Schmidt", "Frau Dr. Schmidt"). Cross-session person linkage is provided via stammdaten_id , matched against the official Bundestag Stammdaten biographical XML. The persons.parquet table aggregates all name variants for the same MdB into one row with correctly summed speech counts, career span, and birth date. Coverage: ~98.5% of speeches are linked to a stammdaten_id; the remaining ~1.5% are ambiguous surname-only attributions or speakers not in the Stammdaten. Coverage and sources Source PDFs are the official Stenografische Berichte downloaded from the Bundestag open-data portal (bundestag.de). Party-share normalisation in the corpus statistics uses official seat counts per Wahlperiode sourced from the Federal Returning Officer (Bundeswahlleiter, bundeswahlleiter.de). Two PDF generations are covered: scanned and OCR'd documents (WP01-WP09, Bonn era, 1949-1987) and born-digital documents (WP10-WP21, 1987-present). The engine column in sessions.parquet flags whether pdftotext (born-digital) or pdfminer (OCR fallback) was used; this is the primary data-quality indicator for NLP use. Speaker attribution Each speech is attributed using four patterns extracted from the transcript format: presiding officers (Präsident/in, Vizepräsident/in), regular members (name + party), government officials (name + Bundeskanzler/in, Bundesminister/in, etc.), and procedural roles (Berichterstatter/in, etc.). The party field is null for ~60% of speeches - this is expected, as presiding officers and ministers are not identified by party in the transcript. Gender annotation & distribution Gender is derived by matching speaker names against the official Bundestag Stammdaten biographical XML (all MdBs since 1949), with fallbacks for role title, honorific prefix, manually researched overrides, and a gender_guesser first-name heuristic. The gender_source column distinguishes stammdaten (authoritative, 83%), role_title (gendered job title in attribution, 6.4%), title_prefix (Frau/Herr honorific, 0.5%), manual (historically researched, 2.9%), and inferred (name-based heuristic, 4.7%). Gender distribution: Female 26.6% · Male 73.4% · Unknown 0.0%. Data quality All speeches pass automated validation: zero null speaker names, zero sequence gaps, zero CID artefacts, zero party-misclassified-as-Bundesland errors. Eight sessions with conflicting source PDFs were deduplicated (first lexicographic occurrence retained). 252 non-person names incorrectly accepted by the parser (table headers, legislative terms, agenda fragments) are excluded at build time via a curated exclusion list. OCR sessions (WP01-WP09) may contain Unicode replacement characters (U+FFFD); the engine field identifies these sessions. Licence CC BY 4.0. The underlying Plenarprotokolle are official government documents of the Deutscher Bundestag and are in the public domain.
This record contains the trained autoencoder, extracted encoder, and processed world/real-river latent-space reference cloud associated with the manuscript *A data-driven approach to discern the curvature spectral complexity of compound meander bends*. The full autoencoder is provided to support reconstruction-based validation and reproducibility of the learned representation. The extracted encoder is provided for inference and future software tools. It maps preprocessed 64 × 64 single-channel curvature-spectrum images to the two-dimensional latent space used to analyse meander shape complexity and skewness. The file `world_latent_cloud.npy` contains the two-dimensional latent coordinates of the world/real-river meander dataset used as the reference background cloud in the manuscript latent-space figures. This file is a processed latent-coordinate dataset only; it does not contain raw satellite imagery, raw centreline geometries, or training images. The release includes model weights, architecture files, model summaries, export metadata, the world/real-river latent cloud, example inference scripts, a validation script, environment files, and a minimal example input. The models should only be applied to curvature-spectrum images generated consistently with the preprocessing workflow described in the associated manuscript. Main files included in this release are: - trained_autoencoder.h5: full trained autoencoder. - encoder_only.h5: extracted encoder in HDF5/Keras format. - encoder_only.keras: extracted encoder in native Keras format. - model_architecture.json: full autoencoder architecture. - encoder_architecture.json: encoder architecture. - model_summary.tx and encoder_summary.txt: layer summaries. - world_latent_cloud.npy: world/real-river reference latent-space cloud. - world_latent_cloud_metadata.json: metadata for the world/real-river latent-space cloud. - model_card.md: intended use, inputs, outputs, limitations, and citation guidance.
abdulwahab, samaa · aduallah, mahmood z. · Sallomi, Adheed H.
34 files · 2.7 GB · csv, gzip, parquetdeclared
Intrusion-detection research on Internet Protocol version 6 (IPv6) remains bottlenecked by the scarcity of labelled, protocol-aware flow datasets. Existing machine-learning IDS benchmarks are overwhelmingly IPv4-centric, and the few IPv6 corpora that have been released target narrow attack families or rely on small academic testbeds that cannot be re-created by third parties. We present IPv6-CyberBench, a reproducible eight-phase pipeline that constructs a large, protocol-aware translated-flow corpus by harmonising CIC-IDS-2017, CIC-IDS-2018 and CIC-DDoS-2019, applying deterministic IPv4→IPv6 address translation (6to4, NAT64, Teredo, EUI-64), synthesising 27 IPv6-specific flow features grouped in six protocol families, enforcing nineteen RFC-derived constraint categories together with temporal address dynamics, and rebalancing the long-tailed class distribution with a feature-group-conditioned per-class Wasserstein-GAN-GP augmenter and a SMOTE-KDE fallback selected per class by a formal decision rule. We scope the contribution honestly: because the seed corpora are IPv4 captures, the resulting 2,285,774-record benchmark is a translated-flow corpus suitable for training and evaluating flow-level IPv6 IDS classifiers on flooding, brute-force, scan, web-attack and infiltration traffic under IPv6 protocol-header semantics, and for studying IPv6-specific feature engineering and address dynamics in a reproducible setting. It is not a substitute for protocol-native IPv6 attack capture, and we explicitly exclude ICMPv6 Neighbour-Discovery flooding, SEND flooding, NDP exhaustion and extension-header covert-tunnelling from the threat model. The benchmark is evaluated on four axes - fidelity (Kolmogorov-Smirnov, MMD, Fréchet feature distance), utility (stratified 5×5 nested cross-validation over six classifier families including CNN-LSTM and LightGBM), privacy (Shokri-style membership-inference advantage AUC), and external fidelity against a 24 h anonymised CAIDA IPv6 trace (equinix-chicago, US backbone) and a MAWI samplepoint-F trace (WIDE backbone, Tokyo, Japan). The full pipeline, the hyper-parameter manifest, the RFC-constraint manifest, the reproduction scripts, and the 2,285,774-record benchmark are released unconditionally on Zenodo under CC BY 4.0; the dataset and pipeline are openly available at https://doi.org/10.5281/zenodo.19503446 (CC BY 4.0).
Version history Version 2: This version updates Figure1.py and MainFigure.ipynb to match the revised manuscript submitted to Geophysical Research Letters. Specifically, a scale bar was added to Figure 1. No changes were made to the input datasets, analysis workflow, or scientific results. Code All results were analyzed and visualized by Python version 3.9.18. Filename Description MainFigures.ipynb Jupyter Notebook for reproduce all figures in the article. Figure*.py Python file for reproduce each figure in the article. Data Ground Station Observation Filename Description 467530_hr_19800101_20230101.csv Alishan station data managed by Central Weather Administration (CWA) of Taiwan, which is generated from Atmospheric Science Research and Application Databank . Solar Radiation Reduction Ratio (RR SR ) Results Filename Description ReductionRatio_20151001_20220930_31_daily.nc RR SR of Taiwan (119.9°E-122.1°E, 21.8°N-25.4°N, 0.01° x 0.01°) from 2015-10-01 to 2022-09-30, which is generated from TCCIP Grid-point Surface Insolation Derived from Geostationary Satellite Dataset . *_hr_20151001_20220930_seasonal.csv Seasonal mean RR SR for 6 CWA stations (Alishan, Anbu, Yushan, Sun Moon Lake, Chiayi, and Keelung). *_hr_20151001_20220930_DJF_NE_means.csv Winter (December-February) event-mean RR SR for 6 CWA stations (Alishan, Anbu, Yushan, Sun Moon Lake, Chiayi, and Keelung). Land and Non-rainy Mask Filename Description LandNonRainyMask_2015_2022.nc Mask for land area and non-rainy data, which is generated from TCCIP Gridded Historical Daily Dataset for Taiwan . Land-type Classification Generated from Schulz et al. (2017) . Filename Description MCF2017.zip Shapefile of montane cloud forests (MCFs) region in Taiwan. nonMCF2017.zip Shapefile of forest region other than montane cloud forest in Taiwan. MCFfraction_TCCIP.npy Forest classification in Taiwan regrid to TCCIP dataset. North-easterlies events classification Adopted from Taiwan Atmospheric Event Database . Filename Description TAD_NE.csv North-easterlies events classification based on the criteria of Taiwan Atmospheric Event Database (TAD). Others Generated from Open Data in Taiwan . Filename Description Taiwan_WGS84.zip Shapefile of coastlines of Taiwan. dem20_TCCIPInsolation.nc Digital Elevation Model of Taiwan regrid to TCCIP dataset. Note Please unzip .zip first to get shapfile before reproduce the figures in the article.
Meekes, Lisa · Tabaro, Francesco · Bexkens, Michiel · et al.
41 files · 8.2 GB · csv, fasta, pdfdeclared
This record contains the Python software for PEPTiGEN, a tool for generating tryptic peptides from prokaryotic gene sequences and their variants, and the associated antimicrobial resistance (AMR) peptide database. The database is provided as an SQL file and a CSV file containing all genes and predicted peptides. The README file contains explanation of the PEPTiGEN tool. The SQL database schema files contains both the database schema of the SQL database used in the PEPTiGEN analysis as the database schema of the AMR peptide datbase.
This dataset provides a fixed benchmark dataset for stellar atmospheric parameter estimation from Sloan Digital Sky Survey Data Release 12 (SDSS DR12) optical stellar spectra. The dataset is organized into three predefined Parquet splits: 30,000 spectra for training, 5,000 spectra for validation, and 15,000 spectra for testing. Each row corresponds to one SDSS stellar spectrum and includes raw spectral arrays, fixed-length processed spectral features, source identifiers, basic metadata, and catalog stellar-parameter labels with their associated uncertainties. The supervised regression targets are the adopted catalog stellar atmospheric parameters: effective temperature (Teff, in K), metallicity ([Fe/H], in dex), and surface gravity (log g, in dex). The dataset also includes relevant observational and catalog information such as SDSS plate, MJD, fiber identifier, sky coordinates, signal-to-noise ratio, adopted radial velocity, raw flux, logarithmic wavelength grid, inverse variance, pixel mask, and processed flux features. This release is intended to support machine-learning research on stellar spectroscopy, including regression models for atmospheric parameter estimation, benchmark comparisons, uncertainty-aware evaluation, and experiments using either processed fixed-length spectra or native observed-frame spectral arrays.
Description This deposit contains annual, municipality-level datasets derived from the Brazilian Primary Health Care Information System (SISAB). The files combine two complementary data sources: Public SISAB Saúde report downloads from the Atendimento/Visita production report. CID-10 and CIAP-2 attendance data obtained from SISAB through requests under the Brazilian Access to Information Law (Lei de Acesso à Informação, LAI). The datasets are organized as tidy annual files in CSV (Zipped) and Parquet format. They are intended to support reproducible analysis of primary care production, procedures, evaluated problems/conditions, and CID/CIAP-coded attendances across Brazilian municipalities. The public SISAB report datasets are stratified by competence month, state, municipality, DataSUS age group, SISAB sex category, and the selected report category. For each competence month and report type, the extraction combines 36 stratified SISAB downloads: 18 age groups by 2 sex values. Monthly files are merged into yearly files, completing missing combinations of observed competence, municipality, age group, sex, and category with valor = 0 . The LAI dataset contains yearly CID-10 and CIAP-2 attendance counts by competence month, municipality, code type, and code. When multiple valid LAI files cover the same competence, the processing pipeline selects the file with the largest number of data rows, using file size and request folder order as tie-breakers. Provenance columns identify the selected LAI request and source file. Variables SISAB Saúde Produção Columns: competencia : competence month in YYYYMM format. uf : Brazilian state abbreviation. ibge : municipality IBGE code. municipio : municipality name. faixa_etaria : Age group. sexo : SISAB sex category, Masculino or Feminino . tipo_producao : production type from the SISAB report. valor : count reported by SISAB. SISAB Saúde Procedimento Columns: competencia : competence month in YYYYMM format. uf : Brazilian state abbreviation. ibge : municipality IBGE code. municipio : municipality name. faixa_etaria : age group. sexo : SISAB sex category, Masculino or Feminino . procedimento : procedure from the SISAB report. valor : count reported by SISAB SISAB Saúde Condição Avaliada Columns: competencia : competence month in YYYYMM format. uf : Brazilian state abbreviation. ibge : municipality IBGE code. municipio : municipality name. faixa_etaria : age group. sexo : SISAB sex category, Masculino or Feminino . condicao_avaliada : evaluated problem or condition from the SISAB report. valor : count reported by SISAB. SISAB LAI CID/CIAP Columns: ano_competencia : competence year. competencia : competence month in YYYYMM format. competencia_date : first day of the competence month. co_municipio_ibge : municipality IBGE code. tp_codigo : code type, CID or CIAP . codigo : CID-10 or CIAP-2 code. qt_atendimentos : number of attendances. source_request : selected LAI request folder. source_file : selected source CSV file. Methods The public SISAB report files were generated with the sisab_scrapper processing pipeline. For each month, report type, age group, and sex value, the pipeline downloads the all-Brazil municipality report from SISAB, validates the returned CSV, preserves raw cache files for resumable runs, and writes a sorted monthly tidy dataset. The yearly merge validates required columns, expected age groups, expected sex values, category values, and month gaps unless explicitly allowed. The CID/CIAP files were generated with the sisab_lai processing pipeline. The pipeline imports CSV files received through LAI requests, detects the real CSV header after any SQL*Plus preamble, validates candidate files, resolves overlapping requests by competence, standardizes old and new schemas into one tidy table, and exports annual CSV and Parquet files together with audit reports. Sources - SISAB public reports, Ministry of Health, Brazil: https://sisab.saude.gov.br/ - SISAB LAI files obtained through Brazilian Access to Information Law requests. - Processing code for public SISAB report data: https://github.com/rfsaldanha/sisab_scrapper - Processing code for LAI CID/CIAP data: https://github.com/rfsaldanha/sisab_lai Notes - Counts are aggregated administrative records and should be interpreted in light of SISAB reporting practices, data quality, and changes in municipal reporting coverage. - Municipality boundaries, names, and coding practices may vary over time. - Public SISAB report datasets are completed with zero values only for combinations defined by observed municipalities, observed competencies, all expected age groups, both expected sex values, and observed report categories within the yearly merge. - LAI CID/CIAP data preserves selected source-file provenance through source_request and source_file . - This deposit corresponds to an individual year. Deposits for other years are published separately.
Voltage calibration data taken on 10/06/2026 of all ten 10 MHz PS cavities (exluding the spare C11). Measurements were taken, pulsing each cavity individually at harmonics h7 - h21 and voltages of 10 kV, 12.5 kV, 15 kV, 17.5 kV and 20 kV. Note, due to cavity trips, no useful data was collected for C10-46 and C10-86.
Bir, Joyanta · Cancio, Ibon · Diaz de cerio, Oihane · et al.
3 files · 100 KB · fasta, xlsxdeclared
This data file contains the data associated with the manuscript entitled "Duplication of the Genes Coding the Proteins That Regulate RNA Polymerase III Activity and Differential Transcription in Tissues of Teleost Fish."
This repository contains the complete chemosensory protein and nucleotide sequences, along with the results of evolutionary selection tests for 13 species of the genus Rhodnius . 1. Project Description This dataset supports the study of the chemosensory repertoire (ORs, GRs, IRs, OBPs, and CSPs) across 13 Rhodnius genomes. The study highlights the contrast between the conservation of Gustatory (GRs) and Ionotropic (IRs) receptors and the high dynamic evolution of Odorant Receptors (ORs), particularly in species adapted to human habitats. 2. Repository Structure 2.1 Sequence Data (FASTA) The following files contain all identified chemosensory genes in both amino acid ( .faa ) and nucleotide ( .fna ) formats: Rhodnius_OR_proteins.faa / Rhodnius_OR_CDS.fna : Odorant Receptors. Rhodnius_GR_proteins.faa / Rhodnius_GR_CDS.fna : Gustatory Receptors Rhodnius_IR_proteins.faa / Rhodnius_IR_CDS.fna : Ionotropic Receptors. Rhodnius_OBP_proteins.faa / Rhodnius_OBP_CDS.fna : Odorant-Binding Proteins. Rhodnius_CSP_proteins.faa / Rhodnius_CSP_CDS.fna : Chemosensory Proteins. 2.2 Phylogenetic Trees Archives containing the multiple sequence alignments and the resulting phylogenetic trees (Newick/Treefile format): OR_trees.zip : Alignment ( OR.ali.fasta ) and tree file ( OR.ali.treefile ) for Odorant Receptors. GR_trees.zip : Alignment ( GR.ali.fasta ) and tree file ( GR.ali.treefile ) for Gustatory Receptors. IR_trees.zip : Alignment ( IR.ali.fasta ) and tree file ( IR.ali.treefile ) for Ionotropic Receptors. OBP_trees.zip : Alignment ( OBP.ali.fasta ) and tree file ( OBP.ali.treefile ) for Odorant-Binding Proteins. CSP_trees.zip : Alignment ( CSP.ali.fasta ) and tree file ( CSP.ali.treefile ) for Chemosensory Proteins. 2.3 Evolutionary Selection Tests These archives contain the results of selection pressure analyses (e.g., dN/dS ratios, Likelihood Ratio Tests). Each gene family folder is subdivided by orthologous groups (e.g., GR1, GR2). OR_selection.zip GR_selection.zip IR_selection.zip Inside each selection archive, you will find: *_ali.fasta : Codon-based multiple sequence alignment. *_ali.pml : Codon-based multiple sequence alignment in PAML-friendly format. tree : The phylogenetic tree used for the selection model. LRT_BM.xls / BM_LRT.xls : Results for the Branch Model tests (domiciliary species vs. sylvatic species, see the associated paper). LRT_SM.xls / SM_LRT.xls : Results for the Site Model tests. 3. Methods Brief Genomes: Genomic data were sourced from NCBI (see paper for specific assembly accessions) . Annotation : Initial identification was performed using insectOR and Exonerate , followed by manual curation of gene models. Trees : Alignements was performed using MAFFT and ML trees using IQ-TREE . Selection Tests : Positive selection was assessed using PAML (codeml, EasyCodeML) on codon-aligned sequences. 4. Species Included Rhodnius bretesi Rhodnius colombiensis Rhodnius (=Psammolestes) coreodes Rhodnius domesticus Rhodnius milesi Rhodnius montenegrensis Rhodnius nastutus Rhodnius neglectus Rhodnius neivai Rhodnius pallescens Rhodnius pictipes Rhodnius prolixus Rhodnius robustus 5. Usage and Citation If you use these data, please cite the original publication: Merle, M. et al. (2026). Evolutionary Dynamics of the Complete Chemosensory Repertoire in Kissing Bugs of the Genus Rhodnius: Divergent Odorant Receptors Contrast with Conserved Gene Families. ( in prep ) For the specific dataset version, you can also cite this Zenodo DOI: DOI: 10.5281/zenodo.19064793