Find research datasets worth reusing

stjude/XenoCP GRCm39 reference

BWA and STAR format reference files for GRCm39 used by XenoCPFASTA file from EBI GRCm39 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M33/GRCm39.genome.fa.gz)STAR reference uses Gencode release M33 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M33/gencode.vM33.annotation.gtf.gz).

stjude/XenoCP GRCm38 reference

BWA and STAR format reference files for GRCm38 used by XenoCPFASTA file from EBI GRCm38.p6 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/GRCm38.p6.genome.fa.gz)STAR reference uses Gencode release M25 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/gencode.vM25.annotation.gtf.gz).

opencc-by-4.0Aug 2021View details →

stjude/XenoCP MGSCv37 reference

BWA and STAR format reference files for MGSCv37 used by XenoCPSTAR reference uses Gencode release M1 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M1/gencode.vM1.annotation.gtf.gz).

Reference data bundle for PacificBiosciences/wdl-humanassembly

Static input files to support alignment of generated assemblies to both GRCh38 and chm13v2.0 references.https://github.com/PacificBiosciences/wdl-humanassembly

Reference Mesh and Point Cloud

Data Structuregt_mesh.ply (cleaned reference mesh)gt_pd.ply (reference faro scanner point cloud)icp_kinect (the transformation matrix that is used to transform Kinect pose stored in transformation_colmap.json to align with the gt_mesh/pd )icp_iphone (the transformation matrix that is used to transform iPhone pose stored in transformation_colmap.json to align with the gt_mesh/pd )

Extended SILVA reference taxonomy resources

Open the record for dataset details and reuse information.

Chromosome-level Reference Genome of the Critically Endangered Tree Kmeria septentrionalis

Kmeria septentrionalis, a critically endangered tree endemic to Guangxi in China and listed on the International Union for Conservation of Nature's Red List, suffers from a lack of genetic information and a paucity of high-quality genome data. In our study, we construct and annotate a complete K. septentrionalis genome at the chromosome level, assess its quality, and contextualize it with the genomic data of other relative plants. The genome is measured at 2.57 Gb with a contig N50 of 11.93 Mb. Using Hi-C guided genome assembly, we assembled 496 out of the initial 705 raw contigs into 19 pseudochromosomes that have a scaffold N50 of 135.08 Mb. The assembled 2.54 Gb anchored genome has achieved 98.9% completeness, and contains 35,927 genes, of which 94.15% could be functional annotated.

The Translation of Cultural Referents in African Feminist Discourse

This corpus-based research investigated the problem of translating cultural referents from an African feminist context into English. It was based on the premise that due to the inherent differences in the two cultures, the translation exists in a space of deviation. Hence, cultural referents in Calixthe Beyala's (2000) Comment cuisiner son mari à l'africaine were identified and classified under Santamaria's (2010:522) five ideological categories, namely history, social structure, cultural institutions, social universe and material culture. Thereafter, the strategies for translating them were identified and the space of existence of the translations was investigated. Toury's (1985) Descriptive Translation Studies (DTS) and Lazar's (2005) Feminist Critical Discourse Analysis were applied for data collection and analyses to identify, describe, and explain 20 excerpts which embed cultural referents (five from each ideological category). For literary analyses, post-structuralist, formalist, biographical and sociological criticism were applied. Deconstruction, manipulation and communicative/functional translation theories were amenable to the research, while post-modern and cultural theories were applied for feminist analyses. The findings revealed that the translator mostly used hijacking and oblique translation to render cultural referents from French into English. The translations produced by these strategies were judged, according to Von Flotow's (1998) criteria, to determine if they were shoddy, inaccessible/elitistor theoretically incongruent/hypocritical translations. The conclusion arrived at was that the rendering of cultural referents in the target text was, indeed, a complete deviation due to loss or gain, untranslatability, the problem of equivalence, issues with decoding and recoding as well as lapses attributable to the fundamental linguistic and cultural differences between the source and target languages. This confirmed the assumption that the translation of cultural referents in the novel exists as a heterotopia of deviation. It was, therefore, recommended that to adequately render cultural referents in feminist discourse, precedence should be given to the text-in-situation, that is, extralinguistic elements that condition text interpretation and reformulation, that are conditioned by cultural and linguistic differences between the author and translator.

opencc-by-4.0Mar 2022View details →

Reference data for sigminer/IDConverter

Gene and element info for common genome build. Sample ID information for TCGA, PCAWG, ICGC

Reference data for GenoPred (1KG)

Pre-processed reference genotype data (1KG Phase 3 restricted to HapMap3 variants) for GenoPredPipe: https://opain.github.io/GenoPred/genopredpipe_readme.html.

opencc-by-4.0Jan 2022View details →

INFLUENCE OF COVID-19 PANDEMIC ON ONLINE MARKETING. (A SPECIAL REFERENCE TO JALGAON CITY.)

COVID-19 pandemic has stirred every single individual around, bringing the  entire society to a pause in all features. It is affecting businesses, institutions, and health  amenities. Even marketing has not been forborne by this pandemic. This situation will have a  long-term influence on man-kind, though we could go back to our normal life in a few  months. On the other hand, due to the policy of Digital India, every part of the nation is now  connected with the internet, having digital gadgets to obtain online information. During this pandemic situation, it is observed that people are spending more and more time  online. In fact, according to Forbes, during this pandemic situation internet has surged by 50- 70% in the world. Therefore, firms need to precisely determine their online marketing policy  and find unique & fine-tuned ways to communicate not only during the time but should also  have the long term approach.  The present research article critically examines and highlights the opportunities and  challenges of Online Marketing in and after the COVID-19 situation, as per the perception of  both buyers and suppliers in Jalgaon City. The researcher gathered the polls to manifest the  situation of Online Marketing in two parts, the general respondent consisting of the  consumers and specialist respondents such as the marketing personnel. A survey of 167  buyers (Consumer) and 37 suppliers (marketing personnel) were conducted using the  convenience sampling method.

Flexibility Matters: Assessing the Flexibility Impact of Small and Medium Enterprises on the German Energy Transition: Dataset for Reference Scenario

This repo contains the dataset for reference scenario for the paper Flexibility Matters: Assessing the Flexibility Impact of Small and Medium Enterprises on the German Energy Transition More information can be found here: https://github.com/AnasAbuzayed/SME_Flexibility

opencc-by-4.0Apr 2023View details →

Reference Dataset for QfO Benchmark Webservice

This dataset contains the reference data used for the QfO benchmark webservice workflow (https://github.com/qfo/benchmark-webservice). It is build from the QfO reference proteomes provided by UniProt. The dataset is specific to the release of the reference proteome. The version of this dataset reflects the version of the QfO Reference Proteome dataset.

opencc-by-4.0Jan 2024View details →

List of referencies cited in Appendix 1

List of referencies cited in Appendix 1

Literature references for the Explainability Quality Model

This is the supplementary material to the paper "How Explainable is Your System? Towards a Quality Model for Explainability", which was published at the 30th International Working Conference on Requirement Engineering: Foundation for Software Quality (REFSQ) in 2024. This document indicates om which papers each aspect, criterion and metric originates. It also indicates for each paper from which snowballing phase it originates.

opencc-by-4.0Mar 2024View details →

Phased T2T reference genome and pangenome reveal expanded resistance gene analogs in apple domestication

Phased T2T reference genome and pangenome reveal expanded resistance gene analogs in apple domestication The data contains two files, namely genome file and genome annotation file: 1. Genome: This file contains 12 genomes for 5 species (cultivar), namely: Malus domestica cv. ‘Golden Delicious’ (GD), Malus domestica cv. ‘Gala’ (Gala), Malus domestica cv. ‘Honeycrisp’ (HC), Malus domestica cv. ‘HFTH1’ (HFTH1), Malus baccata (Mba), Malus sieversii (Msi), and Malus sylvestris (Msy) 2. Genome annotation: Corresponding to the genome file. Note: Hap1 and hap2 represent two haplotypes of a species (cultivar), all data used for the construction of pan-genomes and comparative genomics analysis.

The reference chromosome genome for Zhengitettix transpicula

The reference chromosome genome for Zhengitettix transpicula. The HIC genome and the gff3 annotation file.

opencc-by-4.0Jun 2022View details →

treeArches: reference models & latent space

treeArches is a framework around scArches and scHPL to create and extend a reference atlas and the corresponding classification tree. This repository contains the models used for data integration, the latent spaces created, and the trained classification for the HLCA.  The treeArches reproducibility <a href="https://github.com/lcmmichielsen/treeArches-reproducibility">GitHub</a> can be used to reproduce all results.

opencc-by-4.0Apr 2024View details →

UHGG v1 reference for LocalHGT

Please download the file UHGG_v1.fasta.gz and unzip it by "gzip -d UHGG_v1.fasta.gz".  After that, pass the full path of the file "UHGG_v1.fasta" to LocalHGT by "localhgt bkp -r /path-to/UHGG_v1.fasta" or  "localhgt event -r /path-to/UHGG_v1.fasta". "UHGG_v1.fna.fai" is the index file, you can download it or not. If you download it, you should put it in the same folder as UHGG_v1.fasta. If you don't download it, LocalHGT will generate it automatically. If you want to analyze HGTs in human gut microbiome, you can use this reference. Detailed instructions can be seen at <a href="https://github.com/deepomicslab/LocalHGT">LocalHGT</a>.