cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26036/cnphis0000248
title: High-throughput monitoring of wild bee diversity and abundance via mitogenomics

description: The 48 mitogenome assemblies and metadata for the individual bee libraries and the bulk-sample libraries have have been deposited in the Dryad depository: http://datadryad.org/resource/doi:10.5061/dryad.r7122. Project summary: Wild bees collectively play a keystone role in the pollination of wild plants and cultivated crops and thereby help to maintain biodiversity and increase food production. Evidence of declines in wild pollinators and insect-pollinated plants requires high-throughput methods to monitor bee abundance and diversity, since the number of wild bee species ranges from hundreds to thousands per country. Morphology-based identification and PCR-based metabarcoding are inefficient because taxonomic expertise is scarce, and the Hymenoptera are recalcitrant to PCR. We have developed a metagenomic approach to identify bee species from bulk samples, and to monitor wild bee diversity and abundance.
DOI: 10.26036/cnphis0000972
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0000973
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0000974
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0000975
title: Resequencing Wolbachia-cured Drosophila ananassae 14024-0371.31

description: None
DOI: 10.26036/cnphis0000977
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000978
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000979
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000980
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000982
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000249
title: RNA_sequencing of venom gland from Chinese

description: We sequenced the transcripts of venom gland from 24 Chinese yellow catfish
DOI: 10.26036/cnphis0000251
title: Canis lupus chanco genome

description: We performed DNA-sequencing of Canis lupus chanco
DOI: 10.26036/cnphis0000253
title: Personal Genome Project

description: The Personal Genome Project (PGP) is a long term, large cohort study which aims to sequence and publicize the complete genomes and medical records of 100,000 volunteers, in order to enable research into personal genomics and personalized medicine. Reprinted from http://en.wikipedia.org/wiki/Personal_Genome_Project, text is available under the Creative Commons Attribution-ShareAlike License
DOI: 10.26036/cnphis0000254
title: ccRCC_EXON

description: We sequenced 1 ccRCC patient using WES
DOI: 10.26036/cnphis0000255
title: Betula platyphylla Genome sequencing

description: Providing a genome reference sequence of a pioneer tree.
DOI: 10.26036/cnphis0000256
title: Homo sapiens Targeted NGS

description: Targeted NGS for Clinical Diagnosis of Mendelian Diseases
DOI: 10.26036/cnphis0000981
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000983
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000984
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000985
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000986
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000987
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000988
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000250
title: Philomachus pugnax WGS

description: Whole genome sequencing of Philomachus pugnax
DOI: 10.26036/cnphis0000257
title: Eustoma grandiflorum raw sequence reads

description: Eustoma grandiflorum (Raf.) Shinn. is a quantitative long-day plants and native to grasslands from southern North America to northern South America and very popular as an ornamental cut flower crop. However, in regions limited exposure of sunshine during winter, retardation of plant growth and flowering of Eustoma plants for shipments in winter and spring is serious problems. Eustoma plants treated with Far-red (FR) light of only 3 hours at the end of the day (EOD) during winter seasons showed a longer main stem compared with untreated plants. In this study, we analyzed the transcriptome of leaf in Eustoma plants treated and untreated with EOD-FR.
DOI: 10.26036/cnphis0000258
title: Homo sapiens nasopharyngeal carcinoma raw sequence reads

description: MicroRNAs (miRNAs) have been shown to play a considerable role in the development and progression of nasopharyngeal carcinoma(NPC). Despite accumulating studies on the molecular mechanisms of NPC, the miRNA regulatory networks in cancer progression remain largely unknown. Laser capture microdissection(LCM) and deep sequencing are powerful tools that can help us to detect the integrated view of miRNA-target network.
DOI: 10.26036/cnphis0000259
title: Conus betulinus Transcriptome or Gene expression

description: The venom of predatory marine cone snails mainly contains a diverse array of unique bioactive peptides commonly referred to as conopeptides or conotoxins. These peptides have proven to be valuable pharmacological probes and potential drugs because of their high specificity and affinity to important ion channels, receptors and transporters of the nervous system. The most important purpose of the study was to find more novel conotoxin genes?
DOI: 10.26036/cnphis0000260
title: Homo sapiens Transcriptome or Gene expression.SRP061603

description: In this study, we used RNA sequencing tostudy the differently expressed genes (DEGs) in peripheral blood mononuclear cells(PBMC) of 10 RA and 10 T2D patients comparing with 10 healthy volunteers (control).We used bioinformatics analysis and the Ingenuity Pathways Analysis (IPA) to discoverthe commonalities on signaling pathways and molecular networks between those twodiseases.
DOI: 10.26036/cnphis0000261
title: Tursiops truncatus WGS

description: Whole genome sequencing of Tursiops truncatus
DOI: 10.26036/cnphis0000263
title: Whole-genome sequencing of the endangered bovine species gayal (Bos frontalis) provides new insights into its genetic features

description: -
DOI: 10.26036/cnphis0000264
title: Full-length single-cell RNA-seq applied to a viral human cancer: Applications to HPV expression and splicing analysis in HeLa S3 cells

description: In this study, we produced full-length RNA-seq data of 45 single HeLa S3 cells, 8 replicates of 10 pg total RNA and one 5 ng total RNA from HeLa S3 cell population. Using this data, we investigated the heterogeneity of HeLa S3 cells in gene expression, alternative splicing, fusion and HPV-host fusion and expression. This study provides comprehensive transcriptomic characters of HeLa S3 cells at the single cell level.
DOI: 10.26036/cnphis0000265
title: Synthetic chromosome SynII

description: This project is a part of Synthetic Yeast Genome Project (Sc2.0). Here we design, assemble, and characterized Sc2.0 chromosome II, SynII
DOI: 10.26036/cnphis0000989
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000990
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000991
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000992
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000993
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000994
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000995
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000996
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000997
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000266
title: Escherichia coli O104:H4 str. TY-2482 Genome sequencing and assembly

description: Escherichia coli TY-2482. This enterohemorrhagic E. coli strain is implicated in the spring 2011 European outbreak EHEC serotype O104.
DOI: 10.26036/cnphis0000268
title: Amusium pleuronectes Transcriptome or Gene expression

description: Amusium pleuronectes(Linnaeus) that secretes red- and white-colored valves in two branches of mantle tissues is an excellent model for shell color research. High-throughput transcriptome sequencing and profiling were applied in this project to reveal the detailed molecular mechanism of this phenotype differentiation. Amusium pleuronectes (Linnaeus) that secretes red- and white-colored valves in two branches of mantle tissues is an excellent model for shell color research. High-throughput transcriptome sequencing and profiling were applied in this project to reveal the detailed molecular mechanism of this phenotype differentiation.
DOI: 10.26036/cnphis0000269
title: Amusium pleuronectes mantle transcriptome

description: Transcriptome sequencing of Amusium pleuronectes
DOI: 10.26036/cnphis0000271
title: Home Sapiens,UHRR transcriptome sequencing

description: Universal human reference RNA (UHRR) was used for library construction by RNaseIII and an alternative library preparation protocol based on mRNAs chemical fragmentation for Proton sequencing.
DOI: 10.26036/cnphis0000272
title: CNV detect by low coverage WGS data

description: Microdeletion and microduplication
DOI: 10.26036/cnphis0000273
title: Genomic and transcriptomic analysis of Pleuronectionformes

description: We sequenced the RNA of Pleuronectionformes of Matemorphosis
DOI: 10.26036/cnphis0000274
title: Leucocoprinus sp. A. colombica symbiont transcriptme sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Atta colombica. A.colombica symbiont
DOI: 10.26036/cnphis0000275
title: Leucocoprinus sp. A. echinatior symbiont transcriptome sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Acromyrmex echinatior. A. echinatior symbiont
DOI: 10.26036/cnphis0000276
title: Leucocoprinus sp. T. cornetzi symbiont transcriptme sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Trachymyrmex cornetzi. T. cornetzi symbiont
DOI: 10.26036/cnphis0000998
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000999
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001000
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001001
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001002
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001003
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001004
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001005
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001006
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000277
title: Leucocoprinus sp. T. septentrionalis symbiont transcriptme sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Trachymyrmex septentrionalis. T. septentrionalis symbiont
DOI: 10.26036/cnphis0000278
title: Leucocoprinus sp. T. zeteki symbiont transcriptme sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Trachymyrmex zeteki. T. zeteki symbiont
DOI: 10.26036/cnphis0000279
title: Homo sapiens Raw sequence reads.SRP065094

description: A total of ten organs/tissues from two prenatal fetuses, each of which was constructed in three independent libraries
DOI: 10.26036/cnphis0000280
title: WGS of SCNT-generated dogs with disorder of sex development

description: Whole genome sequencing of sex-reversal SCNT-generated dogs and their original donors
DOI: 10.26036/cnphis0000281
title: Gekko japonicus Transcriptome or Gene expression

description: Five transcriptomes from injury regions of tails were obtained after autotomy (0 day, 1 day, 3day, 1 week and 2weeks) in order to observe the patterns.
DOI: 10.26036/cnphis0000282
title: Exon Sequencing of a Cryptorchidism Syndrome Family

description: Cryptorchidism is of public health importance because it may cause male infertility and develop testicular cancer. We carry out a strategy of exome sequencing to analyze the genetic inheritance in a cryptorchidism family.
DOI: 10.26036/cnphis0000283
title: Ion torrent sequencing of S.pyogenes isolates

description: Ion torrent sequencing of S.pyogenes isolates
DOI: 10.26036/cnphis0000284
title: Frequent mutations of genes in transitional cell carcinoma of the bladder

description: We sequenced the exomes of nine TCC patients and screened all the somatically mutated genes in a prevalence set of 88 additional TCCs with different tumor stages and grades.
DOI: 10.26036/cnphis0001007
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001008
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001009
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001010
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001011
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001012
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001013
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001014
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000285
title: Updated sesame genome assembly and fine mapping of plant height and seed coat color QTLs using a new high-density genetic map

description: This study offers a high density genetic map and an improved assembly of the sesame genome and for which the number of linkage groups and pseudomolecules equals the number of sesame chromosomes for the first time. The map and updated genome assembly are expected to serve as a platform for future comparative genomics and genetic studies.
DOI: 10.26036/cnphis0000286
title: Sigmodon hispidus Transcriptome or Gene expression

description: Transcriptome sequencing of cotton rat
DOI: 10.26036/cnphis0000287
title: Sigmodon hispidus Genome sequencing and assembly

description: Whole genome sequencing of cotton rat.
DOI: 10.26036/cnphis0000288
title: Sinocyclocheilus Genome sequencing and assembly

description: An emerging cavefish model, the cyprinid genus Sinocyclocheilus, is endemic to the massive southwestern karst area joined to the Qinghai-Tibetan Plateau of China. In order to understand how orogeny influenced the evolution of these species, and how genomes change under isolation, especially in subterranean habitats, we performed whole-genome sequencing of Sinocyclocheilus grahami, S. rhinocerous and S. anshuiensis.
DOI: 10.26036/cnphis0000289
title: Lactuca sativa cultivar:Salinas Genome sequencing and assembly

description: This project is focused on generating a high quality draft whole genome sequence of Lactuca sativa that is an economically important, representative species of the Compositae family. Cultivar Salinas and its derivatives are some of the most widely grown genotypes worldwide.
DOI: 10.26036/cnphis0000292
title: Eriocheir sinensis Genome sequencing and assembly

description: Chinese mitten crab, Eriocheir sinensis, has been the most famous representative of crustaceans in China. Its transition from swimming type to crawling during the early development process, anadromous migration for growth, and catadromous migration for breeding have been attractive for research. However, little is known about related molecular mechanisms.
DOI: 10.26036/cnphis0000293
title: HBV Integration Data

description: HBV Integration
DOI: 10.26036/cnphis0000294
title: Nipponia nippon Genome sequencing

description: High coverage (~20x) whole genome sequencing of eight Crested ibis samples
DOI: 10.26036/cnphis0000295
title: Sigmodon hispidus isolate:Merck Transcriptome or Gene expression

description: Respiratory disease-related biological inquiry in cotton rat lung and drug reaction.
DOI: 10.26036/cnphis0001015
title: Transcriptome sequencing of fruit flesh and rind during watermelon fruit development

description: Transcriptome sequencing of fruit flesh and rind at four stages [10, 18, 26, 34 days after pollination (DAP)] during watermelon fruit development
DOI: 10.26036/cnphis0001016
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0001017
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0001018
title: A comparative analysis of the intestinal metagenomes present in guinea pigs (Cavia porcellus) and humans (Homo sapiens).

description: This study is the first to use a metagenomic approach to characterize the faecal microbiota of guinea pigs, and we present a gene catalogue containing the prevalent microbial genes of the guinea pig gut. We applied Illumina-based sequencing of total bacterial DNA in faecal samples obtained from a previously published guinea-pig study for investigation of the guinea pig gut microbiome, and compared this data to the existing human gut metagenome data obtained in the context of the European MetaHIT project.
DOI: 10.26036/cnphis0001019
title: Whole transcriptome analyses of six thoroughbred horses before and after exercising using RNA-Seq

description: We sequenced the whole mRNA of six thoroughbred horse (Equus caballus) blood and muscle tissues before and after exercising, generating a total of 1.3 billion short reads with 90-bp pair-end sequences from 24 samples. Comparing with current genome annotation, we identified 32,361 unigene clusters spanning 51.83 Mb that contained 11,933 (36.87%) annotated genes. More than 60% (20,428) unigene clusters did not match any current equine gene model. We identified 189,973 single nucleotide variations (SNVs) from the aligned sequences against the horse reference. Most SNVs (171,558 SNVs; 90.31%) were novel compared with over 1.1 million equine SNPs from two databases. Some genes have significantly different expression levels under different environment. We define those identical genes which have different expression levels are ‘differentially expressed’ and carried out differentially expressed gene analysis before and after exercise conditions. We discovered, 62 up- and 80 down-regulated genes in the blood and 878 up- and 285 down-regulated genes in the muscle from the 24 samples. Six out of 28 previously exercise-related known genes, HIF1A, ADRB2, PPARD, VEGF, TNC, and BDNF, were highly expressed in the muscle after exercise. We discovered 56 functionally unknown transcription factors that are probably associated with an early regulatory exercise mechanism from 91 differentially expressed transcription factors. We found interesting RNA expression patterns where different alternative splicing forms of the same gene showed reversed expressions before and after exercising. Overall design: whole mRNA sequencing profiles of six thoroughbred horse (Equus caballus) blood and muscle tissues before and after exercising
DOI: 10.26036/cnphis0001020
title: Characterization of Labeo rohita Transcriptome: Sequencing, De Novo Assembly, Annotation and Mapping of genes associated with digestive and reproductive tissues.

description: The Indian major carp Labeo rohita (Hamilton), a Cyprinid is leading candidate species for freshwater aquaculture not only in India but also in the whole sub-continent of South-East Asia. Labeo rohita are the focus of a vast amount of research due to their immense economic, ecological and cultural importance. However, a major problem with this species is that it breeds in river conditions only once in a year during monsoon months and cannot be bred in confined pond water without hormonal induction, poor utilizer of carbohydrate for energy purpose, having very low level of eicosapentaenoic acid (EPA) / docosahexaenoic acid (DHA) in meat and with lower survival (av.&gt;30%) of spawn. Therefore, an attempt was taken using Illumina mRNA-seq of selectively pooled RNA samples of Brain, Liver, Intestine, Kidney, Tongue, Nose, Eye, Gill, Muscle, Heart, Ovary and Testis tissues to identify genes of these tissues.
DOI: 10.26036/cnphis0001021
title: GSE37909: RNA-seq from ENCODE/Caltech (Mouse)

description: None
DOI: 10.26036/cnphis0001022
title: Bareilly outbreak

description: Genome sequencing project
DOI: 10.26036/cnphis0001023
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0000296
title: Egretta garzetta Genome sequencing.SRP068698

description: High coverage (~24x) whole genome sequencing of five Little egret samples
DOI: 10.26036/cnphis0000297
title: Homo sapiens Raw sequence reads.SRP068980

description: TRB and IGH are captured from peripheral blood using Multiplex PCR and 5''RACE
DOI: 10.26036/cnphis0000298
title: Dimocarpus longan Lour. WGS project

description: The Draft Genome of Dimocarpus longan Lour
DOI: 10.26036/cnphis0000300
title: Genomic Sequencing of Pediatric Ewing’s Sarcoma

description: The Ewing sarcoma family of tumors (EFT) is a group of malignant small round blue cell tumors that arise in bone or soft tissue. Ewing sarcoma (ES) is the second most common type of primary bone tumor to affect children and adolescents and accounts for 2.9% of all childhood cancers. This data set reports whole-genome sequencing of 6 primary Ewing''s Sarcoma samples and matching germline samples.
DOI: 10.26036/cnphis0000301
title: Trachymyrmex zeteki isolate:Tzet28-1 Genome sequencing and assembly

description: Sequencing the genome of higher fungus growing ant: Trachymyrmex zeteki
DOI: 10.26036/cnphis0000302
title: Trachymyrmex cornetzi isolate:Tcor2-1 Genome sequencing and assembly

description: Sequencing the genome of higher fungus growing ant: Trachymyrmex cornetzi
DOI: 10.26036/cnphis0000303
title: Atta colombica isolate:Treedump-2 Genome sequencing and assembly

description: Sequencing the genome of Leaf-cutter ant Atta colombica.
DOI: 10.26036/cnphis0000304
title: Trachymyrmex septentrionalis isolate:Tsep2-gDNA-1 Genome sequencing and assembly

description: Sequencing the genome of the fungus growing ant Trachymyrmex septentrionalis
DOI: 10.26036/cnphis0000305
title: Cyphomyrmex costatus isolate:MS0001 Genome sequencing and assembly

description: Sequencing the genome of lower fungus growing ant: Cyphomyrmex costatus
DOI: 10.26036/cnphis0000306
title: Leucocoprinus sp. C. costatus symbiont transcriptme sequencing and assembly

description: Shotgun transcriptome sequence of the symbiotic fungus cultivar of fungus growing ant Cyphomyrmex costatus
DOI: 10.26036/cnphis0001024
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001025
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001026
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001027
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001028
title: Foodborne Pathgen Survey

description: Genome sequencing project
DOI: 10.26036/cnphis0001029
title: Foodborne Pathgen Survey

description: Genome sequencing project