cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26036/cnphis0001091
title: Strong signatures of selection in Atlantic herring: A marine fish with huge population sizes

description: Here, we present a cost-effective genome- wide study in a species that lacks a genome sequence. We first assembled a muscle transcriptome and then aligned genomic reads to the transcripts, creating an “exome assembly”, capturing both exons and flanking sequences. We then resequenced pools of fish from a wide geographic range, including the Northeast Atlantic, as well as different regions in the Baltic Sea, aligned the reads to the exome assembly, and identified 440,817 SNPs. The great majority of SNPs showed no appreciable differences in allele frequency among populations; however, several thousand SNPs showed striking differences, some approaching fixation for different alleles. The contrast between low genetic differentiation at most loci and striking differences at others implies that the latter category primarily reflects natural selection. A simulation study confirmed that the distribution of the fixation index (FST) deviated significantly from expectation for selectively neutral loci.
DOI: 10.26036/cnphis0001092
title: Strong signatures of selection in Atlantic herring: A marine fish with huge population sizes

description: Here, we present a cost-effective genome- wide study in a species that lacks a genome sequence. We first assembled a muscle transcriptome and then aligned genomic reads to the transcripts, creating an “exome assembly”, capturing both exons and flanking sequences. We then resequenced pools of fish from a wide geographic range, including the Northeast Atlantic, as well as different regions in the Baltic Sea, aligned the reads to the exome assembly, and identified 440,817 SNPs. The great majority of SNPs showed no appreciable differences in allele frequency among populations; however, several thousand SNPs showed striking differences, some approaching fixation for different alleles. The contrast between low genetic differentiation at most loci and striking differences at others implies that the latter category primarily reflects natural selection. A simulation study confirmed that the distribution of the fixation index (FST) deviated significantly from expectation for selectively neutral loci.
DOI: 10.26036/cnphis0001093
title: Stabilization competency signature

description: Comparison of gene expresion profile of 4 SC clones and 4 SI clones at different time points defined a stabilization competency signiture required for successful reprogramming Overall design: mRNA profilling 4 SI clones at 5 time points, 4 SC clones at 6 time points, and 3 feeder samples.
DOI: 10.14457/cmu.the.2008.1032
title: ผลของโปรแกรมการฝึกพูดกับตนเองทางบวก ต่อความหวังในผู้ติดเชื้อเอชไอวี
DOI: 10.14457/cmu.the.2009.763
title: สภาวะการลดอุณหภูมิที่เหมาะสม สำหรับผักกาดหอมห่อ โดยใช้ระบบการลดอุณหภูมิเฉียบพลัน ภายใต้สุญญากาศ
DOI: 10.14457/cmu.the.2009.765
title: การพัฒนาการบริหารงานด้านการคลัง ขององค์กรปกครองส่วนท้องถิ่น ในเขตพื้นที่อำเภอสันทราย จังหวัดเชียงใหม่
DOI: 10.14457/cmu.the.2009.766
title: การวิเคราะห์เชิงลึกกระบวนการจัดการข้อมูลในการพยากรณ์ความต้องการซื้อของตลาด และการวางแผนการจัดซื้อวัตถุดิบ ของผู้ประการส่งออกลำไยอบแห้งในจังหวัดเชียงใหม่ และลำพูน
DOI: 10.14457/cmu.the.2009.767
title: รูปแบบการดำเนินชีวิตของนักศึกษาระดับบัณฑิตศึกษา คณะบริหารธุรกิจ มหาวิทยาลัยเชียงใหม่
DOI: 10.14457/cmu.the.2009.768
title: ภาพลักษณ์มหาวิทยาลัยนอร์ท-เชียงใหม่ตามการรับรู้ ของนักเรียนระดับมัธยมศึกษาตอนปลายในจังหวัดเชียงใหม่
DOI: 10.14457/cmu.the.2009.769
title: แนวทางการแก้ปัญหาการเก็บเกี่ยว และการจำหน่ายลำไยสดของเกษตรกร ตำบลขัวมุง อำเภอสารภี จังหวัดเชียงใหม่
DOI: 10.14457/cmu.the.2009.770
title: ผลของไคโตซานและอุณหภูมิของการเก็บรักษา ต่อคุณภาพหลังการเก็บเกี่ยวของเห็ดลม
DOI: 10.14457/cmu.the.2009.771
title: พฤติกรรมการซื้อเสื้อผ้าแฟชั่น ของนักศึกษาหญิงระดับปริญญาตรี มหาวิทยาลัยเชียงใหม่
DOI: 10.14457/cmu.the.2009.772
title: อำนาจพยากรณ์ของลักษณะต่อต้านการเปลี่ยนแปลง และค่านิยมในการทำงานที่มีต่อผลการปฏิบัติงาน ของพนักงานระดับปฏิบัติการ มหาวิทยาลัยเชียงใหม่
DOI: 10.26036/cnphis0000374
title: Chelonia mydas Genome sequencing and assembly

description: Genome sequence of the green sea turtle (Chelonia mydas)
DOI: 10.26036/cnphis0000376
title: Geospiza fortis Genome sequencing and assembly

description: The medium ground finch (Geospiza fortis) is a seed-eating bird endemic to the Galapagos Islands of Ecuador. It inhabits subtropical or tropical dry forests and shrubland. The medium ground finch is one of "Darwin''s finches"; a group of birds that evolved over a few million years from a single ancestral species into multiple species whose beak sizes and shapes are specialized for using different food resources. This species has been the subject of numerous evolutionary studies and is part of a project to sequence 10,000 vertebrate genomes (G10k).
DOI: 10.26036/cnphis0000377
title: Angiostrongylus cantonensis isolate:Guangzhou Genome sequencing and assembly

description: To explore the molecular biology, and to deeply understand the interaction between A. cantonensis and hosts
DOI: 10.26036/cnphis0000378
title: Single-Cell Sequencing Analysis Characterizes Common and Cell-Lineage-Specific Mutations in a Muscle-Invasive Bladder Tumor

description: Cancers arise through an evolutionary process, in which cell populations are subjected to selection; however, to date, the process at a single-cell level remains unknown. Here we carried out single-cell exome sequencing of 66 individual tumor cells from a muscle-invasive bladder transitional cell carcinoma (TCC). Analyses of the somatic mutant allele frequency spectrum and clonal structure revealed that the tumor cells were derived from a single ancestral cell, but that subsequent evolution occurred, leading to two distinct tumor cell subpopulations. By analyzing recurrently mutant genes in an additional 99 TCC tumors, we identified genes that might play roles in both the maintenance of the ancestral clone and in the muscle-invasive capability of subclones of this bladder cancer. This work provides a new way of investigating the genetic details of tumoral changes at the single-cell level and a new way for assessing cancer evolution at a cell-population level.
DOI: 10.26036/cnphis0000379
title: Ginkgo biloba Transcriptome and Genomics raw data

description: Comparative transcriptomes between different genders and locations.
DOI: 10.26036/cnphis0000380
title: Capra hircus strain:Yunnan Black goat Genome sequencing and assembly

description: The domestic goat is one of the most important livestock species in the world, especially in China, India and other developing countries. Goats not only serve as an important source of meat, milk, fiber and pelts, and have fulfilled agricultural, economic, cultural and even religious roles from very early times in human civilization, but also are now used as animal models for biomedical research and transgene production of protein medicines. We would like to share all the genome data of goat. We hope the genome sequence of goat can provide a new resource for biological research and breeding of goat and other small ruminants.
DOI: 10.26036/cnphis0000381
title: Transcriptome analysis of head kidney in grass carp and discovery of immune-related genes

description: Background: Grass carp (Ctenopharyngodon idella) is one of the most economically important freshwater fish, but its production is often affected by diseases that cause serious economic losses. So far it has not been one case of good breeding species of oriented cultivation. The ability to identify disease resistance genes in grass carp is important to cultivate disease-resistant varieties of grass carp. Results: In this study, we constructed a non-normalized cDNA library of head kidney in grass carp, and obtained 3,027 high-quality unigenes. Then solexa sequencing was used to generate sequence tags from the transcriptomes of the head kidney in grass carp before and after grass carp reovirus (GCRV) infection. After processing, we obtained 22,144 tags that were differential expressed by more than 2-fold between the uninfected and infected groups. 679 of the differentially expressed tags (3.1%) mapped to 483 of the unigenes (16.0%). The up-regulated and down-regulated unigenes were annotated using gene ontology terms; 16 were annotated as immune-related and 42 were of unknown function having no matches to any of the sequences in the databases that were used in the similarity searches. Semi-quantitative RT-PCR revealed four unknown unigenes that showed a significant response to the viral infection. Based on domain structure predictions, one of these sequences was found to encode a protein that contained two transmembrane domains and, therefore, may be a transmembrane protein. We have proposed that this novel unigene may encode a virus receptor or a protein that mediates the immune signaling pathway at the cell surface. Conclusion: This study enriches the molecular basis data of grass carp and further confirms that, based on fish tissue-specific EST databases, transcriptome analysis is an effective route to discover novel functional genes.
DOI: 10.26036/cnphis0000384
title: Massive parallel single cell RNA Sequencing of human embryos reveals novel dynamic changes across development stages

description: Preimplantation human embryonic development is a highly dynamic cellular and molecular process, the correct execution of which is critical for successful development to occur. However the mechanism of this event remains largely unknown due to the scarcity of the material, legal restraints and limited techniques to faithfully analyze small amounts of samples. The development of single cell RNA-seq technology to measure gene expression at single cell levels opens new avenues for investigations into preimplantation human embryonic development.
DOI: 10.26036/cnphis0000385
title: Mudskipper Transcriptome or Gene expression

description: Transcriptomic evidence of adaptive tolerance to high environmental ammonia in mudskippers
DOI: 10.26036/cnphis0001094
title: Geospiza magnirostris Genome sequencing

description: An effort to sequence the genomes of Darwin''s finches in honor of Darwin''s 200th birthday.
DOI: 10.26036/cnphis0001095
title: Lyrurus tetrix tetrix Genome sequencing and assembly

description: Black grouse genome.
DOI: 10.26036/cnphis0001096
title: Heliconius timareta strain:Peru Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001097
title: Heliconius melpomene malleti strain:Colombia Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001098
title: Heliconius erato favorinus strain:Peru Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001099
title: Heliconius erato emma strain:Peru Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001100
title: Heliconius erato hydara strain:French Guiana Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001101
title: Heliconius erato erato strain:French Guiana Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001102
title: Heliconius erato notabilis strain:Ecuador Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.14457/cmu.res.2009.536
title: ผลของการบังคับใช้กฎหมาย เพื่อลดจำนวนผู้บาดเจ็บและเสียชีวิต จากอุบัติเหตุจราจรช่วงเทศกาลปีใหม่ และเทศกาลสงกรานต์ พ.ศ.2550-2551 จังหวัดลำพูน
DOI: 10.14457/cmu.res.2009.546
title: ผลของการนำระบบเทคโนโลยีสารสนเทศที่ดินมาใช้ในสำนักงานที่ดินจังหวัดลำพูน
DOI: 10.14457/cmu.the.2009.773
title: การพัฒนาความสามารถในการแก้โจทย์ปัญหา เรื่อง การประยุกต์สมการเชิงเส้นตัวแปรเดียว ด้วยกลวิธีที่หลากหลาย ของนักเรียนชั้นมัธยมศึกษาปีที่ 2 โรงเรียนสันทรายวิทยาคม จังหวัดเชียงใหม่
DOI: 10.14457/cmu.the.2009.775
title: ผลของการเติมอากาศแบบแพสซีฟ ต่อการทำปุ๋ยหมัก จากขยะอินทรีย์ครัวเรือน
DOI: 10.14457/cmu.the.2009.776
title: ผลของธาตุแคลเซียมและโบรอน ต่อการเจริญเติบโตและผลผลิตของถั่วเหลืองผักสด
DOI: 10.14457/cmu.the.2009.777
title: รูปแบบการสอนของครูสอนออกกำลังกายแอโรบิคดานซ์ ในจังหวัดเชียงใหม่
DOI: 10.14457/kku.the.2008.508
title: Opisthorchis Viverrini : การเจริญพัฒนาของอัณฑะจากระยะเมตาเซตร์คาเรียถึงตัวเต็มวัย
DOI: 10.26036/cnphis0000386
title: Shinisaurus crocodilurus Raw sequence reads

description: We sequenced the WGS of Shinisaurus_crocodilurus genome
DOI: 10.26036/cnphis0000387
title: RNA-seq transcriptome analysis of Penicillium oxalicum in different culture media

description: -
DOI: 10.26036/cnphis0000388
title: Giant Panda Genome Re-Sequencing

description: The panda (Ailuropoda melanoleuca), also known as the giant panda to distinguish it from the unrelated red panda, is a bear native to central-western and south western China.
DOI: 10.26036/cnphis0000389
title: Psammomys obesus isolate:Psa_ob012049795 Genome sequencing and assembly

description: Genome sequencing and assembly of Psammomys obesus
DOI: 10.26036/cnphis0000390
title: Alopecurus pratensis Raw sequence reads

description: Identification of QTLs for fourteen agronomically important traits in Setaria italica
DOI: 10.26036/cnphis0000392
title: Columba livia Genome sequencing and assembly

description: Whole genome de novo sequencing of Columba livia
DOI: 10.26036/cnphis0000393
title: Rhododendron delavayi Transcriptome or Gene expression

description: Rhododendron delavayi Franch Transcriptome
DOI: 10.26036/cnphis0001103
title: Heliconius erato lativitta strain:Ecuador Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001104
title: Heliconius erato petiverana strain:Panama Genome sequencing

description: The wing color patterns of Heliconius butterflies show extraordinary divergence within species and striking convergence between species. We use whole genome resequencing of individuals from hybrid zones across Central and South America to investigate the genetic basis and evolutionary history of adaptive wing color pattern variation.
DOI: 10.26036/cnphis0001105
title: Crotalus horridus isolate:016-059-111 Genome sequencing and assembly

description: Crotalus horridus genome sequence assembly and annotation. Collaborative project of the MCBIOS.
DOI: 10.26036/cnphis0001106
title: Canis lupus Genome sequencing

description: Whole genome resequencing of pools of dog and wolf DNA to detect selection during dog domestication.
DOI: 10.26036/cnphis0001107
title: Human gut microbiome of Russian population

description: None
DOI: 10.26036/cnphis0001108
title: Plukenetia volubilis Transcriptome or Gene expression

description: The research conducted by the authors is the first report on understanding the molecular mechanisms underlying lipid biosynthesis in Sacha Inchi (Plukenetia volubilis.L) which resulted in identification of the key genes that are involved in oil biosynthesis and PUFA accumulation in this crop.
DOI: 10.26036/cnphis0001109
title: Trachemys scripta (pond slider) Genome

description: The sequence of Trachemys scripta (pond slider) provides a resource for the study of proteome evolution and for comparative analysis of turtle species.
DOI: 10.26036/cnphis0001110
title: Homo sapiens Genome sequencing

description: Submit for publication for Ting Ni
DOI: 10.26036/cnphis0001111
title: Myxobolus cerebralis Genome sequencing

description: Myxobolus cerebralis partial Genome Sequencing for phylogenetic analyses.
DOI: 10.14457/cmu.the.2009.774
title: ผลการใช้ภูมิปัญญาท้องถิ่น เกี่ยวกับเครื่องมือดักจับสัตว์พื้นบ้าน สำหรับการสอนวิทยาศาสตร์ เรื่องพฤติกรรมสัตว์
DOI: 10.14457/kku.the.2008.509
title: การพัฒนากิจกรรมการเรียนรู้กลุ่มสาระการเรียนรู้คณิตศาสตร์ เรื่อง สถิติ ชั้นมัธยมศึกษาปีที่ 5 ตามแนวคิดทฤษฎีคอนสตรัคติวิสต์
DOI: 10.26036/cnphis0000391
title: Phyllostachys edulis Transcriptome

description: We did Transcriptome analysis of Phyllostachys edulis
DOI: 10.26036/cnphis0000394
title: Genetic Studies in the Hutterites

description: We have conducted genetic studies of disease-associated quantitative phenotypes, including microbiome and gene expression studies, by genotyping and/or sequencing in the Hutterites, a founder population of European descent. The Hutterites who have participated in our studies live on communal farms in South Dakota and are related to each other through multiple lines of descent in a 3,657-person, 13-generation pedigree with 64 founders. The small number of founding genomes reduces genetic heterogeneity whereas their communal lifestyle ensures that non-genetic factors are remarkably uniform between individuals. Our sample includes &gt;1,600 subjects who have participated in our studies of fertility (since 1982), asthma, cardiovascular disease and other complex phenotypes (since 1993), microbiome studies (since 2011), and/or immune response (since 2012), including. 114 subjects with whole genome sequencing. 159 subjects with 16S sequencing (fecal and nasal... (for more see dbGaP study page.)
DOI: 10.26036/cnphis0000395
title: Falco peregrinus Genome sequencing and assembly

description: Peregrine and saker falcon genome sequencing. We sequenced both the peregrine and saker genomes in order to study their genome evolution and to aid their conservation.
DOI: 10.26036/cnphis0000396
title: Saker falcon Genome Sequencing

description: -
DOI: 10.26036/cnphis0000397
title: Tupaia chinensis Genome sequencing and assembly

description: Whole genome sequencing of one male adult Chinese tree shrew.
DOI: 10.26036/cnphis0000398
title: Rhododendron delavayi Franch Genome Raw sequence reads

description: The genome draft of the woody landscape flower, Rhododendron delavayi
DOI: 10.26036/cnphis0000400
title: Homo sapiens Exome.SRP014205

description: Whole exome sequencing of eye disease patient.
DOI: 10.26036/cnphis0000401
title: RED-ML: a novel, effective RNA editing detection method based on machine learning

description: To develop a highly accurate, speedy and general-purpose tool for RNA editing detection using RNA-seq data
DOI: 10.26036/cnphis0000402
title: Rhodiola crenulata isolate:Shangri-La Raw sequence reads

description: We sequenced the genome of R. crenulata. The genomic DNA was isolated from the leaf tissue of a single male R. crenulata , which was collected from Shangri-La, the northwest of Yunnan province, China.
DOI: 10.26036/cnphis0001112
title: Whole Genome Selection through Genome Wide Imputation in Beef Cattle

description: This project will deliver genomic selection technology to Canada’s beef breeders and enable them to substantially increase their rates of genetic improvement. Economically important traits will be targeted that are difficult to improve using conventional approaches. Genotypes from a wide range of beef and dairy breeds will be used to develop accurate and robust genomic prediction equations which in turn will be used to make genetic improvement in different cattle populations. Genotyping a large number of animals using NGS and arrays is necessary to attain acceptable levels of reliability. Low-cost tests will be developed that allow an animal’s entire genome to be inferred from a relatively small number of strategically-placed chromosomal markers, thereby giving valuable information as to its breeding value.
DOI: 10.26036/cnphis0001113
title: Megaselia scalaris strain:Durham2 Genome sequencing

description: Megaselia scalaris Genome Sequencing.
DOI: 10.26036/cnphis0001114
title: Staphylococcus aureus Genome sequencing

description: CC121 Population analysis.
DOI: 10.26036/cnphis0001115
title: Liver transcriptomes from reptiles

description: Liver transcriptomes from reptiles: Thamnophis elegans Thamnophis couchi Alligator mississippiensis Anolis sagrei Elgaria multicarinata Sceloporus undulatus Pogona vitticeps Scincella lateralis Eublepharis macularius Lasius fuliginosus Agkistrodon piscivorus Xenopeltis unicolor Candoia aspera Chelydra serpentina Sternotherus odoratus Pelusios castaneus Terrapene carolina
DOI: 10.26036/cnphis0001116
title: Glossina brevipalpis Genome sequencing and assembly

description: The tetse fly Glossina brevipalpis is a vector of nagana or African Animal Trypanosomiasis. G. brevipalpis is thought to be an ancestral species in the genus Glossina. Genomic data from this project will enhance the understanding of tetse evolutionary biology.
DOI: 10.26036/cnphis0001117
title: Homo sapiens CHM1htert cell line genome sequencing

description: This project contains the sequence and assembly of a well characterized haploid cell line (CHM1htert) derived from a hydatidiform mole. The lack of allelic variation in the haploid sequence allows for unambiguous resolution of haplotype and segmental duplication. Sequence from this project will be used to increase the continuity of the human reference sequence.
DOI: 10.26036/cnphis0001118
title: Gene Expression Defines Natural Changes in Mammalian Lifespan

description: Mammals differ more than hundred fold in maximum lifespan, which can be altered in either direction during evolution, but the molecular basis for natural changes in longevity is not understood. Divergent evolution of mammals also led to extensive changes in gene expression within and between lineages. To understand the relationship between lifespan and variation in gene expression, we carried out RNA-seq-based gene expression analyses of liver, kidney and brain of 33 diverse species of mammals. Our analysis uncovered parallel evolution of gene expression and lifespan, as well as the associated life history traits, and identified the processes and pathways involved. These findings provide direct insights into how Nature reversibly adjusts lifespan and other traits during adaptive radiation of lineages. Overall design: RNA-seq gene expression profiling in normal liver, kidney and brain of 33 mammalian species.