3,942 Works

Genomic data of Nanmaohu Park vascular plant specimen, RL0135

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu

Image data of Nanmaohu Park vascular plant specimen, RL0785

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu
We sampled vascular plants from Ruili Botanical Garden,Yunnan, China. All the samples were collected within the geographical region Longitude 97.646389 to 98.099167, Latitude 23.878333 to 24.155556, altitudes ranging from 740 meters to 1,200 meters above sea level. In total, we collected 1,093 vascular plants, from which we used the young leaves for sequencing, and at the same time the specimens were vouchered. The specimens are maintained at the Herbarium of China National GeneBank (HCNGB).In total,...

Peer review of "Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database"

Paul Dijkstra
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer review of "Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes"

Matthew Macmanes
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Supporting data for "Assembly of the 373K gene space of the polyploid sugarcane genome reveals reservoirs of functional diversity in the world’s leading biomass crop"

Durham Mitchell Alan, Paterson H Andrew, Diniz Lima Augusto, Davidson Bob, Hotta Takeshi Carlos, Lembke Gimiliani Carolina, Kim Changsoo, Heckerman David, Ten-Caten Felipe, Margarido Rodrigues Alves Gabriel, Ragagnin Tolfo Geovani, Nicastro Gonçalves Gianlucca, Souza Mendes Glaucia, Lee Hayan, Guo Hui, Zhang Jisen, Gaiarsa Weissmann Jonas, Van Sluys Van Marie-Anne, Oliveira Medeiros Mauro, Schatz C Michael, Nishiyama-Jr Yutaka Milton, Carneiro Sampaio Monalisa, Morais Andrade De Pablo, Zhang Qing, Pandya Ravi … & Zhang Xingtan
Sugarcane cultivars are polyploid interspecific hybrids of giant genomes, typically with 10-13 sets of chromosomes from two Saccharum species. The ploidy, hybridity and size of the genome, estimated to have in excess of 10 Gb, pose a great challenge for sequencing.
Here we present a gene space assembly of SP80-3280, including 373,869 putative genes and their potential regulatory regions. The alignment of single-copy genes in diploid grasses to the putative genes, indicates that we could...

Peer review of "The genome sequence of the wisent (Bison bonasus)"

Jaebum Kim
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Supporting data for "A multi-day and multi-band dataset for steady-state visual evoked potential-based brain-computer interface"

Han Chang-Hee, Choi Ga-Young, Hwang Han-Jeong & Jung Young-Jin
A steady-state visual-evoked potential (SSVEP) is a brain response to visual stimuli modulated at certain frequencies; it has been widely used in electroencephalography (EEG)-based brain–computer interface (BCI) research. However, there are few published SSVEP datasets for BCIs. In this study, we obtained a new SSVEP dataset based on measurements from 30 subjects, performed on two days; our dataset complements existing SSVEP datasets: i) multi-band SSVEP datasets are provided, and all three possible frequency bands (low,...

Peer review of "Investigation into the annotation of protocol sequencing steps in the sequence read archive"

Christopher I Hunter
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer review of "Calcium imaging, MEA recordings and Immunostaining images dataset of Neuron-Astrocyte Networks in Culture under the Effect of Norepinephrine"

Thomas Wachtler
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer review of "The genome of an underwater architect, the caddisfly Stenopsyche tienmushanensis Hwang (Insecta: Trichoptera)"

Scott Hotaling
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Image data of Nanmaohu Park vascular plant specimen, RL1055

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu
We sampled vascular plants from Ruili Botanical Garden,Yunnan, China. All the samples were collected within the geographical region Longitude 97.646389 to 98.099167, Latitude 23.878333 to 24.155556, altitudes ranging from 740 meters to 1,200 meters above sea level. In total, we collected 1,093 vascular plants, from which we used the young leaves for sequencing, and at the same time the specimens were vouchered. The specimens are maintained at the Herbarium of China National GeneBank (HCNGB).In total,...

Peer review of "Single-cell RNA-seq reveals dynamic transcriptome profiling in human early neural differentiation"

Jerome Mertens
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer review of "Chromosomer: a reference-based genome arrangement tool for producing draft chromosome sequences"

Thomas Keane
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Supporting data for "BLINK: A Package for the Next Level of Genome-Wide Association Studies with Both Individuals and Markers in the Millions"

Huang Meng, Summers M Ryan, Liu Xiaolei, Zhou Yao & Zhang Zhiwu
Big datasets, accumulated from biomedical and agronomic studies, provide the potential to identify genes controlling complex human diseases and agriculturally important traits through genome-wide association studies (GWAS). However, big datasets also lead to extreme computational challenges, especially when sophisticated statistical models are employed to simultaneously reduce false positives and false negatives. The newly developed Fixed and random model Circulating Probability Unification (FarmCPU) method uses a bin method under the assumption that Quantitative Trait Nucleotides (QTNs)...

Peer Review of ???Non-targeted metabolomics and lipidomics LC????????MS data from maternal plasma of 180 healthy pregnant women".

Ralf Weber
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer review of "Panax ginseng genome examination for ginsenoside biosynthesis"

Bernardo Clavijo
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Genomic data of Nanmaohu Park vascular plant specimen, RL0912

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu

Image data of Nanmaohu Park vascular plant specimen, RL0953

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu
We sampled vascular plants from Ruili Botanical Garden,Yunnan, China. All the samples were collected within the geographical region Longitude 97.646389 to 98.099167, Latitude 23.878333 to 24.155556, altitudes ranging from 740 meters to 1,200 meters above sea level. In total, we collected 1,093 vascular plants, from which we used the young leaves for sequencing, and at the same time the specimens were vouchered. The specimens are maintained at the Herbarium of China National GeneBank (HCNGB).In total,...

Peer review of "Hybrid-denovo: A de novo OTU-picking pipeline integrating single-end and paired-end 16S sequence tags "

Jeffrey Werner
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer Review of ???Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant".

C. Titus Brown
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Peer Review of ???A reference bacterial genome dataset generated on the MinION(TM) portable single-molecule nanopore sequencer".

Minh Duc Cao
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Image data of Nanmaohu Park vascular plant specimen, RL0365

Huan Liu, Jinpu Wei, Ting Yang, Weixue Mu, Bo Song, Tuo Yang, Yuan Fu, Xuebin Wang, Guohai Hu, Wangsheng Li, Hongcheng Zhou, Yue Chang, Xiaoli Chen, Hongyun Chen, Le Cheng, Xuefei He, Hechen Cai, Xianchu Cai, Mei Wang, Yang Li, Jinlong Yang, Yu Wang, Ranchang Mu, Jie Liu, Jianming Zhao … & Xin Liu
We sampled vascular plants from Ruili Botanical Garden,Yunnan, China. All the samples were collected within the geographical region Longitude 97.646389 to 98.099167, Latitude 23.878333 to 24.155556, altitudes ranging from 740 meters to 1,200 meters above sea level. In total, we collected 1,093 vascular plants, from which we used the young leaves for sequencing, and at the same time the specimens were vouchered. The specimens are maintained at the Herbarium of China National GeneBank (HCNGB).In total,...

Peer review of "Genome-wide determination of on-target and off-target characteristics for RNA-guided DNA Methylation by dCas9 methyltransferases"

Tomasz Jurkowski
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

Supporting data for "Metabolic responses of rice source and sink organs during recovery from combined drought and heat stress in the field"

Erban Alexander, Hincha K Dirk, Zuther Ellen, Kopka Joachim, Lawas MF Lovely & Jagadish Krishna SV
Drought and heat stress effects on rice have been extensively studied, in particular during the sensitive flowering and grain-filling stages. However, in the field these stresses usually occur together because reduced transpirational cooling under drought conditions results in increased plant tissue temperature. In addition, environmental stresses are usually transient and the ability to efficiently recover from stress may be at least as important for overall stress tolerance as the direct stress response itself. Nevertheless, nothing...

Peer review of "The draft genomes of five agriculturally important African orphan crops"

S. V. Amitha Mithra
This is the open peer reviewers comments and recommendations regarding the submitted GigaScience article and/or dataset.

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