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Showing 25 to 36 of 1376 entries
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De novo transcriptome profiling of highly purified human lymphocytes primary cells.

Bonnal RJ, Ranzani V, Arrigoni A, Curti S, Panzeri I, Gruarin P, Abrignani S, Rossetti G, Pagani M.
PMID: 26451251
Sci Data. 2015 Sep 29;2:150051. doi: 10.1038/sdata.2015.51. eCollection 2015.

To help better understand the role of long noncoding RNAs in the human immune system, we recently generated a comprehensive RNA-seq data set using 63 RNA samples from 13 subsets of T (CD4(+) naive, CD4(+) TH1, CD4(+) TH2, CD4(+)...

Benchmark datasets for 3D MALDI- and DESI-imaging mass spectrometry.

Oetjen J, Veselkov K, Watrous J, McKenzie JS, Becker M, Hauberg-Lotte L, Kobarg JH, Strittmatter N, Mróz AK, Hoffmann F, Trede D, Palmer A, Schiffler S, Steinhorst K, Aichler M, Goldin R, Guntinas-Lichius O, von Eggeling F, Thiele H, Maedler K, Walch A, Maass P, Dorrestein PC, Takats Z, Alexandrov T.
PMID: 25941567
Gigascience. 2015 May 04;4:20. doi: 10.1186/s13742-015-0059-4. eCollection 2015.

BACKGROUND: Three-dimensional (3D) imaging mass spectrometry (MS) is an analytical chemistry technique for the 3D molecular analysis of a tissue specimen, entire organ, or microbial colonies on an agar plate. 3D-imaging MS has unique advantages over existing 3D imaging...

CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea.

Doddamani D, Khan AW, Katta MA, Agarwal G, Thudi M, Ruperao P, Edwards D, Varshney RK.
PMID: 26289427
Database (Oxford). 2015 Aug 19;2015. doi: 10.1093/database/bav078. Print 2015.

Molecular markers are valuable tools for breeders to help accelerate crop improvement. High throughput sequencing technologies facilitate the discovery of large-scale variations such as single nucleotide polymorphisms (SNPs) and simple sequence repeats (SSRs). Sequencing of chickpea genome along with...

FlyVar: a database for genetic variation in Drosophila melanogaster.

Wang F, Jiang L, Chen Y, Haelterman NA, Bellen HJ, Chen R.
PMID: 26289428
Database (Oxford). 2015 Aug 19;2015. doi: 10.1093/database/bav079. Print 2015.

FlyVar is a publicly and freely available platform that addresses the increasing need of next generation sequencing data analysis in the Drosophila research community. It is composed of three parts. First, a database that contains 5.94 million DNA polymorphisms...

qPrimerDB: a thermodynamics-based gene-specific qPCR primer database for 147 organisms.

Lu K, Li T, He J, Chang W, Zhang R, Liu M, Yu M, Fan Y, Ma J, Sun W, Qu C, Liu L, Li N, Liang Y, Wang R, Qian W, Tang Z, Xu X, Lei B, Zhang K, Li J.
PMID: 28977518
Nucleic Acids Res. 2018 Jan 04;46:D1229-D1236. doi: 10.1093/nar/gkx725.

Real-time quantitative polymerase chain reaction (qPCR) is one of the most important methods for analyzing the expression patterns of target genes. However, successful qPCR experiments rely heavily on the use of high-quality primers. Various qPCR primer databases have been...

A global database on freshwater fish species occurrence in drainage basins.

Tedesco PA, Beauchard O, Bigorne R, Blanchet S, Buisson L, Conti L, Cornu JF, Dias MS, Grenouillet G, Hugueny B, Jézéquel C, Leprieur F, Brosse S, Oberdorff T.
PMID: 28972575
Sci Data. 2017 Oct 03;4:170141. doi: 10.1038/sdata.2017.141.

A growing interest is devoted to global-scale approaches in ecology and evolution that examine patterns and determinants of species diversity and the threats resulting from global change. These analyses obviously require global datasets of species distribution. Freshwater systems house...

Database of host-pathogen and related species interactions, and their global distribution.

Wardeh M, Risley C, McIntyre MK, Setzkorn C, Baylis M.
PMID: 26401317
Sci Data. 2015 Sep 15;2:150049. doi: 10.1038/sdata.2015.49. eCollection 2015.

Interactions between species, particularly where one is likely to be a pathogen of the other, as well as the geographical distribution of species, have been systematically extracted from various web-based, free-access sources, and assembled with the accompanying evidence into...

An open resource for transdiagnostic research in pediatric mental health and learning disorders.

Alexander LM, Escalera J, Ai L, Andreotti C, Febre K, Mangone A, Vega-Potler N, Langer N, Alexander A, Kovacs M, Litke S, O'Hagan B, Andersen J, Bronstein B, Bui A, Bushey M, Butler H, Castagna V, Camacho N, Chan E, Citera D, Clucas J, Cohen S, Dufek S, Eaves M, Fradera B, Gardner J, Grant-Villegas N, Green G, Gregory C, Hart E, Harris S, Horton M, Kahn D, Kabotyanski K, Karmel B, Kelly SP, Kleinman K, Koo B, Kramer E, Lennon E, Lord C, Mantello G, Margolis A, Merikangas KR, Milham J, Minniti G, Neuhaus R, Levine A, Osman Y, Parra LC, Pugh KR, Racanello A, Restrepo A, Saltzman T, Septimus B, Tobe R, Waltz R, Williams A, Yeo A, Castellanos FX, Klein A, Paus T, Leventhal BL, Craddock RC, Koplewicz HS, Milham MP.
PMID: 29257126
Sci Data. 2017 Dec 19;4:170181. doi: 10.1038/sdata.2017.181.

Technological and methodological innovations are equipping researchers with unprecedented capabilities for detecting and characterizing pathologic processes in the developing human brain. As a result, ambitions to achieve clinically useful tools to assist in the diagnosis and management of mental...

Automatized image processing of bovine blastocysts produced in vitro for quantitative variable determination.

Rocha JC, Passalia FJ, Matos FD, Takahashi MB, Maserati MP, Alves MF, de Almeida TG, Cardoso BL, Basso AC, Nogueira MFG.
PMID: 29257125
Sci Data. 2017 Dec 19;4:170192. doi: 10.1038/sdata.2017.192.

There is currently no objective, real-time and non-invasive method for evaluating the quality of mammalian embryos. In this study, we processed images of in vitro produced bovine blastocysts to obtain a deeper comprehension of the embryonic morphological aspects that...

Assembly of an early-matured japonica (Geng) rice genome, Suijing18, based on PacBio and Illumina sequencing.

Nie SJ, Liu YQ, Wang CC, Gao SW, Xu TT, Liu Q, Chang HL, Chen YB, Yan PC, Peng W, Zheng TQ, Xu JL, Li ZK.
PMID: 29257136
Sci Data. 2017 Dec 19;4:170195. doi: 10.1038/sdata.2017.195.

The early-matured japonica (Geng) rice variety, Suijing18 (SJ18), carries multiple elite traits including durable blast resistance, good grain quality, and high yield. Using PacBio SMRT technology, we produced over 25 Gb of long-read sequencing raw data from SJ18 with...

Ash leaf metabolomes reveal differences between trees tolerant and susceptible to ash dieback disease.

Sambles CM, Salmon DL, Florance H, Howard TP, Smirnoff N, Nielsen LR, McKinney LV, Kjær ED, Buggs RJA, Studholme DJ, Grant M.
PMID: 29257137
Sci Data. 2017 Dec 19;4:170190. doi: 10.1038/sdata.2017.190.

European common ash, Fraxinus excelsior, is currently threatened by Ash dieback (ADB) caused by the fungus, Hymenoscyphus fraxineus. To detect and identify metabolites that may be products of pathways important in contributing to resistance against H. fraxineus, we performed...

Twelve thousand recent patellogastropods from a northeastern Pacific latitudinal gradient.

Kahanamoku SS, Hull PM, Lindberg DR, Hsiang AY, Clites EC, Finnegan S.
PMID: 29313842
Sci Data. 2018 Jan 09;5:170197. doi: 10.1038/sdata.2017.197.

Body size distributions can vary widely among communities, with important implications for ecological dynamics, energetics, and evolutionary history. Here we present a dataset of body size and shape for 12,035 extant Patellogastropoda (true limpet) specimens from the collections of...

Showing 25 to 36 of 1376 entries