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Gut bacterial communities of diarrheic patients with indications of Clostridioides difficile infection.

Schneider D, Thürmer A, Gollnow K, Lugert R, Gunka K, Groß U, Daniel R.
PMID: 29039846
Sci Data. 2017 Oct 17;4:170152. doi: 10.1038/sdata.2017.152.

We present bacterial 16S rRNA gene datasets derived from stool samples of 44 patients with diarrhea indicative of a Clostridioides difficile infection. For 20 of these patients, C. difficile infection was confirmed by clinical evidence. Stool samples from patients...

Building a locally diploid genome and transcriptome of the diatom Fragilariopsis cylindrus.

Paajanen P, Strauss J, van Oosterhout C, McMullan M, Clark MD, Mock T.
PMID: 28994819
Sci Data. 2017 Oct 10;4:170149. doi: 10.1038/sdata.2017.149.

The genome of the cold-adapted diatom Fragilariopsis cylindrus is characterized by highly diverged haplotypes that intersperse its homozygous genome. Here, we describe how a combination of PacBio DNA and Illumina RNA sequencing can be used to resolve this complex...

Jaw biodynamic data for 24 patients with chronic unilateral temporomandibular disorder.

López-Cedrún J, Santana-Mora U, Pombo M, Pérez Del Palomar A, Alonso De la Peña V, Mora MJ, Santana U.
PMID: 29112190
Sci Data. 2017 Nov 07;4:170168. doi: 10.1038/sdata.2017.168.

This study assessed 24 adult patients, suffering from severe chronic unilateral pain diagnosed as temporomandibular joint (TMJ) disorder (TMD). The full dentate patients had normal occlusion and had never received an occlusal therapy, i.e., were with natural dental evolution/maturation....

Iberian fish records in the vertebrate collection of the Museum of Zoology of the University of Navarra.

Rodeles AA, Galicia D, Miranda R.
PMID: 27727236
Sci Data. 2016 Oct 11;3:160091. doi: 10.1038/sdata.2016.91.

The study of freshwater fish species biodiversity and community composition is essential for understanding river systems, the effects of human activities on rivers, and the changes these animals face. Conducting this type of research requires quantitative information on fish...

Transcriptome characterisation and simple sequence repeat marker discovery in the seagrass Posidonia oceanica.

D'Esposito D, Orrù L, Dattolo E, Bernardo L, Lamontanara A, Orsini L, Serra IA, Mazzuca S, Procaccini G.
PMID: 27996971
Sci Data. 2016 Dec 20;3:160115. doi: 10.1038/sdata.2016.115.

Posidonia oceanica is an endemic seagrass in the Mediterranean Sea, where it provides important ecosystem services and sustains a rich and diverse ecosystem. P. oceanica meadows extend from the surface to 40 meters depth. With the aim of boosting...

RNA sequencing analysis of the developing chicken retina.

Langouet-Astrie CJ, Meinsen AL, Grunwald ER, Turner SD, Enke RA.
PMID: 27996968
Sci Data. 2016 Dec 20;3:160117. doi: 10.1038/sdata.2016.117.

RNA sequencing transcriptome analysis using massively parallel next generation sequencing technology provides the capability to understand global changes in gene expression throughout a range of tissue samples. Development of the vertebrate retina requires complex temporal orchestration of transcriptional activation...

microRNA profile datasets of murine macrophages infected with different strains of Leptospira spp.

Garcia LE, Junior ECA, Bragato JP, Melo LM, Lima VFM, Peiró JR, Arnold DR, Marinho M, Lopes FL.
PMID: 30129936
Sci Data. 2018 Aug 21;5:180171. doi: 10.1038/sdata.2018.171.

MicroRNAs play an important role in the regulation of immune responses. The influence of epigenetic mechanisms, particularly RNA-mediated post-transcriptional regulation of host immune responses has been proven vital following infections by different pathogens, and bacteria can modulated host miRNAs....

Gramene 2018: unifying comparative genomics and pathway resources for plant research.

Tello-Ruiz MK, Naithani S, Stein JC, Gupta P, Campbell M, Olson A, Wei S, Preece J, Geniza MJ, Jiao Y, Lee YK, Wang B, Mulvaney J, Chougule K, Elser J, Al-Bader N, Kumari S, Thomason J, Kumar V, Bolser DM, Naamati G, Tapanari E, Fonseca N, Huerta L, Iqbal H, Keays M, Munoz-Pomer Fuentes A, Tang A, Fabregat A, D'Eustachio P, Weiser J, Stein LD, Petryszak R, Papatheodorou I, Kersey PJ, Lockhart P, Taylor C, Jaiswal P, Ware D.
PMID: 29165610
Nucleic Acids Res. 2018 Jan 04;46:D1181-D1189. doi: 10.1093/nar/gkx1111.

Gramene (http://www.gramene.org) is a knowledgebase for comparative functional analysis in major crops and model plant species. The current release, #54, includes over 1.7 million genes from 44 reference genomes, most of which were organized into 62,367 gene families through...

Mountain hare transcriptome and diagnostic markers as resources to monitor hybridization with European hares.

Marques JP, Ferreira MS, Farelo L, Callahan CM, Hackländer K, Jenny H, Montgomery WI, Reid N, Good JM, Alves PC, Melo-Ferreira J.
PMID: 29206218
Sci Data. 2017 Dec 05;4:170178. doi: 10.1038/sdata.2017.178.

We report the first mountain hare (Lepus timidus) transcriptome, produced by de novo assembly of RNA-sequencing reads. Data were obtained from eight specimens sampled in two localities, Alps and Ireland. The mountain hare tends to be replaced by the...

Targeted proteomic assays for quantitation of proteins identified by proteogenomic analysis of ovarian cancer.

Song E, Gao Y, Wu C, Shi T, Nie S, Fillmore TL, Schepmoes AA, Gritsenko MA, Qian WJ, Smith RD, Rodland KD, Liu T.
PMID: 28722704
Sci Data. 2017 Jul 19;4:170091. doi: 10.1038/sdata.2017.91.

Mass spectrometry (MS) based targeted proteomic methods such as selected reaction monitoring (SRM) are emerging as a promising tool for verification of candidate proteins in biological and biomedical applications. The Clinical Proteomic Tumor Analysis Consortium (CPTAC) of the National...

Survey of local impacts of biofuel crop production and adoption of ethanol stoves in southern Africa.

Gasparatos A, von Maltitz GP, Johnson FX, Romeu-Dalmau C, Jumbe CBL, Ochieng C, Mudombi S, Balde BS, Luhanga D, Lopes P, Nyambane A, Jarzebski MP, Willis KJ.
PMID: 30226483
Sci Data. 2018 Sep 18;5:180186. doi: 10.1038/sdata.2018.186.

The two datasets outlined in this paper contain information related to (a) the local impacts of biofuel feedstock production, and (b) the factors that influence the adoption and/or sustained use of ethanol stoves in southern Africa. The first dataset...

Genome-wide barcoded transposon screen for cancer drug sensitivity in haploid mouse embryonic stem cells.

Pettitt SJ, Krastev DB, Pemberton HN, Fontebasso Y, Frankum J, Rehman FL, Brough R, Song F, Bajrami I, Rafiq R, Wallberg F, Kozarewa I, Fenwick K, Armisen-Garrido J, Swain A, Gulati A, Campbell J, Ashworth A, Lord CJ.
PMID: 28248920
Sci Data. 2017 Mar 01;4:170020. doi: 10.1038/sdata.2017.20.

We describe a screen for cellular response to drugs that makes use of haploid embryonic stem cells. We generated ten libraries of mutants with piggyBac gene trap transposon integrations, totalling approximately 100,000 mutant clones. Random barcode sequences were inserted...

Showing 1 to 12 of 1376 entries