Nature Search

An integrated encyclopedia of DNA elements in the human genome

This overview of the ENCODE project outlines the data accumulated so far, revealing that 80% of the human genome now has at least one biochemical function assigned to it; the newly identified functional elements should aid the interpretation of results of genome-wide association studies, as many correspond to sites of association with human disease.

Ian Dunham
Anshul Kundaje
Ewan Birney
ResearchOpen Access05 Sept 2012
Nature

Volume: 489, P: 57-74
Limiting factors for charge generation in low-offset fullerene-based organic solar cells

Fullerene acceptors are relevant for upscaling industrial production of organic solar cells. Here, authors reveal that for donor-acceptor blends with low energetic offset, charge transfer state dissociation rather than charge transfer state formation presents a bottleneck for free charge generation.

Anna Jungbluth
Eunkyung Cho
Moritz Riede
ResearchOpen Access28 Jun 2024
Nature Communications

Volume: 15, P: 1-11
Landscape of transcription in human cells

A description is given of the ENCODE effort to provide a complete catalogue of primary and processed RNAs found either in specific subcellular compartments or throughout the cell, revealing that three-quarters of the human genome can be transcribed, and providing a wealth of information on the range and levels of expression, localization, processing fates and modifications of known and previously unannotated RNAs.

Sarah Djebali
Carrie A. Davis
Thomas R. Gingeras
ResearchOpen Access05 Sept 2012
Nature

Volume: 489, P: 101-108
An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues

Frédéric Jehl
Kévin Muret
Sandrine Lagarrigue
ResearchOpen Access24 Nov 2020
Scientific Reports

Volume: 10, P: 1-17
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

Sequencing the microbial species present in complex metagenomic samples is made easier with a method that groups genes by co-abundance.

H Bjørn Nielsen
Mathieu Almeida
S Dusko Ehrlich
Research06 Jul 2014
Nature Biotechnology

Volume: 32, P: 822-828
Facilitating genome navigation: survey sequencing and dense radiation-hybrid gene mapping

Christophe Hitte
Jennifer Madeoy
Francis Galibert
Reviews12 Jul 2005
Nature Reviews Genetics

Volume: 6, P: 643-648
Richness of human gut microbiome correlates with metabolic markers

Analysis of the gut microbial gene composition in obese and non-obese individuals shows marked differences in bacterial richness between the two groups, with individuals with low richness exhibiting increased adiposity, insulin resistance, dyslipidaemia and inflammation; only a few bacterial marker species are needed to distinguish between individuals with high and low bacterial richness, providing potential for future diagnostic tools.

Emmanuelle Le Chatelier
Trine Nielsen
Oluf Pedersen
Research28 Aug 2013
Nature

Volume: 500, P: 541-546
Towards standards for human fecal sample processing in metagenomic studies

Testing 21 different fecal DNA extraction protocols in multiple laboratories results in a standardized protocol with the potential to improve comparability across human gut microbiome studies.

Paul I Costea
Georg Zeller
Peer Bork
Research02 Oct 2017
Nature Biotechnology

Volume: 35, P: 1069-1076
Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis

David Berry
Clarissa Schwab
Alexander Loy
Research10 May 2012
The ISME Journal

Volume: 6, P: 2091-2106
Assessment of transcript reconstruction methods for RNA-seq

The RGASP consortium compared 25 RNA-seq analysis programs in their ability to identify exons, reconstruct transcripts and quantify expression levels. Assembly of isoforms and their expression levels in higher eukaryotes remains a challenge.

Tamara Steijger
Josep F Abril
Paul Bertone
ResearchOpen Access03 Nov 2013
Nature Methods

Volume: 10, P: 1177-1184
Author Correction: An integrative atlas of chicken long non-coding genes and their annotations across 25 tissues

Frédéric Jehl
Kévin Muret
Sandrine Lagarrigue
Amendments and CorrectionsOpen Access28 Apr 2021
Scientific Reports

Volume: 11, P: 1
An integrated catalog of reference genes in the human gut microbiome

Li et al. provide the largest catalog of genes in the human gut microbiome based on samples from >1,200 individuals across three continents.

Junhua Li
Huijue Jia
Jun Wang
Research06 Jul 2014
Nature Biotechnology

Volume: 32, P: 834-841
Circulating tumor DNA is detectable in canine histiocytic sarcoma, oral malignant melanoma, and multicentric lymphoma

Anaïs Prouteau
Jérôme Alexandre Denis
Benoît Hédan
ResearchOpen Access13 Jan 2021
Scientific Reports

Volume: 11, P: 1-12
Characterisation and functional predictions of canine long non-coding RNAs

Céline Le Béguec
Valentin Wucher
Christophe Hitte
ResearchOpen Access07 Sept 2018
Scientific Reports

Volume: 8, P: 1-12
An exome sequencing based approach for genome-wide association studies in the dog

Bart J. G. Broeckx
Thomas Derrien
Christophe Hitte
ResearchOpen Access15 Nov 2017
Scientific Reports

Volume: 7, P: 1-11
Transcriptome profiling of mouse samples using nanopore sequencing of cDNA and RNA molecules

Camille Sessegolo
Corinne Cruaud
Jean-Marc Aury
ResearchOpen Access17 Oct 2019
Scientific Reports

Volume: 9, P: 1-12
Improved canine exome designs, featuring ncRNAs and increased coverage of protein coding genes

Bart J.G. Broeckx
Christophe Hitte
Dieter Deforce
ResearchOpen Access03 Aug 2015
Scientific Reports

Volume: 5, P: 1-10
Cytidine analogs are synthetic lethal with base excision repair default due to MBD4 deficiency

Thomas Chabot
Fariba Nemati
Manuel Rodrigues
ResearchOpen Access02 Nov 2022
npj Precision Oncology

Volume: 6, P: 1-9
Large-scale metabolic interaction network of the mouse and human gut microbiota

Roktaek Lim
Josephine Jill T. Cabatbat
Pan-Jun Kim
ResearchOpen Access26 Jun 2020
Scientific Data

Volume: 7, P: 1-8

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