High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis

Maternal effects shape the alternative splicing of parental alleles in reciprocal cross hybrids of Megalobrama amblycephala × Culter alburnus

(2020) Li Ren et al.   BMC GENOMICS

High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis

(2020) Qionghua Gao et al.   GigaScience

The Orphan Cytokine Receptor CRLF3 Emerged With the Origin of the Nervous System and Is a Neuroprotective Erythropoietin Receptor in Locusts

(2019) Nina Hahn et al.   Frontiers in Molecular Neuroscience

Alternative splicing associated with phenotypic plasticity in the bumble bee Bombus terrestris

(2018) J. Price et al.   MOLECULAR ECOLOGY

Nanopore sequencing and assembly of a human genome with ultra-long reads

(2018) Miten Jain et al.   NATURE BIOTECHNOLOGY

High-Quality Genome Assemblies Reveal Long Non-coding RNAs Expressed in Ant Brains

(2018) Emily J. Shields et al.   Cell Reports

The genomic architecture and molecular evolution of ant odorant receptors

(2018) Sean Keane McKenzie et al.   GENOME RESEARCH

Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants

(2018) Fu-Yuan Zhu et al.   Plant Methods

Social regulation of insulin signaling and the evolution of eusociality in ants

(2018) Vikram Chandra et al.   SCIENCE

Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies

(2018) Michael J. Roach et al.   BMC BIOINFORMATICS

Towards reconstructing the ancestral brain gene-network regulating caste differentiation in ants

(2018) Bitao Qiu et al.   Nature Ecology & Evolution

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

A global survey of alternative splicing in allopolyploid cotton: landscape, complexity and regulation

(2017) Maojun Wang et al.   NEW PHYTOLOGIST

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

The Insect Ortholog of the Human Orphan Cytokine Receptor CRLF3 Is a Neuroprotective Erythropoietin Receptor

(2017) Nina Hahn et al.   Frontiers in Molecular Neuroscience

Ant Genetics: Reproductive Physiology, Worker Morphology, and Behavior

(2016) D.A. Friedman et al.   Annual Review of Neuroscience

Long Noncoding RNAs in Metabolic Syndrome Related Disorders

(2016) Magdalena Losko et al.   MEDIATORS OF INFLAMMATION

Draft genome of the leopard gecko, Eublepharis macularius

(2016) Zijun Xiong et al.   GigaScience

Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

(2016) Neva C. Durand et al.   Cell Systems

DNA Methylation in Social Insects: How Epigenetics Can Control Behavior and Longevity

(2015) Hua Yan et al.   Annual Review of Entomology

Genome assembly using Nanopore-guided long and error-free DNA reads

(2015) Mohammed-Amin Madoui et al.   BMC GENOMICS

Reproductive workers show queenlike gene expression in an intermediately eusocial insect, the buff-tailed bumble beeBombus terrestris

(2015) Mark C. Harrison et al.   MOLECULAR ECOLOGY

Genes associated with ant social behavior show distinct transcriptional and evolutionary patterns

(2015) Alexander S Mikheyev et al.   eLife

SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information

(2014) Marten Boetzer et al.   BMC BIOINFORMATICS

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

Intergenic lncRNAs and the evolution of gene expression

(2014) Ana C Marques et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Widespread intron retention in mammals functionally tunes transcriptomes

(2014) Ulrich Braunschweig et al.   GENOME RESEARCH

Not Only for Egg Yolk—Functional and Evolutionary Insights from Expression, Selection, and Structural Analyses of Formica Ant Vitellogenins

(2014) Claire Morandin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcriptional regulatory functions of nuclear long noncoding RNAs

(2014) Keith W. Vance et al.   TRENDS IN GENETICS

Molecular traces of alternative social organization in a termite genome

(2014) Nicolas Terrapon et al.   Nature Communications

Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality

(2013) D. F. Simola et al.   GENOME RESEARCH

Alternative splicing: a pivotal step between eukaryotic transcription and translation

(2013) Alberto R. Kornblihtt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA interference knockdown of DNA methyl-transferase 3 affects gene alternative splicing in the honey bee

(2013) H. Li-Byarlay et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Vitellogenin Underwent Subfunctionalization to Acquire Caste and Behavioral Specific Expression in the Harvester Ant Pogonomyrmex barbatus

(2013) Miguel Corona et al.   PLoS Genetics

Ant genomics sheds light on the molecular regulation of social organization

(2013) Romain Libbrecht et al.   GENOME BIOLOGY

Genome-wide and Caste-Specific DNA Methylomes of the Ants Camponotus floridanus and Harpegnathos saltator

(2012) Roberto Bonasio et al.   CURRENT BIOLOGY

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Transcriptome comparison between honey bee queen- and worker-destined larvae

(2012) Xuan Chen et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology

(2012) Adam C. English et al.   PLoS One

DNA methylation dynamics, metabolic fluxes, gene splicing, and alternative phenotypes in honey bees

(2012) S. Foret et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tracing back the nascence of a new sex-determination pathway to the ancestor of bees and ants

(2012) Sandra Schmieder et al.   Nature Communications

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

The genome of the leaf-cutting antAcromyrmex echinatiorsuggests key adaptations to advanced social life and fungus farming

(2011) Sanne Nygaard et al.   GENOME RESEARCH

The genome of the fire ant Solenopsis invicta

(2011) Y. Wurm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential regulation of the foraging gene associated with task behaviors in harvester ants

(2011) Krista K Ingram et al.   BMC ECOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Insect sex determination: it all evolves around transformer

(2010) Eveline C Verhulst et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Molecular Signals of Epigenetic States

(2010) Roberto Bonasio et al.   SCIENCE

Nature versus nurture in social insect caste differentiation

(2010) Tanja Schwander et al.   TRENDS IN ECOLOGY & EVOLUTION

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

Expression patterns of a circadian clock gene are associated with age-related polyethism in harvester ants, Pogonomyrmex occidentalis

(2009) Krista K Ingram et al.   BMC ECOLOGY