Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

Genomes of the Mouse Collaborative Cross

(2017) Anuj Srivastava et al.   GENETICS

Mouse models of 17q21.31 microdeletion and microduplication syndromes highlight the importance of Kansl1 for cognition

(2017) Thomas Arbogast et al.   PLoS Genetics

Variation in olfactory neuron repertoires is genetically controlled and environmentally modulated

(2017) Ximena Ibarra-Soria et al.   eLife

Genomes of the Mouse Collaborative Cross

(2017) Anuj Srivastava et al.   GENETICS

Chromosome engineering in zygotes with CRISPR/Cas9

(2016) Katharina Boroviak et al.   GENESIS

Chromosome-scale shotgun assembly using an in vitro method for long-range linkage

(2016) Nicholas H. Putnam et al.   GENOME RESEARCH

Chromosomal contacts connect loci associated with autism, BMI and head circumference phenotypes

(2016) M N Loviglio et al.   MOLECULAR PSYCHIATRY

High-throughput discovery of novel developmental phenotypes

(2016) Mary E. Dickinson et al.   NATURE

Combinatorial effects of odorants on mouse behavior

(2016) Luis R. Saraiva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

WGE: a CRISPR database for genome engineering: Fig. 1.

(2015) Alex Hodgkins et al.   BIOINFORMATICS

Creating reference gene annotation for the mouse C57BL6/J genome assembly

(2015) Jonathan M. Mudge et al.   MAMMALIAN GENOME

APOL1 Kidney Disease Risk Variants: An Evolving Landscape

(2015) Patrick D. Dummer et al.   SEMINARS IN NEPHROLOGY

Integrative Genetic Analysis of Allergic Inflammation in the Murine Lung

(2014) Samir N. P. Kelada et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

A co-evolutionary arms race: trypanosomes shaping the human genome, humans shaping the trypanosome genome

(2014) PAUL CAPEWELL et al.   PARASITOLOGY

Host genetic diversity enables Ebola hemorrhagic fever pathogenesis and resistance

(2014) A. L. Rasmussen et al.   SCIENCE

Preclinical evaluation of human secretoglobin 3A2 in mouse models of lung development and fibrosis

(2013) Yan Cai et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Transcriptional analysis of the three Nlrp1 paralogs in mice

(2013) Inka Sastalla et al.   BMC GENOMICS

Of inflammasomes and pathogens - sensing of microbes by the inflammasome

(2013) Franz Bauernfeind et al.   EMBO Molecular Medicine

The Genotype-Tissue Expression (GTEx) project

(2013) John Lonsdale et al.   NATURE GENETICS

IFI16 DNA Sensor Is Required for Death of Lymphoid CD4 T Cells Abortively Infected with HIV

(2013) K. M. Monroe et al.   SCIENCE

Gene Copy-Number Polymorphism Caused by Retrotransposition in Humans

(2013) Daniel R. Schrider et al.   PLoS Genetics

Modeling Host Genetic Regulation of Influenza Pathogenesis in the Collaborative Cross

(2013) Martin T. Ferris et al.   PLoS Pathogens

Reciprocal virulence and resistance polymorphism in the relationship between Toxoplasma gondii and the house mouse

(2013) Jingtao Lilue et al.   eLife

Retrotransposition of gene transcripts leads to structural variation in mammalian genomes

(2013) Adam D Ewing et al.   GENOME BIOLOGY

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

The diversity outbred mouse population

(2012) Gary A. Churchill et al.   MAMMALIAN GENOME

Codon-usage-based inhibition of HIV protein synthesis by human schlafen 11

(2012) Manqing Li et al.   NATURE

PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees

(2012) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Anthrax Lethal Factor Cleavage of Nlrp1 Is Required for Activation of the Inflammasome

(2012) Jonathan L. Levinsohn et al.   PLoS Pathogens

The fine-scale architecture of structural variants in 17 mouse genomes

(2012) Binnaz Yalcin et al.   GENOME BIOLOGY

A novel hybrid gene prediction method employing protein multiple sequence alignments

(2011) Oliver Keller et al.   BIOINFORMATICS

Cactus: Algorithms for genome multiple sequence alignment

(2011) B. Paten et al.   GENOME RESEARCH

Collaborative Cross mice and their power to map host susceptibility toAspergillus fumigatusinfection

(2011) Caroline Durrant et al.   GENOME RESEARCH

Efficient de novo assembly of large genomes using compressed data structures

(2011) J. T. Simpson et al.   GENOME RESEARCH

Population variation in NAIP functional copy number confers increased cell death upon Legionella pneumophila infection

(2011) Michele Boniotto et al.   HUMAN IMMUNOLOGY

Cancer Immunoediting of the NK Group 2D Ligand H60a

(2011) T. O'Sullivan et al.   JOURNAL OF IMMUNOLOGY

Sequence-based characterization of structural variation in the mouse genome

(2011) Binnaz Yalcin et al.   NATURE

A conditional knockout resource for the genome-wide study of mouse gene function

(2011) William C. Skarnes et al.   NATURE

Mouse genomic variation and its effect on phenotypes and gene regulation

(2011) Thomas M. Keane et al.   NATURE

Fine Mapping in 94 Inbred Mouse Strains Using a High-Density Haplotype Resource

(2010) A. Kirby et al.   GENETICS

Identification of Wild-Derived Inbred Mouse Strains Highly Susceptible to Monkeypox Virus Infection for Use as Small Animal Models

(2010) J. L. Americo et al.   JOURNAL OF VIROLOGY

The immunity-related GTPases in mammals: a fast-evolving cell-autonomous resistance system against intracellular pathogens

(2010) Julia P. Hunn et al.   MAMMALIAN GENOME

Studies of the H60a locus in C57BL/6 and 129/Sv mouse strains identify the H60a 3′UTR as a regulator of H60a expression

(2010) Hui Zhang et al.   MOLECULAR IMMUNOLOGY

Sensory Neuron-Specific GPCR Mrgprs Are Itch Receptors Mediating Chloroquine-Induced Pruritus

(2009) Qin Liu et al.   CELL

Evolution of the Schlafen genes, a gene family associated with embryonic lethality, meiotic drive, immune processes and orthopoxvirus virulence

(2009) Olivia Bustos et al.   GENE

Lineage-Specific Biology Revealed by a Finished Genome Assembly of the Mouse

(2009) Deanna M. Church et al.   PLOS BIOLOGY

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

Applying mouse complex-trait resources to behavioural genetics

(2008) Jonathan Flint et al.   NATURE