List of works - Erich Jarvis

A Foxp2 Mutation Implicated in Human Speech Deficits Alters Sequencing of Ultrasonic Vocalizations in Adult Male Mice

scientific article published on 20 October 2016

A draft genome sequence of the elusive giant squid, Architeuthis dux

scientific article published on 01 January 2020

A draft human pangenome reference

scientific article published on 10 May 2023

A high-quality reference genome for the critically endangered Aeolian wall lizard, <i>Podarcis raffonei</i>

A hypothesis on a role of oxytocin in the social mechanisms of speech and vocal learning

scientific article published in August 2017

A molecular neuroethological approach for identifying and characterizing a cascade of behaviorally regulated genes

scientific article (publication date: 10 October 2006)

A new duck genome reveals conserved and convergently evolved chromosome architectures of birds and mammals

scientific article published on 01 January 2021

A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes

scientific article published on 06 January 2021

A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

scientific article published on 30 June 2015

Adaptive Radiation Genomics of Two Ecologically Divergent Hawai'ian Honeycreepers: The 'akiapōlā'au and the Hawai'i 'amakihi

scientific article published on 01 February 2020

Advances to Bayesian network inference for generating causal networks from observational biological data

scientific article

Africa: sequence 100,000 species to safeguard biodiversity

scientific article published on 15 March 2022

Analysis of Mouse Vocal Communication (AMVOC): a deep, unsupervised method for rapid detection, analysis and classification of ultrasonic vocalisations

scientific article published in 2022

Analysis of the mouse transcriptome for genes involved in the function of the nervous system.

scientific article

As above, so below: Whole transcriptome profiling demonstrates strong molecular similarities between avian dorsal and ventral pallial subdivisions

scientific article

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

scientific article

Assessing visual requirements for social context-dependent activation of the songbird song system

scientific article (publication date: 22 January 2009)

Avian Binocularity and Adaptation to Nocturnal Environments: Genomic Insights from a Highly Derived Visual Phenotype

scientific article published on 01 August 2019

Avian brains and a new understanding of vertebrate brain evolution

scientific article

Avian genomes. A flock of genomes. Introduction

scientific article

Avianbase: a community resource for bird genomics

scientific article

Axon guidance pathways served as common targets for human speech/language evolution and related disorders

scientific article published on 07 July 2017

Basal ganglia function, stuttering, sequencing, and repair in adult songbirds

scientific article

Behaviorally Regulated mRNA and Protein Expression in the Songbird Brain ⬇️

scientific article published on September 2, 2011

Behaviourally driven gene expression reveals song nuclei in hummingbird brain

scientific article (publication date: 10 August 2000)

Birds, primates, and spoken language origins: behavioral phenotypes and neurobiological substrates ⬇️

scientific article published on August 16, 2012

Bone-associated gene evolution and the origin of flight in birds

scientific article

Brain evolution by brain pathway duplication

scientific article

Building genomic infrastructure: Sequencing platinum‐standard reference‐quality genomes of all cetacean species

scholarly article

Comparative genomic data of the Avian Phylogenomics Project

scientific article

Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species

scientific article

Comparative genomics reveals insights into avian genome evolution and adaptation

scientific article

Comparative genomics reveals molecular features unique to the songbird lineage

scientific article

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

scientific article published on 29 April 2021

Complex evolutionary trajectories of sex chromosomes across bird taxa

scientific article published on 11 December 2014

Computational inference of neural information flow networks

scientific article

Controlling for activity-dependent genes and behavioral states is critical for determining brain relationships within and across species

scientific article

Convergent differential regulation of SLIT-ROBO axon guidance genes in the brains of vocal learners

scientific article

Convergent differential regulation of parvalbumin in the brains of vocal learners

scientific article (publication date: 2012)

Convergent transcriptional specializations in the brains of humans and song-learning birds

scientific article

Core and Shell Song Systems Unique to the Parrot Brain

scientific article

Core and region-enriched networks of behaviorally regulated genes and the singing genome

scientific article

Darwinian genomics and diversity in the tree of life

scientific article published on 18 January 2022

De novo PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads.

scientific article published on October 2017

Dense sampling of bird diversity increases power of comparative genomics

scientific article published on 11 November 2020

Different mechanisms are responsible for dishabituation of electrophysiological auditory responses to a change in acoustic identity than to a change in stimulus location

scientific article

Differential expression of glutamate receptors in avian neural pathways for learned vocalization

scientific article (publication date: 9 August 2004)

Divergence in problem-solving skills is associated with differential expression of glutamate receptors in wild finches

scientific article

Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories

scientific article published in 2023

Dopamine receptors in a songbird brain

scientific article

Dopamine regulation of human speech and bird song: a critical review

scientific article

Dynamic evolution of base composition: causes and consequences in avian phylogenomics

scientific article (publication date: August 2011)

Dynamic evolution of the alpha (α) and beta (β) keratins has accompanied integument diversification and the adaptation of birds into novel lifestyles

scientific article

Early onset of deafening-induced song deterioration and differential requirements of the pallial-basal ganglia vocal pathway

scientific article

Earth BioGenome Project: Sequencing life for the future of life

scientific article published on 23 April 2018

Eliciting and Analyzing Male Mouse Ultrasonic Vocalization (USV) Songs

scientific article published on 9 May 2017

Empowering 21st Century Biology

article

Evaluating functional network inference using simulations of complex biological systems

scientific article published in January 2002

Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition

scientific article

Evidence for a single loss of mineralized teeth in the common avian ancestor

scientific article published on 11 December 2014

Evolution of vocal learning and spoken language

scientific article published on 03 October 2019

Evolutionary genomics and adaptive evolution of the Hedgehog gene family (Shh, Ihh and Dhh) in vertebrates

scientific article

Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C

scientific article published on 28 April 2021

Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds

scientific article

Genomic resources for the endangered Hawaiian honeycreepers

scientific article

Genomic signatures of near-extinction and rebirth of the crested ibis and other endangered bird species

scientific article

Genomics: Bird sequencing project takes off.

scientific article published in June 2015

Global view of the functional molecular organization of the avian cerebrum: mirror images and functional columns

scientific article

Haplotype-resolved assembly of diploid genomes without parental data

scientific article published in 2022

High-coverage sequencing and annotated assemblies of the budgerigar genome

scientific article

Hybrid error correction and de novo assembly of single-molecule sequencing reads

scientific article

Identification and characterization of primordial germ cells in a vocal learning Neoaves species, the zebra finch

scientific article published on 11 October 2019

Identification of dopamine receptors across the extant avian family tree and analysis with other clades uncovers a polyploid expansion among vertebrates

scientific article published on 7 October 2015

Induction of an immortalized songbird cell line allows for gene characterization and knockout by CRISPR-Cas9

scientific article published on 14 March 2022

Induction of hippocampal long-term potentiation during waking leads to increased extrahippocampal zif-268 expression during ensuing rapid-eye-movement sleep

scientific journal article

Influence of network topology and data collection on network inference

scientific article

Interspecies Avian Brain Chimeras Reveal That Large Brain Size Differences Are Influenced by Cell–Interdependent Processes ⬇️

scientific article published on July 30, 2012

Lateralized activation of Cluster N in the brains of migratory songbirds

scientific article published on February 2007

Learned birdsong and the neurobiology of human language

scientific article

Listening in

scientific article

Low frequency of paleoviral infiltration across the avian phylogeny

scientific article

Maintenance and neuronal differentiation of chicken induced pluripotent stem-like cells

scientific article

Male mice song syntax depends on social contexts and influences female preferences

scientific article

Mammalian genes induce partially reprogrammed pluripotent stem cells in non-mammalian vertebrate and invertebrate species

scientific article (publication date: 3 September 2013)

Microproteomics: Quantitative Proteomic Profiling of Small Numbers of Laser-Captured Cells ⬇️

scientific article published on February 1, 2011

Molecular mapping of movement-associated areas in the avian brain: a motor theory for vocal learning origin

scientific article

Molecular profiling of the developing avian telencephalon: regional timing and brain subdivision continuities

scientific article (publication date: November 2013)

Mouse vocal communication system: Are ultrasounds learned or innate? ⬇️

scientific article published on January 4, 2013

NSF workshop report: discovering general principles of nervous system organization by comparing brain maps across species

scientific article (publication date: 2014)

NSF workshop report: discovering general principles of nervous system organization by comparing brain maps across species.

scientific article published on May 2014

Neural systems for vocal learning in birds and humans: a synopsis

scientific article

Night-time neuronal activation of Cluster N in a day- and night-migrating songbird

scientific article (publication date: August 2010)

Night-vision brain area in migratory songbirds

scientific article

Novel Insights into Chromosome Evolution in Birds, Archosaurs, and Reptiles

scientific article

Obtaining mtDNA genomes from next-generation transcriptome sequencing: a case study on the basal Passerida (Aves: Passeriformes) phylogeny

scientific article published on 25 June 2010

Of Mice, Birds, and Men: The Mouse Ultrasonic Song System Has Some Features Similar to Humans and Song-Learning Birds ⬇️

scientific article published on October 10, 2012

Olfactory Receptor Subgenomes Linked with Broad Ecological Adaptations in Sauropsida

scientific article published on 28 July 2015

Overexpression of human NR2B receptor subunit in LMAN causes stuttering and song sequence changes in adult zebra finches

scientific article published on 21 April 2017

Parrot Genomes and the Evolution of Heightened Longevity and Cognition

scientific article published on 06 December 2018

Perspectives from the Avian Phylogenomics Project: Questions that Can Be Answered with Sequencing All Genomes of a Vertebrate Class

scientific article published on February 2016

Phylogenomic analyses data of the avian phylogenomics project

scientific article

Platypus and echidna genomes reveal mammalian biology and evolution

scientific article published on 06 January 2021

Population genomics of the critically endangered kākāpō

article published in "Cell Genomics" in September 2021

Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans

Profiling of experience-regulated proteins in the songbird auditory forebrain using quantitative proteomics

scientific article

Progressive Cactus is a multiple-genome aligner for the thousand-genome era

scientific article published on 11 November 2020

Progressive alignment with Cactus: a multiple-genome aligner for the thousand-genome era

scientific article published on 9 August 2019

Radioactive <em>in situ</em> Hybridization for Detecting Diverse Gene Expression Patterns in Tissue ⬇️

scientific article (publication date: 27 April 2012)

Rapid behavioral and genomic responses to social opportunity

scientific article

Reconstruction of gross avian genome structure, organization and evolution suggests that the chicken lineage most closely resembles the dinosaur avian ancestor

scientific article

Reference genome and demographic history of the most endangered marine mammal, the vaquita

scientific article published on 22 October 2020

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds".

scientific article published on September 2015

Revised nomenclature for avian telencephalon and some related brainstem nuclei

scientific article

Role of the midbrain dopaminergic system in modulation of vocal brain activation by social context

scientific article

Rudimentary substrates for vocal learning in a suboscine

scientific article published in January 2013

Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes

scientific article

Six reference-quality genomes reveal evolution of bat adaptations

scientific article published on 22 July 2020

Social context-dependent singing-regulated dopamine

scientific article (publication date: 30 August 2006)

Songbird species that display more-complex vocal learning are better problem-solvers and have larger brains

scientific article published on 14 September 2023

Songbirds and the revised avian brain nomenclature

scientific article

Specialized motor-driven dusp1 expression in the song systems of multiple lineages of vocal learning birds

scientific article

Standards recommendations for the Earth BioGenome Project

scientific article published on 18 January 2022

Surviving as an underrepresented minority scientist in a majority environment

scientific article

Tempo and Pattern of Avian Brain Size Evolution

scientific article published on 18 April 2020

The Avian Brain Nomenclature Forum: Terminology for a New Century in Comparative Neuroanatomy

scientific article published on January 2004

The Earth BioGenome Project 2020: Starting the clock

scientific article published on 25 January 2022

The Human Pangenome Project: a global resource to map genomic diversity

scientific article published in April 2022

The Origin and Diversification of Birds

scientific article published on October 2015

The basal ganglia within a cognitive system in birds and mammals

scientific article

The dusp1 immediate early gene is regulated by natural stimuli predominantly in sensory input neurons

scientific article (publication date: 15 July 2010)

The era of reference genomes in conservation genomics

scientific article published in March 2022

The genome of a songbird

scientific article

The genome sequence of the Eurasian red squirrel, Sciurus vulgaris Linnaeus 1758

scientific article published on 03 February 2020

The pallial basal ganglia pathway modulates the behaviorally driven gene expression of the motor pathway

scientific article

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

scientific article

Towards complete and error-free genome assemblies of all vertebrate species

scientific article

Transsynaptic Tracing from Peripheral Targets with Pseudorabies Virus Followed by Cholera Toxin and Biotinylated Dextran Amines Double Labeling

scientific article published on 14 September 2015

Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment

scientific article

Universal nomenclature for oxytocin-vasotocin ligand and receptor families

scientific article published on 28 April 2021

VOCALIZATIONS AND ASSOCIATED BEHAVIORS OF THE SOMBRE HUMMINGBIRD (APHANTOCHROA CIRRHOCHLORIS) AND THE RUFOUS-BREASTED HERMIT (GLAUCIS HIRSUTUS).

scientific article

Variation in predicted COVID-19 risk among lemurs and lorises

scholarly article by Christian Roos published in 2021

Variation in predicted COVID-19 risk among lemurs and lorises

scholarly article by Lukas Kuderna published in 2021

Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds

scientific article

Whole-genome analyses resolve early branches in the tree of life of modern birds

scientific article

Why sequence all eukaryotes?

scientific article published on 01 January 2022

List of works by Erich Jarvis

A Foxp2 Mutation Implicated in Human Speech Deficits Alters Sequencing of Ultrasonic Vocalizations in Adult Male Mice

A draft genome sequence of the elusive giant squid, Architeuthis dux

A draft human pangenome reference

A high-quality reference genome for the critically endangered Aeolian wall lizard, <i>Podarcis raffonei</i>

A hypothesis on a role of oxytocin in the social mechanisms of speech and vocal learning

A molecular neuroethological approach for identifying and characterizing a cascade of behaviorally regulated genes

A new duck genome reveals conserved and convergently evolved chromosome architectures of birds and mammals

A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes

A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

Adaptive Radiation Genomics of Two Ecologically Divergent Hawai'ian Honeycreepers: The 'akiapōlā'au and the Hawai'i 'amakihi

Advances to Bayesian network inference for generating causal networks from observational biological data

Africa: sequence 100,000 species to safeguard biodiversity

Analysis of Mouse Vocal Communication (AMVOC): a deep, unsupervised method for rapid detection, analysis and classification of ultrasonic vocalisations

Analysis of the mouse transcriptome for genes involved in the function of the nervous system.

As above, so below: Whole transcriptome profiling demonstrates strong molecular similarities between avian dorsal and ventral pallial subdivisions

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

Assessing visual requirements for social context-dependent activation of the songbird song system

Avian Binocularity and Adaptation to Nocturnal Environments: Genomic Insights from a Highly Derived Visual Phenotype

Avian brains and a new understanding of vertebrate brain evolution

Avian genomes. A flock of genomes. Introduction

Avianbase: a community resource for bird genomics

Axon guidance pathways served as common targets for human speech/language evolution and related disorders

Basal ganglia function, stuttering, sequencing, and repair in adult songbirds

Behaviorally Regulated mRNA and Protein Expression in the Songbird Brain ⬇️

Behaviourally driven gene expression reveals song nuclei in hummingbird brain

Birds, primates, and spoken language origins: behavioral phenotypes and neurobiological substrates ⬇️

Bone-associated gene evolution and the origin of flight in birds

Brain evolution by brain pathway duplication

Building genomic infrastructure: Sequencing platinum‐standard reference‐quality genomes of all cetacean species

Comparative genomic data of the Avian Phylogenomics Project

Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species

Comparative genomics reveals insights into avian genome evolution and adaptation

Comparative genomics reveals molecular features unique to the songbird lineage

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

Complex evolutionary trajectories of sex chromosomes across bird taxa

Computational inference of neural information flow networks

Controlling for activity-dependent genes and behavioral states is critical for determining brain relationships within and across species

Convergent differential regulation of SLIT-ROBO axon guidance genes in the brains of vocal learners

Convergent differential regulation of parvalbumin in the brains of vocal learners

Convergent transcriptional specializations in the brains of humans and song-learning birds

Core and Shell Song Systems Unique to the Parrot Brain

Core and region-enriched networks of behaviorally regulated genes and the singing genome

Darwinian genomics and diversity in the tree of life

De novo PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads.

Dense sampling of bird diversity increases power of comparative genomics

Different mechanisms are responsible for dishabituation of electrophysiological auditory responses to a change in acoustic identity than to a change in stimulus location

Differential expression of glutamate receptors in avian neural pathways for learned vocalization

Divergence in problem-solving skills is associated with differential expression of glutamate receptors in wild finches

Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories

Dopamine receptors in a songbird brain

Dopamine regulation of human speech and bird song: a critical review

Dynamic evolution of base composition: causes and consequences in avian phylogenomics

Dynamic evolution of the alpha (α) and beta (β) keratins has accompanied integument diversification and the adaptation of birds into novel lifestyles

Early onset of deafening-induced song deterioration and differential requirements of the pallial-basal ganglia vocal pathway

Earth BioGenome Project: Sequencing life for the future of life

Eliciting and Analyzing Male Mouse Ultrasonic Vocalization (USV) Songs

Empowering 21st Century Biology

Evaluating functional network inference using simulations of complex biological systems

Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition

Evidence for a single loss of mineralized teeth in the common avian ancestor

Evolution of vocal learning and spoken language

Evolutionary genomics and adaptive evolution of the Hedgehog gene family (Shh, Ihh and Dhh) in vertebrates

Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C

Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds

Genomic resources for the endangered Hawaiian honeycreepers

Genomic signatures of near-extinction and rebirth of the crested ibis and other endangered bird species

Genomics: Bird sequencing project takes off.

Global view of the functional molecular organization of the avian cerebrum: mirror images and functional columns

Haplotype-resolved assembly of diploid genomes without parental data

High-coverage sequencing and annotated assemblies of the budgerigar genome

Hybrid error correction and de novo assembly of single-molecule sequencing reads

Identification and characterization of primordial germ cells in a vocal learning Neoaves species, the zebra finch

Identification of dopamine receptors across the extant avian family tree and analysis with other clades uncovers a polyploid expansion among vertebrates

Induction of an immortalized songbird cell line allows for gene characterization and knockout by CRISPR-Cas9

Induction of hippocampal long-term potentiation during waking leads to increased extrahippocampal zif-268 expression during ensuing rapid-eye-movement sleep

Influence of network topology and data collection on network inference

Interspecies Avian Brain Chimeras Reveal That Large Brain Size Differences Are Influenced by Cell–Interdependent Processes ⬇️

Lateralized activation of Cluster N in the brains of migratory songbirds

Learned birdsong and the neurobiology of human language

Radioactive <em>in situ</em> Hybridization for Detecting Diverse Gene Expression Patterns in Tissue ⬇️