The amphioxus genome illuminates vertebrate origins and cephalochordate biology (Q24650723)

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9 January 2020

title

The amphioxus genome illuminates vertebrate origins and cephalochordate biology (English)

1 reference

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9 January 2020

15

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9 January 2020

Marc Robinson-Rechavi

39

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9 January 2020

Carmela Gissi

14

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9 January 2020

Ricard Albalat

2

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Elia Benito-Gutiérrez

4

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9 January 2020

Matthew Blow

5

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9 January 2020

Marianne Bronner

6

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Simona Candiani

9

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Larry J Dishaw

10

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David Ferrier

11

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Jordi Garcia-fernandez

12

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9 January 2020

Finn Hallböök

16

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Kazuyoshi Hosomichi

18

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Ayuko Kimura

24

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Mario Pestarino

36

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Isidore Rigoutsos

38

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Yutaka Satou

44

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Michael Schubert

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Nicholas Putnam

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Alice Carolyn McHardy

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Alice C McHardy

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Len A Pennacchio

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author name string

Linda Z Holland

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Kaoru Azumi

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Frederic Brunet

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Thomas Butts

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Jeremy J Gibson-Brown

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Dan Hirose

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Tetsuro Ikuta

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Hidetoshi Inoko

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Masanori Kasahara

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Jun Kasamatsu

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Takeshi Kawashima

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Zbynek Kozmik

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Kaoru Kubokawa

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Gary W Litman

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Masaru Nonaka

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Robert P Olinski

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Zeev Pancer

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Jonathan P Rast

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Graeme Roch

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Yasunori Sasakura

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Nancy Sherwood

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Takashi Shiina

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Naohito Takatori

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Anlong Xu

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Yuzhen Ye

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Jr-Kai Yu

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Qing Zhang

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Christian M Zmasek

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Kazutoyo Osoegawa

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Noriyuki Satoh

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Peter W H Holland

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Masaaki Kobayashi

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Vincent Laudet

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Daniel Meulemans

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language of work or name

English

0 references

publication date

18 June 2008

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9 January 2020

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9 January 2020

volume

18

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issue

7

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9 January 2020

page(s)

1100-1111

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The genome of the sea urchin Strongylocentrotus purpuratus

9 January 2020

cites work

1 reference

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Insights into social insects from the genome of the honeybee Apis mellifera

7 April 2017

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An ancient evolutionary origin of the Rag1/2 gene locus

7 April 2017

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Reconstructing immune phylogeny: new perspectives

7 April 2017

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Two rounds of whole genome duplication in the ancestral vertebrate

7 April 2017

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7 April 2017

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Highly conserved non-coding sequences are associated with vertebrate development

7 April 2017

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The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics

7 April 2017

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BLAT—The BLAST-Like Alignment Tool

7 April 2017

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Initial sequencing and analysis of the human genome

7 April 2017

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Evolution of the chordate body plan: new insights from phylogenetic analyses of deuterostome phyla

7 April 2017

1 reference

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The amphioxus genome and the evolution of the chordate karyotype

7 April 2017

1 reference

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Deuterostome phylogeny reveals monophyletic chordates and the new phylum Xenoturbellida

7 April 2017

1 reference

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THE EVOLUTION OF ADAPTIVE IMMUNITY

7 April 2017

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Tunicates and not cephalochordates are the closest living relatives of vertebrates

7 April 2017

1 reference

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Initial sequence of the chimpanzee genome and comparison with the human genome

7 April 2017

1 reference

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Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype

7 April 2017

1 reference

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The Draft Genome of Ciona intestinalis: Insights into Chordate and Vertebrate Origins

7 April 2017

1 reference

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Initial sequencing and comparative analysis of the mouse genome

7 April 2017

1 reference

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Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes

7 April 2017

1 reference

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The Sequence of the Human Genome

7 April 2017

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The genome sequence of Drosophila melanogaster

7 April 2017

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Genome sequence of the nematode C. elegans: a platform for investigating biology

7 April 2017

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Evidence for a microRNA expansion in the bilaterian ancestor

7 April 2017

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The interleukin-1 receptor family

7 April 2017

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Structures of complement component C3 provide insights into the function and evolution of immunity

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Inflammatory caspases: linking an intracellular innate immune system to autoinflammatory diseases

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Neuropsin (Opn5): a novel opsin identified in mammalian neural tissue

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Multi-factorial role of GnRH-I and GnRH-II in the human ovary

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

The internal thioester and the covalent binding properties of the complement proteins C3 and C4

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

7 April 2017

Vertebrate innovations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

VISTA: computational tools for comparative genomics

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

In vivo enhancer analysis of human conserved non-coding sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Classification and nomenclature of all human homeobox genes.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Evolution and diversification of lamprey antigen receptors: evidence for involvement of an AID-APOBEC family cytosine deaminase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Identifying neuropeptide and protein hormone receptors in Drosophila melanogaster by exploiting genomic data

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Antigen-receptor genes of the agnathan lamprey are assembled by a process involving copy choice.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Innate recognition of intracellular bacteria.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Genomic insights into the immune system of the sea urchin

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Genomic view of the evolution of the complement system.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

TIR, CARD and PYRIN: three domains for an antimicrobial triad

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

NOD-LRR proteins: role in host-microbial interactions and inflammatory disease

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Cephalochordate melanopsin: evolutionary linkage between invertebrate visual cells and vertebrate photosensitive retinal ganglion cells.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Heterodimeric fly glycoprotein hormone-alpha2 (GPA2) and glycoprotein hormone-beta5 (GPB5) activate fly leucine-rich repeat-containing G protein-coupled receptor-1 (DLGR1) and stimulation of human thyrotropin receptors by chimeric fly GPA2 and human

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Cephalochordate (amphioxus) embryos: procurement, culture, and basic methods

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Ciliary photoreceptors with a vertebrate-type opsin in an invertebrate brain.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Gene-regulatory interactions in neural crest evolution and development

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Sensory systems in amphioxus: a window on the ancestral chordate condition

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Identification of a developmentally regulated striatum-enriched zinc-finger gene, Nolz-1, in the mammalian brain

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

The Anopheles gambiae genome: an update

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Unraveling V(D)J recombination; insights into gene regulation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Glocal alignment: finding rearrangements during alignment

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Dispersal of NK homeobox gene clusters in amphioxus and humans

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Identification of diversified genes that contain immunoglobulin-like variable regions in a protochordate

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Archetypal organization of the amphioxus Hox gene cluster.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Evolution of the insulin superfamily: cloning of a hybrid insulin/insulin-like growth factor cDNA from amphioxus

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Molecular evolution of retinal and nonretinal opsins

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Cis-regulation of the amphioxus engrailed gene: insights into evolution of a muscle-specific enhancer.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Immunology. One AID to unite them all.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Expression of the T-box family genes, Tbx1-Tbx5, during early mouse development.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Evidence of a role for T-box genes in the evolution of limb morphogenesis and the specification of forelimb/hindlimb identity

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Iodine binding in the endostyle of larval Branchiostoma lanceolatum (Cephalochordata).

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Axial patterning in cephalochordates and the evolution of the organizer

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Opsins and clusters of sensory G-protein-coupled receptors in the sea urchin genome

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Conserved Synteny Between the Ciona Genome and Human Paralogons Identifies Large Duplication Events in the Molecular Evolution of the Insulin-Relaxin Gene Family

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Tunicate gonadotropin-releasing hormone (GnRH) peptides selectively activate Ciona intestinalis GnRH receptors and the green monkey type II GnRH receptor.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Migratory neural crest-like cells form body pigmentation in a urochordate embryo

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

A genomewide survey of developmentally relevant genes in Ciona intestinalis. III. Genes for Fox, ETS, nuclear receptors and NFkappaB.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Fluorescentin situHybridisation to Amphioxus Chromosomes

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

The retinoic acid signaling pathway regulates anterior/posterior patterning in the nerve cord and pharynx of amphioxus, a chordate lacking neural crest.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Gene duplications in the prototypical cephalochordate amphioxus.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Ci-opsin1, a vertebrate-type opsin gene, expressed in the larval ocellus of the ascidian Ciona intestinalis

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

Sequence and developmental expression of AmphiDll, an amphioxus Distal-less gene transcribed in the ectoderm, epidermis and nervous system: insights into evolution of craniate forebrain and neural crest.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2493399

[On the formation of thyroid hormones and of their precursors by Branchiostoma lanceolatum Pallas (Amphioxus)]

28 November 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

Piecing together evolution of the vertebrate endocrine system

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

A retinoic acid-Hox hierarchy controls both anterior/posterior patterning and neuronal specification in the developing central nervous system of the cephalochordate amphioxus

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

The amphioxus Hox cluster: deuterostome posterior flexibility and Hox14

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

Amphioxus Evx Genes: Implications for the Evolution of the Midbrain–Hindbrain Boundary and the Chordate Tailbud

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

Identification of labeled thyroxine and triiodothyronine in amphioxus treated with 131-I

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

Evidence for a Hox14 paralog group in vertebrates

1 reference

https://pubmed.ncbi.nlm.nih.gov/18562680

12 December 2020

Identifiers

DOI

10.1101/GR.073676.107

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18562680%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18562680%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

PubMed publication ID

18562680

2 references