Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes (Q34559808)

3 August 2017

Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes (English)

1 reference

3 August 2017

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1 reference

6

Kerstin Lindblad-Toh

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Jessica Alföldi

8

object named as

Jessica Alföldi

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author name string

Walter L Eckalbar

1

1 reference

3 August 2017

Elizabeth D Hutchins

2

1 reference

3 August 2017

Glenn J Markov

3

1 reference

3 August 2017

April N Allen

4

1 reference

3 August 2017

Jason J Corneveaux

5

1 reference

3 August 2017

Federica Di Palma

7

1 reference

3 August 2017

Matthew J Huentelman

9

1 reference

3 August 2017

Kenro Kusumi

10

1 reference

3 August 2017

language of work or name

English

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publication date

23 January 2013

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3 August 2017

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3 August 2017

14

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3 August 2017

49

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Fast gapped-read alignment with Bowtie 2

3 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Somitogenesis in the anole lizard and alligator reveals evolutionary convergence and divergence in the amniote segmentation clock.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Convergent evolution of phenotypic integration and its alignment with morphological diversification in Caribbean Anolis ecomorphs

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Developing a community-based genetic nomenclature for anole lizards

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

The transposable element profile of the anolis genome: How a lizard can provide insights into the evolution of vertebrate genome size and structure

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

The genome of the green anole lizard and a comparative analysis with birds and mammals

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Evolutionary genomics implies a specific function of Ant4 in mammalian and anole lizard male germ cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Elevated Evolutionary Rates among Functionally Diverged Reproductive Genes across Deep Vertebrate Lineages

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

The Anolis lizard genome: an amniote genome without isochores

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Full-length transcriptome assembly from RNA-Seq data without a reference genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Comparative functional genomics of the fission yeasts

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Improving RNA-Seq expression estimates by correcting for fragment bias

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

A decade's perspective on DNA sequencing technology

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Reptiles and mammals have differentially retained long conserved noncoding sequences from the amniote ancestor.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

The evolution and diversity of DNA transposons in the genome of the Lizard Anolis carolinensis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

De novo assembly and analysis of RNA-seq data.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

CD-HIT Suite: a web server for clustering and comparing biological sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Genome 10K: a proposal to obtain whole-genome sequence for 10,000 vertebrate species

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Reptilian heart development and the molecular basis of cardiac chamber evolution

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

De novo transcriptome assembly with ABySS.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

TopHat: discovering splice junctions with RNA-Seq

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

ABySS: a parallel assembler for short read sequence data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Blast2GO: A comprehensive suite for functional analysis in plant genomics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

High-throughput functional annotation and data mining with the Blast2GO suite

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Genome level analysis of rice mRNA 3'-end processing signals and alternative polyadenylation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Automated generation of heuristics for biological sequence comparison

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Gene finding in novel genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Gene prediction with a hidden Markov model and a new intron submodel

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

BLAT—The BLAST-Like Alignment Tool

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

CAP3: A DNA sequence assembly program

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Creating a buzz about insect genomes.

7 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

Relationships among reproductive morphology, behavior, and testosterone in a natural population of green anole lizards

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

Behavioural display systems across nine Anolis lizard species: sexual dimorphisms in structure and function.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

Repeated modification of early limb morphogenesis programmes underlies the convergence of relative limb length in Anolis lizards.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

Compilation of mRNA polyadenylation signals in Arabidopsis revealed a new signal element and potential secondary structures.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

Identification of novel transcripts in annotated genomes using RNA-Seq

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-49

The gross anatomy of the original and regenerated tail in the green anole (Anolis carolinensis).

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

Sequencing the genome of the Burmese python (Python molurus bivittatus) as a model for studying extreme adaptations in snakes

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3561122

27 October 2018

Identifiers

DOI

10.1186/1471-2164-14-49

1 reference

3 August 2017

0 references

1 reference

3 August 2017

1 reference