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Preface. Bacterial pangenomics.

Overview of attention for book
Cover of 'Preface. Bacterial pangenomics.'

Table of Contents

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    Book Overview
  2. Altmetric Badge
    Chapter 1 Pulsed Field Gel Electrophoresis and Genome Size Estimates
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    Chapter 2 Comparative analyses of extrachromosomal bacterial replicons, identification of chromids, and experimental evaluation of their indispensability.
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    Chapter 3 Choice of Next-Generation Sequencing Pipelines
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    Chapter 4 The pyrosequencing protocol for bacterial genomes.
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    Chapter 5 Bacterial Metabarcoding by 16S rRNA Gene Ion Torrent Amplicon Sequencing.
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    Chapter 6 The illumina-solexa sequencing protocol for bacterial genomes.
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    Chapter 7 High-throughput phenomics.
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    Chapter 8 Comparative Analysis of Gene Expression: Uncovering Expression Conservation and Divergence Between Salmonella enterica Serovar Typhimurium Strains LT2 and 14028S
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    Chapter 9 Raw sequence data and quality control.
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    Chapter 10 Methods for Assembling Reads and Producing Contigs
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    Chapter 11 Mapping Contigs Using CONTIGuator.
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    Chapter 12 Gene Calling and Bacterial Genome Annotation with BG7.
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    Chapter 13 Defining orthologs and pangenome size metrics.
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    Chapter 14 Robust Identification of Orthologues and Paralogues for Microbial Pan-Genomics Using GET_HOMOLOGUES: A Case Study of pIncA/C Plasmids.
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    Chapter 15 Genome-scale metabolic network reconstruction.
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    Chapter 16 From pangenome to panphenome and back.
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    Chapter 17 Genome-Wide Detection of Selection and Other Evolutionary Forces
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    Chapter 18 The integrated microbial genome resource of analysis.
  20. Altmetric Badge
    Chapter 19 Erratum to: Genome-Wide Detection of Selection and Other Evolutionary Forces
Attention for Chapter 18: The integrated microbial genome resource of analysis.
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Chapter title
The integrated microbial genome resource of analysis.
Chapter number 18
Book title
Bacterial Pangenomics
Published in
Methods in molecular biology, October 2014
DOI 10.1007/978-1-4939-1720-4_18
Pubmed ID
Book ISBNs
978-1-4939-1719-8, 978-1-4939-1720-4
Authors

Checcucci A, Mengoni A, Alice Checcucci, Alessio Mengoni, Checcucci, Alice, Mengoni, Alessio

Abstract

Integrated Microbial Genomes and Metagenomes (IMG) is a biocomputational system that allows to provide information and support for annotation and comparative analysis of microbial genomes and metagenomes. IMG has been developed by the US Department of Energy (DOE)-Joint Genome Institute (JGI). IMG platform contains both draft and complete genomes, sequenced by Joint Genome Institute and other public and available genomes. Genomes of strains belonging to Archaea, Bacteria, and Eukarya domains are present as well as those of viruses and plasmids. Here, we provide some essential features of IMG system and case study for pangenome analysis.

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X Demographics

The data shown below were collected from the profile of 1 X user who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 19 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Brazil 2 11%
Belgium 1 5%
Unknown 16 84%

Demographic breakdown

Readers by professional status Count As %
Researcher 5 26%
Student > Ph. D. Student 4 21%
Student > Master 3 16%
Professor > Associate Professor 3 16%
Student > Bachelor 1 5%
Other 1 5%
Unknown 2 11%
Readers by discipline Count As %
Agricultural and Biological Sciences 11 58%
Biochemistry, Genetics and Molecular Biology 3 16%
Immunology and Microbiology 3 16%
Unknown 2 11%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 24 June 2015.
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#15,821,622
of 23,498,099 outputs
Outputs from Methods in molecular biology
#5,527
of 13,368 outputs
Outputs of similar age
#153,572
of 262,012 outputs
Outputs of similar age from Methods in molecular biology
#42
of 135 outputs
Altmetric has tracked 23,498,099 research outputs across all sources so far. This one is in the 22nd percentile – i.e., 22% of other outputs scored the same or lower than it.
So far Altmetric has tracked 13,368 research outputs from this source. They receive a mean Attention Score of 3.4. This one is in the 44th percentile – i.e., 44% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 262,012 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 32nd percentile – i.e., 32% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 135 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 64% of its contemporaries.