Difference between revisions of "FlyBase:Strain Report"

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Last Updated: In progress
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Last Updated: 11 Dec. 2017
  
 
The '''Strain Report''' contains the information for an individual strain.  
 
The '''Strain Report''' contains the information for an individual strain.  
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|Name || The valid full name that is used in FlyBase for the strain.
 
|Name || The valid full name that is used in FlyBase for the strain.
 
|-
 
|-
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|Member of collection ||  
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|Member of collection || The FlyBase symbol used for a dataset/collection; provides link to the complete dataset/collection report.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Genome Sequence For || style="width: 80%;" |
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|Genome Sequence For || style="width: 80%;" | Indicates whether whole genome or specific arm has been sequenced.
 
|-
 
|-
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|Genome Accession ||  
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|Genome Accession || GenBank accession number and link.
 
|-
 
|-
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|Genome Assayed For ||  
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|Genome Assayed For || GO term that reflects quantitative trait(s) assayed.
 
|-
 
|-
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|Comments ||  
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|Comments || Additional information concerning quantitative trait assay; free-text.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Homozygous Allele(s) || style="width: 80%;" |  
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|Homozygous Allele(s) || style="width: 80%;" | The FlyBase symbol used for relevant allele; provides link to that report.
 
|-
 
|-
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|Heterozygous Allele(s) ||  
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|Heterozygous Allele(s) || The FlyBase symbol used for relevant allele; provides link to that report.
 
|-
 
|-
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|Homozygous Aberration(s) / Balancer(s) ||  
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|Homozygous Aberration(s) / Balancer(s) || The FlyBase symbol used for relevant aberration; provides link to that report.
 
|-
 
|-
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|Heterozygous Aberration(s) / Balancer(s) ||  
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|Heterozygous Aberration(s) / Balancer(s) || The FlyBase symbol used for relevant aberration; provides link to that report.
 
|-
 
|-
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|Homozygous Insertion(s) ||  
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|Homozygous Insertion(s) || The FlyBase symbol used for relevant insertion; provides link to that report.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Homozygous Allele(s) || style="width: 80%;" |  
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|Phenotypic Class || style="width: 80%;" | A list of statements describing the overall phenotypic class of observed phenotype of the strain.
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|-
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|Heterozygous Allele(s) ||
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Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is observed in the strain, e.g. visible, lethal, circadian rhythm defective.
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|-
 
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|Homozygous Aberration(s) / Balancer(s) ||
 
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|-
 
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|Heterozygous Aberration(s) / Balancer(s) ||
 
 
|-
 
|-
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|Homozygous Insertion(s) ||  
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|Phenotype Manifest In || A list of the parts of the animal affected by the observed phenotype of the strain. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Phenotypic Class || style="width: 80%;" | A list of statements describing the overall phenotypic class of the mutant allele.
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|Phenotypic Class || style="width: 80%;" | A list of statements describing the overall phenotypic class of selected phenotype of the strain.
  
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Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is observed in the mutant allele, e.g. visible, lethal, circadian rhythm defective.
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Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is selected in the strain, e.g. visible, lethal, circadian rhythm defective.
 
|-
 
|-
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|Phenotype Manifest In || A list of the parts of the animal affected by the mutant allele. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.
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|Phenotype Manifest In || A list of the parts of the animal affected by the selected phenotype of the strain. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
−
|Phenotypic Class || style="width: 80%;" | A list of statements describing the overall phenotypic class of the mutant allele.
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|Phenotypic Class || style="width: 80%;" | A list of statements describing the overall phenotypic class of the quantitative trait being assayed.
  
−
Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is observed in the mutant allele, e.g. visible, lethal, circadian rhythm defective.
+
Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is assayed in the strain, e.g. visible, lethal, circadian rhythm defective.
 
|-
 
|-
−
|Phenotype Manifest In || A list of the parts of the animal affected by the mutant allele. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.
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|Phenotype Manifest In || A list of the parts of the animal affected by the quantitative trait being assayed. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Unassigned Phenotype Comments || style="width: 80%;" |  
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|Unassigned Phenotype Comments || style="width: 80%;" | Additional information in free-text format.
 
|-
 
|-
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|Selected Phenotype Comments ||  
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|Selected Phenotype Comments || Additional information in free-text format.
 
|-
 
|-
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|General Phenotype Comments ||  
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|General Phenotype Comments || Additional information in free-text format.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Derived From Strain || style="width: 80%;" |  
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|Derived From Strain || style="width: 80%;" | The FlyBase symbol used for strain; provides link to that report.
 
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|-
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|Member of Collection ||  
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|Member of Collection || The FlyBase symbol used for a dataset/collection; provides link to the complete dataset/collection report.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Site, Country || style="width: 80%;" |  
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|Site, Country || style="width: 80%;" | Self-explanatory; free text.
 
|-
 
|-
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|Site, State or Region ||  
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|Site, State or Region || Self-explanatory; free text.
 
|-
 
|-
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|Site, City or Place ||  
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|Site, City or Place || Self-explanatory; free text.
 
|-
 
|-
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|Site, Latitude ||  
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|Site, Latitude || Self-explanatory; free text.
 
|-
 
|-
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|Site, Longitude ||  
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|Site, Longitude || Self-explanatory; free text.
 
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|-
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|Collection Date ||  
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|Collection Date || Self-explanatory; free text.
 
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|-
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|Collection Season ||  
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|Collection Season || Self-explanatory; free text.
 
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|Collection Substrate ||  
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|Collection Substrate || Self-explanatory; free text.
 
|-
 
|-
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|Comments ||  
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|Comments || Additional information in free-text format.
 
|}
 
|}
  
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==Introgressed Chromosomes==
 
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{| class="wikitable" style="width: 100%;"
 
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|-
 
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|Chromosome or segment || style="width: 80%;" |
 
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|}
 
  
 
==Natural Transposons==
 
==Natural Transposons==
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|P-element Status || style="width: 80%;" |  
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|P-element Status || style="width: 80%;" | If specified, indicated as "present" or "absent."
 
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|-
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|hobo Status ||  
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|hobo Status || If specified, indicated as "present" or "absent."
 
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|-
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|Comment ||  
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|Comment || Additional information in free-text format.
 
|}
 
|}
  
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{| class="wikitable" style="width: 100%;"
 
{| class="wikitable" style="width: 100%;"
 
|-
 
|-
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|Organism & Assay Conclusion || style="width: 80%;" |  
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|Organism & Assay Conclusion || style="width: 80%;" | For example, "Wolbachia present"
 
|-
 
|-
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|Comment ||  
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|Comment || Additional information in free-text format, including information on assay used to determine endosymbiont status.
 
|}
 
|}
  
 
==Other Comments==
 
==Other Comments==
  
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Miscellaneous free text comments about the strain.
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Miscellaneous free-text comments about the strain.
  
 
==Stocks==
 
==Stocks==
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==References==
 
==References==
  
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A list of publications that discuss the strain, subdivided into fields by type of publication. Only fields containing data are displayed in an individual Strain Report.
+
A list of publications that discuss the strain, subdivided into fields by type of publication.

Latest revision as of 22:02, 11 December 2017

Last Updated: 11 Dec. 2017

The Strain Report contains the information for an individual strain.

This is a field-by-field guide to the information provided in the Strain Report. FlyBase attributes data to the publication that reported it, so that users can easily refer back to the original publication if they wish. Thus, where possible in the fields below, the publication(s) that are the source of the information are listed, typically in parentheses to the right of the data.

General Information

Symbol The valid symbol that is used in FlyBase.
Species The species of the strain, with the initial letter of the genus and the full species name listed.
Name The valid full name that is used in FlyBase for the strain.
Member of collection The FlyBase symbol used for a dataset/collection; provides link to the complete dataset/collection report.

Genome Characterization

Genome Sequence For Indicates whether whole genome or specific arm has been sequenced.
Genome Accession GenBank accession number and link.
Genome Assayed For GO term that reflects quantitative trait(s) assayed.
Comments Additional information concerning quantitative trait assay; free-text.

Defined Genetic Components

Homozygous Allele(s) The FlyBase symbol used for relevant allele; provides link to that report.
Heterozygous Allele(s) The FlyBase symbol used for relevant allele; provides link to that report.
Homozygous Aberration(s) / Balancer(s) The FlyBase symbol used for relevant aberration; provides link to that report.
Heterozygous Aberration(s) / Balancer(s) The FlyBase symbol used for relevant aberration; provides link to that report.
Homozygous Insertion(s) The FlyBase symbol used for relevant insertion; provides link to that report.

Phenotypic Data (Undefined Genetic Components)

Phenotype Not Assigned to an Allele

Phenotypic Class A list of statements describing the overall phenotypic class of observed phenotype of the strain.

Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is observed in the strain, e.g. visible, lethal, circadian rhythm defective.

Phenotype Manifest In A list of the parts of the animal affected by the observed phenotype of the strain. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.

Phenotype Subjected to Selection

Phenotypic Class A list of statements describing the overall phenotypic class of selected phenotype of the strain.

Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is selected in the strain, e.g. visible, lethal, circadian rhythm defective.

Phenotype Manifest In A list of the parts of the animal affected by the selected phenotype of the strain. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.

Assayed for Quantitative Trait

Phenotypic Class A list of statements describing the overall phenotypic class of the quantitative trait being assayed.

Each statement contains a controlled vocabulary term from the phenotypic class section of the FlyBase controlled vocabulary that describes the class of phenotype that is assayed in the strain, e.g. visible, lethal, circadian rhythm defective.

Phenotype Manifest In A list of the parts of the animal affected by the quantitative trait being assayed. These terms range from the entire animal to subcellular components and are often specific for a developmental stage. Body part and cell-type terms are from the Anatomy controlled vocabulary, while terms relating to parts of the cell are cellular component terms from the Gene Ontology controlled vocabulary.

Phenotype Comments

Unassigned Phenotype Comments Additional information in free-text format.
Selected Phenotype Comments Additional information in free-text format.
General Phenotype Comments Additional information in free-text format.

Origin and History

Derived From Strain The FlyBase symbol used for strain; provides link to that report.
Member of Collection The FlyBase symbol used for a dataset/collection; provides link to the complete dataset/collection report.

Natural Population Collection History

Site, Country Self-explanatory; free text.
Site, State or Region Self-explanatory; free text.
Site, City or Place Self-explanatory; free text.
Site, Latitude Self-explanatory; free text.
Site, Longitude Self-explanatory; free text.
Collection Date Self-explanatory; free text.
Collection Season Self-explanatory; free text.
Collection Substrate Self-explanatory; free text.
Comments Additional information in free-text format.


Natural Transposons

P-element Status If specified, indicated as "present" or "absent."
hobo Status If specified, indicated as "present" or "absent."
Comment Additional information in free-text format.

Endosymbionts

Organism & Assay Conclusion For example, "Wolbachia present"
Comment Additional information in free-text format, including information on assay used to determine endosymbiont status.

Other Comments

Miscellaneous free-text comments about the strain.

Stocks

A list of the stocks from the public Stock Centers that contain this strain; for each Stock Center, stock number and genotype are displayed. Clicking on the genotype will take you to the appropriate Stock Report.

References

A list of publications that discuss the strain, subdivided into fields by type of publication.

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