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HIV Sequence Database



The tables below allow you to create a customized search interface. For details, see Advanced Search Help, Data Dictionary and this Example.

Basic Instructions:

  1. Check the boxes for fields you want, either as fields to limit your search or to display in the results. Checking a blue field will select all fields in that table.
  2. Important: If you choose fields from multiple tables, make sure they share a key (shown in red), otherwise the search will fail. For example, suppose you want fields from the Patient, Sequence sample, and Accession tables. The Patient and Sequence sample tables need to be joined by the PAT id keys, and the Sequence sample and Accession tables need to be joined by the SE id keys. The selection of at least one SE id field will speed up sequence downloads.
  3. Click on "Make Search Interface". This will take you to a search interface composed of the selected fields.
  4. After limiting your search as desired, click "Search". Note: searches are case sensitive and have other differences from our regular search interface (see Help).
  5. From the search results page, you will have several options for downloading data and sequences.

Make  

Accession(SA)
SE id(SA)
Accession
GI number
Version
Sequence sample(SSAM)
SE id(SSAM)
PAT id(SSAM)
Name
Locus Name
Isolate Name
Clone Name
Georegion
Country
Sampling City
Sampling Year
Sampling Year Upper
Patient Age
Patient Health
Organism
Subtype
Phenotype
Coreceptor
Sample Tissue
Culture Method
Molecule type
Drug Naive
Problematic Sequence
Viral load
CD4 count
CD8 count
Days from Infection
Days from Seroconversion
Days from first Sample
Sequencing method
Amplification strategy
Fiebig Stage
Anno
Days from treatment start
Days from treatment end
Vaccine status
RIP subtype
Patient(PAT)
Patient Id
Patient Code
Patient Sex
Risk Factor
Infection Country
Infection City
Infection Year
Patient comment
HLA type
Project
Patient ethnicity
Progression
# of patient seqs
# of patient timepoints
Species
Map image(MI)
Map image(SE id)
HXB2/MAC239 start
HXB2/MAC239 stop
Sequence entry(SE)
Se ID
Sequence Length
GB comment
DB comment
Sequence
GB create date
GB update date
Percent non-ACGT
Publication link(SPL)
SE id(SPL)
PUB id(SPL)
Publication number
Publication(PUB)
PUB id
Pubmed ID
Title
Journal
Consortium
Person(PER)
PER id
Last name
Author(AU)
PUB id(AU)
PER id(AU)
Author number
Sequence entry feature(SEF)
SE id(SEF)
Feature Type(SEF)
Description(SEF)
PUB id(SEF)
Location(LOC)
LOC id
SE id(LOC)
Feature Type(LOC)
Description(LOC)
Sequence feature(SF)
LOC id(SF)
Feature type(SF)
Feature value(SF)
Cluster(CLU)
CLU id(CLU)
Cluster Name
Cluster Description
Cluster link(CPL)
Cluster ID
PAT id(CPL)
Cluster trans type

Make  

last modified: Tue Feb 4 07:54 2014


Questions or comments? Contact us at seq-info@lanl.gov.

 
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