ERC000011
ENA-CHECKLIST
2023-11-30T00:25:14Z
ENA-FIRST-PUBLIC
2023-11-30T00:25:14Z
ENA-LAST-UPDATE
SAMEA114710092
External Id
RBI
INSDC center name
2023-11-30T00:25:14Z
INSDC first public
2023-11-30T00:25:14Z
INSDC last update
public
INSDC status
ERS17127249
SRA accession
E-MTAB-13563:H24
Submitter Id
23
year
age
ArrayExpress
broker name
not collected
collection date
human
common name
Protocols: All samples are collected at University Hospital for Infectious Diseases in Zagreb as a part of the study of molecular epidemiology of HIV infection. For this purpose clinical plasma samples were collected from HIV-1 patients. HIV-1 RNA was extracted from 500 μl of patient’s plasma sample by using the QIAmp Viral RNA Mini Kit (Qiagen, Hilden, Germany). HIV-1 RNA was reverse transcribed with SuperScript III First-Strand Synthesis System for RT-PCR (Invitrogen, Carlsbad, CA) and HIV-1 specific primer.Amplification of target region for each sample was done in 4 separate multiplex PCR reactions using ALLinTM Taq DNA Polymerase (highQu GmbH, UK). For this purpose we constructed 22 primer pairs that span specific region of interest. After multiplex PCR, amplicons of each sample were pooled in one tube and purified with Agencourt Ampure XP beads (Beckman Coulter, Germany). Viral DNA libraries were prepared for deep sequecing with NEBNext UltraTM II DNA Library Prep Kit for Illumina (MA, USA), according to the manufacturer's instructions.
description
adult
developmental stage
HIV infection
disease
not collected
geographic location (country and/or sea)
not applicable
isolate
HIV-1 Subtype B
isolate
Homo sapiens
organism
Homo sapiens
organism
blood plasma
organism part
Homo sapiens
scientific_name
H24
title