| Q34960846 | A multiple-alignment based primer design algorithm for genetically highly variable DNA targets |
| Q34860340 | Accurate single nucleotide variant detection in viral populations by combining probabilistic clustering with a statistical test of strand bias |
| Q36961003 | Ahead of the curve: next generation estimators of drug resistance in malaria infections |
| Q36690550 | Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of Low-frequency drug resistance mutations in HIV-1 DNA. |
| Q37263786 | Basis for early and preferential selection of the E138K mutation in HIV-1 reverse transcriptase |
| Q28727944 | Challenges and opportunities in estimating viral genetic diversity from next-generation sequencing data |
| Q35571990 | Challenges with using primer IDs to improve accuracy of next generation sequencing |
| Q34567556 | Characterizing the emergence and persistence of drug resistant mutations in HIV-1 subtype C infections using 454 ultra deep pyrosequencing |
| Q35261045 | Clinical management of HIV drug resistance |
| Q35759184 | Comparison of Major and Minor Viral SNPs Identified through Single Template Sequencing and Pyrosequencing in Acute HIV-1 Infection |
| Q33790966 | Comparison of quasispecies diversity of HCV between chronic hepatitis c and hepatocellular carcinoma by Ultradeep pyrosequencing |
| Q34997577 | Cross-clade simultaneous HIV drug resistance genotyping for reverse transcriptase, protease, and integrase inhibitor mutations by Illumina MiSeq |
| Q39063756 | Deep sequencing in the management of hepatitis virus infections. |
| Q37516950 | Deep sequencing of evolving pathogen populations: applications, errors, and bioinformatic solutions |
| Q28546549 | Deep sequencing of protease inhibitor resistant HIV patient isolates reveals patterns of correlated mutations in Gag and protease |
| Q36023047 | Deep sequencing reveals minor protease resistance mutations in patients failing a protease inhibitor regimen. |
| Q36827155 | Deep sequencing reveals mutagenic effects of ribavirin during monotherapy of hepatitis C virus genotype 1-infected patients |
| Q38226696 | Deep sequencing: becoming a critical tool in clinical virology |
| Q28547220 | Detection of Low-Level Mixed-Population Drug Resistance in Mycobacterium tuberculosis Using High Fidelity Amplicon Sequencing |
| Q34975934 | Detection of cytomegalovirus drug resistance mutations by next-generation sequencing |
| Q55511989 | Detection of minority drug resistant mutations in Malawian HIV-1 subtype C-positive patients initiating and on first-line antiretroviral therapy. |
| Q28481393 | Development of elvitegravir resistance and linkage of integrase inhibitor mutations with protease and reverse transcriptase resistance mutations |
| Q28477017 | Differences in reversion of resistance mutations to wild-type under structured treatment interruption and related increase in replication capacity |
| Q34200095 | Dynamics of envelope evolution in clade C SHIV-infected pig-tailed macaques during disease progression analyzed by ultra-deep pyrosequencing |
| Q28482355 | Dynamics of hepatitis B virus quasispecies in association with nucleos(t)ide analogue treatment determined by ultra-deep sequencing |
| Q34297668 | Emerging technologies for the clinical microbiology laboratory. |
| Q39049381 | Error rates, PCR recombination, and sampling depth in HIV-1 whole genome deep sequencing |
| Q34227393 | Estimating the strength of selective sweeps from deep population diversity data. |
| Q36667504 | Evaluation of a benchtop HIV ultradeep pyrosequencing drug resistance assay in the clinical laboratory |
| Q55270831 | Evaluation of different analysis pipelines for the detection of HIV-1 minority resistant variants. |
| Q36524021 | Evolution of Newcastle Disease Virus Quasispecies Diversity and Enhanced Virulence after Passage through Chicken Air Sacs |
| Q35930289 | Experimental analysis of sources of error in evolutionary studies based on Roche/454 pyrosequencing of viral genomes |
| Q34529833 | Feasibility of using 454 pyrosequencing for studying quasispecies of the whole dengue viral genome. |
| Q36172253 | Field monitoring of avian influenza viruses: whole-genome sequencing and tracking of neuraminidase evolution using 454 pyrosequencing |
| Q22065128 | Genetic draft and quasi-neutrality in large facultatively sexual populations |
| Q28477175 | Genetic heterogeneity of hepatitis C virus in association with antiviral therapy determined by ultra-deep sequencing |
| Q28550283 | HIV Drug Resistance Mutations (DRMs) Detected by Deep Sequencing in Virologic Failure Subjects on Therapy from Hunan Province, China |
| Q92130801 | HIV-1 Transmission Patterns Within and Between Risk Groups in Coastal Kenya |
| Q37913478 | HIV-1 evolution in relation to molecular epidemiology and antiretroviral resistance |
| Q38765830 | HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences |
| Q60301305 | HIV-1 subtype diversity, transmission networks and transmitted drug resistance amongst acute and early infected MSM populations from Coastal Kenya |
| Q34205837 | Highly sensitive and specific detection of rare variants in mixed viral populations from massively parallel sequence data |
| Q33875539 | Identification of HCV Resistant Variants against Direct Acting Antivirals in Plasma and Liver of Treatment Naïve Patients |
| Q47172282 | Impact of the HIV-1 genetic background and HIV-1 population size on the evolution of raltegravir resistance |
| Q35009489 | Improved detection of rare HIV-1 variants using 454 pyrosequencing |
| Q33589204 | In vivo mutation rates and the landscape of fitness costs of HIV-1. |
| Q35790802 | In-depth characterization of viral isolates from plasma and cells compared with plasma circulating quasispecies in early HIV-1 infection. |
| Q30658257 | Indel and Carryforward Correction (ICC): a new analysis approach for processing 454 pyrosequencing data |
| Q36841941 | Large-scale sequencing and the natural history of model human RNA viruses |
| Q37734688 | Low-abundance resistant mutations in HIV-1 subtype C antiretroviral therapy-naive individuals as revealed by pyrosequencing. |
| Q36060517 | Low-frequency nevirapine resistance at multiple sites may predict treatment failure in infants on nevirapine-based treatment |
| Q59794764 | Maintenance and reappearance of extremely divergent intra-host HIV-1 variants |
| Q28552784 | Mutations Related to Antiretroviral Resistance Identified by Ultra-Deep Sequencing in HIV-1 Infected Children under Structured Interruptions of HAART |
| Q34994579 | Next-generation sequencing of HIV-1 RNA genomes: determination of error rates and minimizing artificial recombination |
| Q30657886 | PCR-induced transitions are the major source of error in cleaned ultra-deep pyrosequencing data |
| Q36779718 | Past, present and future molecular diagnosis and characterization of human immunodeficiency virus infections. |
| Q33974966 | Performance of ultra-deep pyrosequencing in analysis of HIV-1 pol gene variation |
| Q36479690 | Population genomics of intrapatient HIV-1 evolution |
| Q37252805 | Quantifying selection against synonymous mutations in HIV-1 env evolution. |
| Q36154488 | Quantitative experimental determination of primer-dimer formation risk by free-solution conjugate electrophoresis |
| Q35050125 | Quick, sensitive and specific detection and evaluation of quantification of minor variants by high-throughput sequencing. |
| Q34303615 | Retroviral vectors for analysis of viral mutagenesis and recombination |
| Q42213317 | Short communication: HIV-1 gag genetic variation in a single acutely infected participant defined by high-resolution deep sequencing |
| Q34451254 | Targeted deep sequencing of HIV-1 using the IonTorrentPGM platform |
| Q90395045 | The Determination of HIV-1 RT Mutation Rate, Its Possible Allosteric Effects, and Its Implications on Drug Resistance |
| Q49165974 | The Transmission and Evolution of HIV-1 Quasispecies within One Couple: a Follow-up Study based on Next-Generation Sequencing |
| Q36641998 | Towards Better Precision Medicine: PacBio Single-Molecule Long Reads Resolve the Interpretation of HIV Drug Resistant Mutation Profiles at Explicit Quasispecies (Haplotype) Level |
| Q30726364 | Ultra-deep pyrosequencing (UDPS) data treatment to study amplicon HCV minor variants. |
| Q45185894 | Ultra-deep sequencing reveals hidden HIV-1 minority lineages and shifts of viral population between the main cellular reservoirs of the infection after therapy interruption |
| Q35706679 | Ultradeep Sequencing for Detection of Quasispecies Variants in the Major Hydrophilic Region of Hepatitis B Virus in Indonesian Patients. |
| Q35633682 | Ultrasensitive detection of rare mutations using next-generation targeted resequencing |
| Q27013917 | Viral quasispecies evolution |
| Q30469621 | Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection |
| Q35047735 | Within-host nucleotide diversity of virus populations: insights from next-generation sequencing |