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[PDF] Top 20 A High-Throughput Method for Cloning and Sequencing Human Immunodeficiency Virus Type 1 Integration Sites

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A High-Throughput Method for Cloning and Sequencing Human Immunodeficiency Virus Type 1 Integration Sites

A High-Throughput Method for Cloning and Sequencing Human Immunodeficiency Virus Type 1 Integration Sites

... of 1% sodium dodecyl sulfate and 100 ␮g/ml proteinase K and extracted with phenol-chloroform ...DNA, 1 to 2 mg genomic DNA was electrophoresed on a ...the integration site, was isolated from the ... See full document

9

Development and validation of a new high-throughput method to investigate the clonality of HTLV-1-infected cells based on provirus integration sites

Development and validation of a new high-throughput method to investigate the clonality of HTLV-1-infected cells based on provirus integration sites

... It has been more than 30 years since human T-cell leukemia virus type-I (HTLV-1) was shown to be the causative agent of adult T-cell leukemia (ATL) [1,2]. However, understanding the true ... See full document

15

Highly Divergent Integration Profile of Adeno-Associated Virus Serotype 5 Revealed by High-Throughput Sequencing

Highly Divergent Integration Profile of Adeno-Associated Virus Serotype 5 Revealed by High-Throughput Sequencing

... AAV-5 integration events around the con- sensus motif demonstrated an average position at the Rep nu- clease cleavage ...AAV-5 integration hot ...AAV-5 integration motifs associated with hot spots. ... See full document

8

Genomic Sites of Human Immunodeficiency Virus Type 2 (HIV-2) Integration: Similarities to HIV-1 In Vitro and Possible Differences In Vivo

Genomic Sites of Human Immunodeficiency Virus Type 2 (HIV-2) Integration: Similarities to HIV-1 In Vitro and Possible Differences In Vivo

... stream human genomic DNA corresponding to the integration site junction was created by linker-mediated nested PCR, using the Universal Genome Walker kit (BD Biosciences Clontech, Palo Alto, CA), according ... See full document

6

Deciphering Human Immunodeficiency Virus Type 1 Transmission and Early Envelope Diversification by Single-Genome Amplification and Sequencing

Deciphering Human Immunodeficiency Virus Type 1 Transmission and Early Envelope Diversification by Single-Genome Amplification and Sequencing

... transmitted virus and sequences evolving from it could be instrumental in elucidating the transmission of human immunodeficiency virus type 1 (HIV-1) and in developing ... See full document

19

Specific and Independent Recognition of U3 and U5att Sites by Human Immunodeficiency Virus Type 1 Integrase In Vivo

Specific and Independent Recognition of U3 and U5att Sites by Human Immunodeficiency Virus Type 1 Integrase In Vivo

... (Fig. 1, U5MuLV, U3MuLV, and U3&U5 MuLV) (35, 46) or FIV (Fig. 1, U5FIV, U3FIV, and U3&U5FIV) (50, 51, ...nor virus release after transfection of COS cells (data not ...relative ... See full document

7

SATB1-Binding Sequences and Alu-Like Motifs Define a Unique Chromatin Context in the Vicinity of Human Immunodeficiency Virus Type 1 Integration Sites

SATB1-Binding Sequences and Alu-Like Motifs Define a Unique Chromatin Context in the Vicinity of Human Immunodeficiency Virus Type 1 Integration Sites

... the human genome ...HIV integration sites by the Bushman group found ...vivo integration sites to be in Alu repeats ...integration sites. Additionally, mapping of genomic ... See full document

11

Cofactors for Human Immunodeficiency Virus Type 1 cDNA Integration In Vitro

Cofactors for Human Immunodeficiency Virus Type 1 cDNA Integration In Vitro

... around 1 NC molecule per 5 to 15 bp, potentially enough to coat the reactant ...ulates integration by competing with IN binding at nonproduc- tive internal sites on the DNA (6, 15, ...at ... See full document

6

Transcription factor binding sites downstream of the human immunodeficiency virus type 1 transcription start site are important for virus infectivity.

Transcription factor binding sites downstream of the human immunodeficiency virus type 1 transcription start site are important for virus infectivity.

... infections, PBMCs were isolated from normal donors, activated with phytohe- magglutinin (Sigma, St. Louis, Mo.) (5 mg/ml) for 2 days, washed three times with RPMI, infected as described above, and maintained in complete ... See full document

15

Human Immunodeficiency Virus Type 1 Cloning Vectors for Antiretroviral Resistance Testing

Human Immunodeficiency Virus Type 1 Cloning Vectors for Antiretroviral Resistance Testing

... minority human immunodeficiency virus type 1 (HIV-1) populations containing gene mutations may improve the usefulness of antiretroviral resistance testing for clinical ... See full document

9

Human Immunodeficiency Virus Type 1 (HIV-1)
Quasispecies at the Sites of Mycobacterium tuberculosis Infection
Contribute to Systemic HIV-1 Heterogeneity

Human Immunodeficiency Virus Type 1 (HIV-1) Quasispecies at the Sites of Mycobacterium tuberculosis Infection Contribute to Systemic HIV-1 Heterogeneity

... of all env sequences and confirm the presence of intrapatient clusters (Fig. 2A). Bootstrap values indicated that sequences from each patient formed a monophyletic group with no ab- errant, contaminating sequences. env ... See full document

10

Simian Immunodeficiency Virus Integration Preference Is Similar to That of Human Immunodeficiency Virus Type 1

Simian Immunodeficiency Virus Integration Preference Is Similar to That of Human Immunodeficiency Virus Type 1

... random integration sites were also placed in these 10 bins based on expression ...the high-expression-level bins than in the low-expression-level bins (P ⬍ ... See full document

6

Factors Influencing the Sensitivity and Specificity of Conventional Sequencing in Human Immunodeficiency Virus Type 1 Tropism Testing

Factors Influencing the Sensitivity and Specificity of Conventional Sequencing in Human Immunodeficiency Virus Type 1 Tropism Testing

... deep sequencing on a GS FLX (454) sequencer (Roche, Basel, Switzer- land); this method allows the parallel sequencing of thousands of clones from a single ...conventional sequencing results as ... See full document

8

Organization of Immature Human Immunodeficiency Virus Type 1

Organization of Immature Human Immunodeficiency Virus Type 1

... Wild-type HIV-1 Gag particles visualized by cEM. We have previously proposed a model for the arrangement of Gag polyproteins in immature HIV-1 particles (13). Here we pro- vide experimental evidence ... See full document

13

Mutational analysis of conserved N-linked glycosylation sites of human immunodeficiency virus type 1 gp41.

Mutational analysis of conserved N-linked glycosylation sites of human immunodeficiency virus type 1 gp41.

... These results indicated that the expression of the envelope precursor, gpl60, and its subsequent cleavage to gpl20 were not 1799 Downloaded from http://jvi.asm.org/ on November 10, 2019 [r] ... See full document

5

Peptides Trap the Human Immunodeficiency Virus Type 1 Envelope Glycoprotein Fusion Intermediate at Two Sites

Peptides Trap the Human Immunodeficiency Virus Type 1 Envelope Glycoprotein Fusion Intermediate at Two Sites

... A leading model of HIV entry proposes substantial refolding of Env, in which Env transitions from a metastable, native (prefusion) conformation through a prehairpin fusion interme- diate to a thermostable, six-helix ... See full document

6

Common Themes of Antibody Maturation to Simian Immunodeficiency Virus, Simian-Human Immunodeficiency Virus, and Human Immunodeficiency Virus Type 1 Infections

Common Themes of Antibody Maturation to Simian Immunodeficiency Virus, Simian-Human Immunodeficiency Virus, and Human Immunodeficiency Virus Type 1 Infections

... Measurement of viral envelope glycoprotein-specific antibody avidity. The avidity index values of serum antibodies to the native viral envelope were deter- mined by measuring the resistance of serum antibody-envelope ... See full document

8

Blockade of Human Immunodeficiency Virus Type 1 Expression by Caveolin-1

Blockade of Human Immunodeficiency Virus Type 1 Expression by Caveolin-1

... This investigation began with the observation that cotrans- fection of a Cav-1 cDNA potently blocked HIV-1 production from cells that are used routinely to produce high levels of genetically defined ... See full document

13

Sensitive microculture method for isolation of human immunodeficiency virus type 1 from blood leukocytes

Sensitive microculture method for isolation of human immunodeficiency virus type 1 from blood leukocytes

... A total of 137 blood specimens from 102 HIV-1 antibody-positive individuals 52 were asymptomatic, 31 were symptomatic, and 19 had AIDS were cultured in a microculture system in which 106[r] ... See full document

5

The NF-kappa B binding sites in the human immunodeficiency virus type 1 long terminal repeat are not required for virus infectivity.

The NF-kappa B binding sites in the human immunodeficiency virus type 1 long terminal repeat are not required for virus infectivity.

... 4919-4924 0022-538X/89/114919-06$02.00/0 Copyright C 1989, American Society for Microbiology The NF-KB Binding Sites in the Human Immunodeficiency Virus Type 1 Long Terminal Repeat Are N[r] ... See full document

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