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1. Full Text Large dataset enables prediction of repair after CRISPR–Cas9 editing in primary T cells
by Leenay, Ryan T and Aghazadeh, Amirali and Hiatt, Joseph and Tse, David and Roth, Theodore L and Apathy, Ryan and Shifrut, Eric and Hultquist, Judd F and Krogan, Nevan and Wu, Zhenqin and Cirolia, Giana and Canaj, Hera and Leonetti, Manuel D and Marson, Alexander and May, Andrew P and Zou, James
Nature Biotechnology, ISSN 1087-0156, 07/2019
Index Medicus
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2. Full Text Lineage-Specific Viral Hijacking of Non-canonical E3Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity
by Kane, Joshua R and Stanley, David J and Hultquist, Judd F and Johnson, Jeffrey R and Mietrach, Nicole and Binning, Jennifer M and Jónsson, Stefán R and Barelier, Sarah and Newton, Billy W and Johnson, Tasha L and Franks-Skiba, Kathleen E and Li, Ming and Brown, William L and Gunnarsson, Hörour I and Adalbjornsdóttir, Adalbjorg and Fraser, James S and Harris, Reuben S and Andrésdóttir, Valgerour and Gross, John D and Krogan, Nevan J
Cell Reports, 05/2015, Volume 11, Issue 8, pp. 1236 - 1250
HIV-1 encodes the accessory protein Vif, which hijacks a host Cullin-RING ubiquitin ligase (CRL) complex as well as the non-canonical cofactor CBFβ, to... 
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3. Full Text Natural Polymorphisms in Human APOBEC3H and HIV-1 Vif Combine in Primary T Lymphocytes to Affect Viral G-to-A Mutation Levels and Infectivity
: e1004761
by Eric W Refsland and Judd F Hultquist and Elizabeth M Luengas and Terumasa Ikeda and Nadine M Shaban and Emily K Law and William L Brown and Cavan Reilly and Michael Emerman and Reuben S Harris
PLoS Genetics, ISSN 1553-7390, 11/2014, Volume 10, Issue 11
  The Vif protein of HIV-1 allows virus replication by degrading several members of the host-encoded APOBEC3 family of DNA cytosine deaminases. Polymorphisms... 
Proteins | Haplotypes | Confidence intervals | Lymphocytes | Genes | Viruses | Infections | Mutation | Viral infections | Deoxyribonucleic acid--DNA
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4. Full Text HIV Type 1 Viral Infectivity Factor and the RUNX Transcription Factors Interact with Core Binding Factor β on Genetically Distinct Surfaces
by Hultquist, Judd F and McDougle, Rebecca M and Anderson, Brett D and Harris, Reuben S
AIDS Research and Human Retroviruses, ISSN 0889-2229, 12/2012, Volume 28, Issue 12, pp. 1543 - 1551
Human immunodeficiency virus type 1 (HIV-1) requires the cellular transcription factor core binding factor subunit β (CBFβ) to stabilize its viral infectivity... 
Virology | CBF-BETA | INFECTIOUS DISEASES | DNA-BINDING | COMPLEX | DOMAIN | SOCS-BOX | APOBEC3 RESTRICTION FACTORS | IMMUNOLOGY | FACTOR ALPHA | VIF | VIROLOGY | DEGRADATION | E3 UBIQUITIN LIGASE | HIV-1 - pathogenicity | Mutagenesis, Site-Directed | Humans | Mutant Proteins - genetics | Mutant Proteins - metabolism | Core Binding Factor beta Subunit - genetics | Protein Interaction Mapping | Host-Pathogen Interactions | APOBEC-3G Deaminase | vif Gene Products, Human Immunodeficiency Virus - metabolism | Proteolysis | Cytidine Deaminase - metabolism | Protein Binding | Core Binding Factor alpha Subunits - metabolism | Amino Acid Substitution | Core Binding Factor beta Subunit - metabolism | Index Medicus | AIDS/HIV
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5. Full Text Endogenous origins of HIV-1 G-to-A hypermutation and restriction in the nonpermissive T cell line CEM2n
by Refsland, Eric W and Hultquist, Judd F and Harris, Reuben S
PLoS Pathogens, ISSN 1553-7366, 07/2012, Volume 8, Issue 7, pp. 39 - e1002800
The DNA deaminase APOBEC3G converts cytosines to uracils in retroviral cDNA, which are immortalized as genomic strand G-to-A hypermutations by reverse... 
CYTIDINE DEAMINASES | VIF SENSITIVITY | HUMAN APOBEC3G | MICROBIOLOGY | PERIPHERAL-BLOOD | HUMAN-IMMUNODEFICIENCY-VIRUS | ANTIRETROVIRAL FACTOR | POTENT INHIBITORS | BLOOD MONONUCLEAR-CELLS | VIROLOGY | IN-VIVO | ANTIVIRAL ACTIVITY | PARASITOLOGY | Cell Line | Virus Replication - genetics | Cytidine Deaminase - genetics | Humans | vif Gene Products, Human Immunodeficiency Virus - genetics | HIV-1 - genetics | T-Lymphocytes - virology | Genes, vif | Genetic Variation | APOBEC-3G Deaminase | vif Gene Products, Human Immunodeficiency Virus - metabolism | HIV-1 - physiology | Cytosine Deaminase - metabolism | Mutagenesis | RNA Interference | T-Lymphocytes - cytology | Cytidine Deaminase - metabolism | HEK293 Cells | RNA, Small Interfering | Mutation | Cytosine Deaminase - genetics | Usage | Genetic aspects | Gene targeting | Research | Gene mutations | HIV (Viruses) | Proteins | Studies | Lymphocytes | Cloning | Genetic diversity | Derivatives | Drug resistance | Preferences | Experiments | Viral infections | Index Medicus
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6. Full Text Inhibition of CRISPR-Cas9 with Bacteriophage Proteins
by Rauch, Benjamin J and Silvis, Melanie R and Hultquist, Judd F and Waters, Christopher S and McGregor, Michael J and Krogan, Nevan J and Bondy-Denomy, Joseph
Cell, ISSN 0092-8674, 01/2017, Volume 168, Issue 1-2, pp. 150 - 158.e10
Bacterial CRISPR-Cas systems utilize sequence-specific RNA-guided nucleases to defend against bacteriophage infection. As a countermeasure, numerous phages are... 
anti-CRISPR | prophage | CRISPR-Cas | Listeria monocytogenes | Cas9 inhibitor | dCas9 | Cas9 | bacteriophage | gene editing | LISTERIA-MONOCYTOGENES | ENDONUCLEASE | RNA | HIGH-THROUGHPUT | DNA | BIOCHEMISTRY & MOLECULAR BIOLOGY | ESCHERICHIA-COLI | BACTERIAL IMMUNE-SYSTEM | CAS IMMUNITY | EXPRESSION | PREDICTION | CELL BIOLOGY | Listeria monocytogenes - enzymology | Bacterial Proteins - antagonists & inhibitors | Genetic Engineering | Endonucleases - antagonists & inhibitors | Bacteriophages - metabolism | Escherichia coli | Humans | CRISPR-Cas Systems | HEK293 Cells | Listeria monocytogenes - immunology | Listeria monocytogenes - virology | Prophages | Nucleases | Analysis | Genomics | DNA binding proteins | Cells | Listeria | Index Medicus
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7. Full Text Human and Rhesus APOBEC3D, APOBEC3F, APOBEC3G, and APOBEC3H Demonstrate a Conserved Capacity To Restrict Vif-Deficient HIV-1
by Judd F. Hultquist and Joy A. Lengyel and Eric W. Refsland and Rebecca S. LaRue and Lela Lackey and William L. Brown and Reuben S. Harris
Journal of Virology, ISSN 0022-538X, 11/2011, Volume 85, Issue 21, pp. 11220 - 11234
Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley... 
SINGLE AMINO-ACID | INDEPENDENT MECHANISM | ANTIRETROVIRAL ACTIVITY | VIROLOGY | REVERSE TRANSCRIPTION | IN-VIVO | ACCESSORY PROTEINS | CD4(+) T-CELLS | ANTIVIRAL ACTIVITY | HUMAN-IMMUNODEFICIENCY-VIRUS | ADAPTIVE EVOLUTION | Virulence Factors - deficiency | HIV-1 - pathogenicity | Simian Immunodeficiency Virus - pathogenicity | Cytosine Deaminase - immunology | Humans | Cells, Cultured | Molecular Sequence Data | Macaca mulatta | Sequence Analysis, DNA | CD4-Positive T-Lymphocytes - immunology | HIV-1 - immunology | Animals | Cytosine Deaminase - metabolism | vif Gene Products, Human Immunodeficiency Virus - deficiency | CD4-Positive T-Lymphocytes - virology | Simian Immunodeficiency Virus - immunology | Index Medicus | Virus-Cell Interactions
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8. Full Text A Cas9 Ribonucleoprotein Platform for Functional Genetic Studies of HIV-Host Interactions in Primary Human T Cells
by Hultquist, Judd F and Schumann, Kathrin and Woo, Jonathan M and Manganaro, Lara and McGregor, Michael J and Doudna, Jennifer and Simon, Viviana and Krogan, Nevan J and Marson, Alexander
Cell Reports, ISSN 2211-1247, 10/2016, Volume 17, Issue 5, pp. 1438 - 1452
New genetic tools are needed to understand the functional interactions between HIV and human host factors in primary cells. We recently developed a method to... 
genome editing | host-pathogen interactions | HIV integrase | CRISPR/Cas9 | primary T cells | LEDGF | host dependency factors | CXCR4 | CCR5 | TNPO3 | REPLICATION | INTEGRASE INTERACTOR | EARLY STEPS | NUCLEOPORIN NUP153 | LEDGF/P75 | IDENTIFICATION | ZINC-FINGER NUCLEASES | IMPORTIN-ALPHA | P-TEFB | CELL BIOLOGY | Reproducibility of Results | Receptors, CXCR5 - metabolism | HIV Infections - genetics | Humans | CD4-Positive T-Lymphocytes - metabolism | Cells, Cultured | Ribonucleoproteins - metabolism | Gene Knockout Techniques | HIV-1 - genetics | CRISPR-Cas Systems - genetics | Receptors, CXCR4 - metabolism | Intercellular Signaling Peptides and Proteins - metabolism | Host-Pathogen Interactions - genetics | Gene Editing - methods | beta Karyopherins - metabolism | CD4-Positive T-Lymphocytes - virology | Index Medicus
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9. Full Text A genome-wide CRISPR screen identifies a restricted set of HIV host dependency factors
by Park, Ryan J and Wang, Tim and Koundakjian, Dylan and Hultquist, Judd F and Lamothe-Molina, Pedro and Monel, Blandine and Schumann, Kathrin and Yu, Haiyan and Krupzcak, Kevin M and Garcia-Beltran, Wilfredo and Piechocka-Trocha, Alicja and Krogan, Nevan J and Marson, Alexander and Sabatini, David M and Lander, Eric S and Hacohen, Nir and Walker, Bruce D
Nature Genetics, ISSN 1061-4036, 01/2017, Volume 49, Issue 2, pp. 193 - 203
Host proteins are essential for HIV entry and replication and can be important nonviral therapeutic targets. Large-scale RNA interference (RNAi)-based screens... 
GP120 BINDING | REPLICATION | ADHESION MOLECULE | TYROSINE SULFATION | TYROSYLPROTEIN SULFOTRANSFERASES | GENETICS & HEREDITY | EARLY-STAGE | CELL-ADHESION | ANTIRETROVIRAL THERAPY | HUMAN-IMMUNODEFICIENCY-VIRUS | T-CELLS | Sulfotransferases - genetics | Cell Line | HIV-1 - pathogenicity | Membrane Proteins - genetics | Virus Replication - genetics | HIV Infections - genetics | Humans | Genome - genetics | Receptors, CCR5 - genetics | Host-Pathogen Interactions - genetics | Clustered Regularly Interspaced Short Palindromic Repeats - genetics | RNA Interference - physiology | Activated-Leukocyte Cell Adhesion Molecule - genetics | Innovations | Genotype | Genetic aspects | Genetic engineering | Virulence (Microbiology) | Host-virus relationships | HIV infection | Health aspects | Risk factors | Pathogens | Flow cytometry | Pandemics | Viruses | Infections | Identification | Genomes | Grants | Drug resistance | Proteins | Acquired immune deficiency syndrome--AIDS | Lymphocytes | Human immunodeficiency virus--HIV | Population | Gene therapy | Viral infections | Index Medicus
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10. Full Text Natural Polymorphisms in Human APOBEC3H and HIV-1 Vif Combine in Primary T Lymphocytes to Affect Viral G-to-A Mutation Levels and Infectivity
by Refsland, Eric W and Hultquist, Judd F and Luengas, Elizabeth M and Ikeda, Terumasa and Shaban, Nadine M and Law, Emily K and Brown, William L and Reilly, Cavan and Emerman, Michael and Harris, Reuben S
PLoS Genetics, ISSN 1553-7390, 11/2014, Volume 10, Issue 11, pp. e1004761 - e1004761
The Vif protein of HIV-1 allows virus replication by degrading several members of the host-encoded APOBEC3 family of DNA cytosine deaminases. Polymorphisms in... 
CBF-BETA | G->A HYPERMUTATION | GENETIC-VARIATION | ANTIRETROVIRAL ACTIVITY | CYTIDINE DEAMINASE APOBEC3H | RESTRICTION FACTORS | IN-VIVO | GENETICS & HEREDITY | ANTIVIRAL ACTIVITY | HUMAN-IMMUNODEFICIENCY-VIRUS | TYPE-1 | Haplotypes | Cell Line | HIV-1 - pathogenicity | Virus Replication - genetics | HIV Infections - genetics | HIV Infections - virology | Humans | vif Gene Products, Human Immunodeficiency Virus - genetics | Aminohydrolases - genetics | CD4-Positive T-Lymphocytes - pathology | HIV-1 - genetics | Polymorphism, Genetic | HIV Infections - pathology | Mutation | CD4-Positive T-Lymphocytes - virology | Gene mutations | Lymphocytes | Genetic research | Genetic aspects | Research | Host-virus relationships | HIV (Viruses) | Virus research | Health aspects | Genetic polymorphisms | Index Medicus | Proteins | Confidence intervals | Genes | Deoxyribonucleic acid | DNA | Viruses | Infections | Viral infections
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11. Full Text Targeting Viral Proteostasis Limits Influenza Virus, HIV, and Dengue Virus Infection
by Heaton, Nicholas S and Moshkina, Natasha and Fenouil, Romain and Gardner, Thomas J and Aguirre, Sebastian and Shah, Priya S and Zhao, Nan and Manganaro, Lara and Hultquist, Judd F and Noel, Justine and Sachs, David and Hamilton, Jennifer and Leon, Paul E and Chawdury, Amit and Tripathi, Shashank and Melegari, Camilla and Campisi, Laura and Hai, Rong and Metreveli, Giorgi and Gamarnik, Andrea V and García-Sastre, Adolfo and Greenbaum, Benjamin and Simon, Viviana and Fernandez-Sesma, Ana and Krogan, Nevan J and Mulder, Lubbertus C.F and van Bakel, Harm and Tortorella, Domenico and Taunton, Jack and Palese, Peter and Marazzi, Ivan
Immunity, ISSN 1074-7613, 01/2016, Volume 44, Issue 1, pp. 46 - 58
Viruses are obligate parasites and thus require the machinery of the host cell to replicate. Inhibition of host factors co-opted during active infection is a... 
RNA-POLYMERASE-II | A VIRUS | LIFE-CYCLE | NS1 PROTEIN | N-LINKED GLYCANS | ENVELOPE GLYCOPROTEIN | ENDOPLASMIC-RETICULUM | SEC61 TRANSLOCON | QUALITY-CONTROL | IMMUNOLOGY | HUMAN PROTEIN COMPLEXES | Models, Theoretical | Influenza A virus - physiology | Immunoprecipitation | HIV - physiology | Host-Parasite Interactions - physiology | Humans | HIV - pathogenicity | Protein Folding | Mass Spectrometry | Dengue Virus - pathogenicity | Proteomics | Influenza A virus - pathogenicity | Dengue Virus - physiology | Virus Replication - physiology | Influenza viruses | Proteins | Antiviral agents | Analysis | Dengue viruses | Influenza | HIV (Viruses) | Health aspects | Protein-protein interactions | Medical colleges | Microbiology | Peptides | Pathogenesis | Dengue fever | Viruses | Infections | Experiments | Studies | Design | Mutagenesis | Protein folding | Bioinformatics | Viral infections | Index Medicus
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12. Full Text CRL4 AMBRA1 targets Elongin C for ubiquitination and degradation to modulate CRL5 signaling
by Chen, Si-Han and Jang, Gwendolyn M and Hüttenhain, Ruth and Gordon, David E and Du, Dan and Newton, Billy W and Johnson, Jeffrey R and Hiatt, Joseph and Hultquist, Judd F and Johnson, Tasha L and Liu, Yi-Liang and Burton, Lily A and Ye, Jordan and Reichermeier, Kurt M and Stroud, Robert M and Marson, Alexander and Debnath, Jayanta and Gross, John D and Krogan, Nevan J
The EMBO journal, 09/2018, Volume 37, Issue 18
Multi-subunit cullin-RING ligases (CRLs) are the largest family of ubiquitin E3 ligases in humans. CRL activity is tightly regulated to prevent unintended... 
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13. Full Text Vif hijacks CBF-β to degrade APOBEC3G and promote HIV-1 infection
by Jäger, Stefanie and Kim, Dong Young and Hultquist, Judd F and Shindo, Keisuke and Larue, Rebecca S and Kwon, Eunju and Li, Ming and Anderson, Brett D and Yen, Linda and Stanley, David and Mahon, Cathal and Kane, Joshua and Franks-Skiba, Kathy and Cimermancic, Peter and Burlingame, Alma and Sali, Andrej and Craik, Charles S and Harris, Reuben S and Gross, John D and Krogan, Nevan J
Nature, ISSN 0028-0836, 01/2012, Volume 481, Issue 7381, pp. 371 - 375
Restriction factors, such as the retroviral complementary DNA deaminase APOBEC3G, are cellular proteins that dominantly block virus replication(1-3). The AIDS... 
SOCS-BOX | PROTEIN | SPECIFICITY | MECHANISM | MULTIDISCIPLINARY SCIENCES | RESTRICTION FACTORS | PROTEASOME | UBIQUITIN-LIGASE COMPLEX | ANTIVIRAL ACTIVITY | TARGETS | TISSUES | Affinity Labels | Humans | Gene Products, vif - metabolism | Genetic Complementation Test | Gene Knockdown Techniques | Macaca mulatta - virology | vif Gene Products, Human Immunodeficiency Virus - metabolism | Macaca mulatta - metabolism | Ubiquitination | HIV-1 - physiology | Proteolysis | Mass Spectrometry | HEK293 Cells | Cullin Proteins - metabolism | Core Binding Factor beta Subunit - metabolism | Jurkat Cells | HIV Infections - virology | Ubiquitin-Protein Ligases - metabolism | Ubiquitin-Protein Ligases - chemistry | Host-Pathogen Interactions | APOBEC-3G Deaminase | Animals | Virus Replication | Models, Biological | Cytidine Deaminase - metabolism | Protein Binding | Simian Immunodeficiency Virus - metabolism | HIV Infections - metabolism | Index Medicus
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