PhyloTempo: A Set of R Scripts for Assessing and Visualizing Temporal Clustering in Genealogies Inferred from Serially Sampled Viral Sequences by Melissa M. Norström, Mattia C.F. Prosperi, Rebecca R. Gray, Annika C. Karlsson, Marco Salemi

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PhyloTempo: A Set of R Scripts for Assessing and Visualizing Temporal Clustering in Genealogies Inferred from Serially Sampled Viral Sequences by Melissa M. Norström, Mattia C.F. Prosperi, Rebecca R. Gray, Annika C. Karlsson, Marco Salemi

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Multidimensional Clusters of CD4+ T Cell Dysfunction Are Primarily Associated with the CD4/CD8 Ratio in Chronic HIV Infection. by Juliet Frederiksen, Marcus Buggert, Kajsa Noyan, Piotr Nowak, Anders Sönnerborg, Ole Lund, Annika C Karlsson

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Baseline CD4+ T cell counts correlates with HIV-1 synonymous rate in HLA-B*5701 subjects with different risk of disease progression. by Melissa M Norström, Nazle M Veras, Wei Huang, Mattia C F Proper, Jennifer Cook, Wendy Hartogensis, Frederick M Hecht, Annika C Karlsson, Marco Salemi

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Newly Exerted T Cell Pressures on Mutated Epitopes following Transmission Help Maintain Consensus HIV-1 Sequences. by Emily M Eriksson, Teri Liegler, Chris E Keh, Annika C Karlsson, Sara J Holditch, Christopher D Pilcher, Lisa Loeb, Douglas F Nixon, Frederick M Hecht

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Sequential broadening of CTL responses in early HIV-1 infection is associated with viral escape. by Annika C Karlsson, Astrid K N Iversen, Joan M Chapman, Tulio de Oliviera, Gerald Spotts, Andrew J McMichael, Miles P Davenport, Frederick M Hecht, Douglas F Nixon

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Rapid progressing allele HLA-B35 Px restricted anti-HIV-1 CD8+ T cells recognize vestigial CTL epitopes. by Christian B Willberg, Keith E Garrison, R Brad Jones, Duncan A Meiklejohn, Gerald Spotts, Teri J Liegler, Mario A Ostrowski, Annika C Karlsson, Frederick M Hecht, Douglas F Nixon

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Correction: Rapid Progressing Allele HLA-B35 Px Restricted Anti-HIV-1 CD8+ T Cells Recognize Vestigial CTL Epitopes. by Christian B Willberg, Keith E Garrison, R Brad Jones, Duncan A Meiklejohn, Gerald Spotts, Teri J Liegler, Mario A Ostrowski, Annika C Karlsson, Frederick M Hecht, Douglas F Nixon

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T-bet and Eomes are differentially linked to the exhausted phenotype of CD8+ T cells in HIV infection. by Marcus Buggert, Johanna Tauriainen, Takuya Yamamoto, Juliet Frederiksen, Martin A Ivarsson, Jakob Michaëlsson, Ole Lund, Bo Hejdeman, Marianne Jansson, Anders Sönnerborg, Richard A Koup, Michael R Betts, Annika C Karlsson

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Hierarchical Clustering and Trajectory Analyses Reveal Viremia-Independent B-Cell Perturbations in HIV-2 Infection by Emil Johansson, Priscilla F. Kerkman, Lydia Scharf, Jacob Lindman, Zsófia I. Szojka, Fredrik Månsson, Antonio Biague, Patrik Medstrand, Hans Norrgren, Marcus Buggert, Annika C. Karlsson, Mattias N. E. Forsell, Joakim Esbjörnsson, Marianne Jansson, the SWEGUB CORE Group

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Inverted CD8 T-Cell Exhaustion and Co-Stimulation Marker Balance Differentiate Aviremic HIV-2-Infected From Seronegative Individuals by Lydia Scharf, Christina B. Pedersen, Christina B. Pedersen, Emil Johansson, Jacob Lindman, Lars R. Olsen, Lars R. Olsen, Marcus Buggert, Sten Wilhelmson, Fredrik Månsson, Joakim Esbjörnsson, Antonio Biague, Patrik Medstrand, Hans Norrgren, Annika C. Karlsson, Marianne Jansson, the SWEGUB CORE Group

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Limited immune surveillance in lymphoid tissue by cytolytic CD4+ T cells during health and HIV disease. by Marcus Buggert, Son Nguyen, Laura M McLane, Maria Steblyanko, Nadia Anikeeva, Dominic Paquin-Proulx, Perla M Del Rio Estrada, Yuria Ablanedo-Terrazas, Kajsa Noyan, Morgan A Reuter, Korey Demers, Johan K Sandberg, Michael A Eller, Hendrik Streeck, Marianne Jansson, Piotr Nowak, Anders Sönnerborg, David H Canaday, Ali Naji, E John Wherry, Merlin L Robb, Steven G Deeks, Gustavo Reyes-Teran, Yuri Sykulev, Annika C Karlsson, Michael R Betts

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