Cell-type independent differentially methylated loci associated with acute HIV infection.
(a) Diagram of experimental design displaying comparison utilized to identify DML in CD4+ T cells associated with AHI. Created with BioRender.com (b) Volcano plot displaying gene symbol and CpG ID (cg#) for top hypomethylated and hypermethylated sites associated with AHI in CD4 + T lymphocytes. Diff...
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ftsmithonian:oai:figshare.com:article/15166899 2023-05-15T16:01:29+02:00 Cell-type independent differentially methylated loci associated with acute HIV infection. Michael J. Corley (7447133) Carlo Sacdalan (11273544) Alina P. S. Pang (7447139) Nitiya Chomchey (327683) Nisakorn Ratnaratorn (11273550) Victor Valcour (22964) Eugene Kroon (673318) Kyu S. Cho (11273553) Andrew C. Belden (10296401) Donn Colby (447929) Merlin Robb (373375) Denise Hsu (11273556) Serena Spudich (202054) Robert Paul (22962) Sandhya Vasan (102251) Lishomwa C. Ndhlovu (7122293) 2021-08-13T17:43:11Z https://doi.org/10.1371/journal.ppat.1009785.g003 unknown https://figshare.com/articles/figure/Cell-type_independent_differentially_methylated_loci_associated_with_acute_HIV_infection_/15166899 doi:10.1371/journal.ppat.1009785.g003 CC BY 4.0 CC-BY Medicine Genetics Molecular Biology Cancer Science Policy Infectious Diseases Virology Biological Sciences not elsewhere classified RV CD 4 count AHI DNA methylation profiles monocyte precision HIV medicine CD 4 HIV-associated initiation Monocyte DNA methylation patterns T lymphocytes genome-wide DNA methylation HIV infection NCT Image Figure 2021 ftsmithonian https://doi.org/10.1371/journal.ppat.1009785.g003 2021-12-20T04:21:29Z (a) Diagram of experimental design displaying comparison utilized to identify DML in CD4+ T cells associated with AHI. Created with BioRender.com (b) Volcano plot displaying gene symbol and CpG ID (cg#) for top hypomethylated and hypermethylated sites associated with AHI in CD4 + T lymphocytes. Difference in DNA methylation displayed as delta beta values plotted against P values transformed using -log10(P). (c) Venn diagram displaying the number of overlapping DML and cell-type specific DML identified in CD4+ T cells and monocyte cells (d-s) Plots demonstrating changes in DNA methylation in AHI Fiebig I (red dots), Fiebig II (blue dots) Fiebig III-V (purple dots) participants compared to HIV- (green dots) at single CpGs sites related to annotated protein-coding genes displayed in bold italic above CpG ID (cg#) for CD4 + T lymphocytes and monocytes. Significance determined comparing HIV- vs. AHI and using FDR adjusted P-values <0.05. Still Image DML Unknown Venn ENVELOPE(9.281,9.281,63.350,63.350) |
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op_collection_id |
ftsmithonian |
language |
unknown |
topic |
Medicine Genetics Molecular Biology Cancer Science Policy Infectious Diseases Virology Biological Sciences not elsewhere classified RV CD 4 count AHI DNA methylation profiles monocyte precision HIV medicine CD 4 HIV-associated initiation Monocyte DNA methylation patterns T lymphocytes genome-wide DNA methylation HIV infection NCT |
spellingShingle |
Medicine Genetics Molecular Biology Cancer Science Policy Infectious Diseases Virology Biological Sciences not elsewhere classified RV CD 4 count AHI DNA methylation profiles monocyte precision HIV medicine CD 4 HIV-associated initiation Monocyte DNA methylation patterns T lymphocytes genome-wide DNA methylation HIV infection NCT Michael J. Corley (7447133) Carlo Sacdalan (11273544) Alina P. S. Pang (7447139) Nitiya Chomchey (327683) Nisakorn Ratnaratorn (11273550) Victor Valcour (22964) Eugene Kroon (673318) Kyu S. Cho (11273553) Andrew C. Belden (10296401) Donn Colby (447929) Merlin Robb (373375) Denise Hsu (11273556) Serena Spudich (202054) Robert Paul (22962) Sandhya Vasan (102251) Lishomwa C. Ndhlovu (7122293) Cell-type independent differentially methylated loci associated with acute HIV infection. |
topic_facet |
Medicine Genetics Molecular Biology Cancer Science Policy Infectious Diseases Virology Biological Sciences not elsewhere classified RV CD 4 count AHI DNA methylation profiles monocyte precision HIV medicine CD 4 HIV-associated initiation Monocyte DNA methylation patterns T lymphocytes genome-wide DNA methylation HIV infection NCT |
description |
(a) Diagram of experimental design displaying comparison utilized to identify DML in CD4+ T cells associated with AHI. Created with BioRender.com (b) Volcano plot displaying gene symbol and CpG ID (cg#) for top hypomethylated and hypermethylated sites associated with AHI in CD4 + T lymphocytes. Difference in DNA methylation displayed as delta beta values plotted against P values transformed using -log10(P). (c) Venn diagram displaying the number of overlapping DML and cell-type specific DML identified in CD4+ T cells and monocyte cells (d-s) Plots demonstrating changes in DNA methylation in AHI Fiebig I (red dots), Fiebig II (blue dots) Fiebig III-V (purple dots) participants compared to HIV- (green dots) at single CpGs sites related to annotated protein-coding genes displayed in bold italic above CpG ID (cg#) for CD4 + T lymphocytes and monocytes. Significance determined comparing HIV- vs. AHI and using FDR adjusted P-values <0.05. |
format |
Still Image |
author |
Michael J. Corley (7447133) Carlo Sacdalan (11273544) Alina P. S. Pang (7447139) Nitiya Chomchey (327683) Nisakorn Ratnaratorn (11273550) Victor Valcour (22964) Eugene Kroon (673318) Kyu S. Cho (11273553) Andrew C. Belden (10296401) Donn Colby (447929) Merlin Robb (373375) Denise Hsu (11273556) Serena Spudich (202054) Robert Paul (22962) Sandhya Vasan (102251) Lishomwa C. Ndhlovu (7122293) |
author_facet |
Michael J. Corley (7447133) Carlo Sacdalan (11273544) Alina P. S. Pang (7447139) Nitiya Chomchey (327683) Nisakorn Ratnaratorn (11273550) Victor Valcour (22964) Eugene Kroon (673318) Kyu S. Cho (11273553) Andrew C. Belden (10296401) Donn Colby (447929) Merlin Robb (373375) Denise Hsu (11273556) Serena Spudich (202054) Robert Paul (22962) Sandhya Vasan (102251) Lishomwa C. Ndhlovu (7122293) |
author_sort |
Michael J. Corley (7447133) |
title |
Cell-type independent differentially methylated loci associated with acute HIV infection. |
title_short |
Cell-type independent differentially methylated loci associated with acute HIV infection. |
title_full |
Cell-type independent differentially methylated loci associated with acute HIV infection. |
title_fullStr |
Cell-type independent differentially methylated loci associated with acute HIV infection. |
title_full_unstemmed |
Cell-type independent differentially methylated loci associated with acute HIV infection. |
title_sort |
cell-type independent differentially methylated loci associated with acute hiv infection. |
publishDate |
2021 |
url |
https://doi.org/10.1371/journal.ppat.1009785.g003 |
long_lat |
ENVELOPE(9.281,9.281,63.350,63.350) |
geographic |
Venn |
geographic_facet |
Venn |
genre |
DML |
genre_facet |
DML |
op_relation |
https://figshare.com/articles/figure/Cell-type_independent_differentially_methylated_loci_associated_with_acute_HIV_infection_/15166899 doi:10.1371/journal.ppat.1009785.g003 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1371/journal.ppat.1009785.g003 |
_version_ |
1766397311149146112 |