Year |
Citation |
Score |
2020 |
Wang W, Fasolino M, Cattau B, Goldman N, Kong W, Frederick MA, McCright SJ, Kiani K, Fraietta JA, Vahedi G. Joint profiling of chromatin accessibility and CAR-T integration site analysis at population and single-cell levels. Proceedings of the National Academy of Sciences of the United States of America. PMID 32094195 DOI: 10.1073/Pnas.1919259117 |
0.309 |
|
2019 |
Chen Z, Ji Z, Ngiow SF, Manne S, Cai Z, Huang AC, Johnson J, Staupe RP, Bengsch B, Xu C, Yu S, Kurachi M, Herati RS, Vella LA, Baxter AE, ... ... Vahedi G, et al. TCF-1-Centered Transcriptional Network Drives an Effector versus Exhausted CD8 T Cell-Fate Decision. Immunity. PMID 31606264 DOI: 10.1016/J.Immuni.2019.09.013 |
0.336 |
|
2019 |
Vacchio MS, Ciucci T, Gao Y, Watanabe M, Balmaceno-Criss M, McGinty MT, Huang A, Xiao Q, McConkey C, Zhao Y, Shetty J, Tran B, Pepper M, Vahedi G, Jenkins MK, et al. A Thpok-Directed Transcriptional Circuitry Promotes Bcl6 and Maf Expression to Orchestrate T Follicular Helper Differentiation. Immunity. PMID 31422869 DOI: 10.1016/J.Immuni.2019.06.023 |
0.311 |
|
2018 |
Cai S, Georgakilas GK, Johnson JL, Vahedi G. A Cosine Similarity-Based Method to Infer Variability of Chromatin Accessibility at the Single-Cell Level. Frontiers in Genetics. 9: 319. PMID 30158954 DOI: 10.3389/Fgene.2018.00319 |
0.302 |
|
2018 |
Zhao YT, Kwon DY, Johnson BS, Fasolino M, Lamonica JM, Kim YJ, Zhao BS, He C, Vahedi G, Kim TH, Zhou Z. Long genes linked to autism spectrum disorders harbor broad enhancer-like chromatin domains. Genome Research. PMID 29848492 DOI: 10.1101/Gr.233775.117 |
0.32 |
|
2018 |
Johnson JL, Georgakilas G, Petrovic J, Kurachi M, Cai S, Harly C, Pear WS, Bhandoola A, Wherry EJ, Vahedi G. Lineage-Determining Transcription Factor TCF-1 Initiates the Epigenetic Identity of T Cells. Immunity. 48: 243-257.e10. PMID 29466756 DOI: 10.1016/J.Immuni.2018.01.012 |
0.333 |
|
2017 |
Johnson BS, Zhao YT, Fasolino M, Lamonica JM, Kim YJ, Georgakilas G, Wood KH, Bu D, Cui Y, Goffin D, Vahedi G, Kim TH, Zhou Z. Biotin tagging of MeCP2 in mice reveals contextual insights into the Rett syndrome transcriptome. Nature Medicine. PMID 28920956 DOI: 10.1038/Nm.4406 |
0.314 |
|
2016 |
Poholek AC, Jankovic D, Villarino AV, Petermann F, Hettinga A, Shouval DS, Snapper SB, Kaech SM, Brooks SR, Vahedi G, Sher A, Kanno Y, O'Shea JJ. IL-10 induces a STAT3-dependent autoregulatory loop in TH2 cells that promotes Blimp-1 restriction of cell expansion via antagonism of STAT5 target genes. Science Immunology. 1. PMID 28713870 DOI: 10.1126/Sciimmunol.Aaf8612 |
0.326 |
|
2016 |
Richard AC, Peters JE, Lee JC, Vahedi G, Schäffer AA, Siegel RM, Lyons PA, Smith KG. Targeted genomic analysis reveals widespread autoimmune disease association with regulatory variants in the TNF superfamily cytokine signalling network. Genome Medicine. 8: 76. PMID 27435189 DOI: 10.1186/S13073-016-0329-5 |
0.313 |
|
2016 |
Vahedi G. Regulation of T-Cell Activation and Differentiation Blood. 128. DOI: 10.1182/Blood.V128.22.Sci-11.Sci-11 |
0.392 |
|
2015 |
Paiano JJ, Johnson JL, Vahedi G. Enhancing our understanding of enhancers in T-helper cells. European Journal of Immunology. PMID 26444855 DOI: 10.1002/Eji.201546035 |
0.318 |
|
2015 |
Witte S, O'Shea JJ, Vahedi G. Super-enhancers: Asset management in immune cell genomes. Trends in Immunology. 36: 519-26. PMID 26277449 DOI: 10.1016/J.It.2015.07.005 |
0.311 |
|
2015 |
Yang XP, Jiang K, Hirahara K, Vahedi G, Afzali B, Sciume G, Bonelli M, Sun HW, Jankovic D, Kanno Y, Sartorelli V, O'Shea JJ, Laurence A. EZH2 is crucial for both differentiation of regulatory T cells and T effector cell expansion. Scientific Reports. 5: 10643. PMID 26090605 DOI: 10.1038/Srep10643 |
0.303 |
|
2015 |
Vahedi G, Kanno Y, Furumoto Y, Jiang K, Parker SC, Erdos MR, Davis SR, Roychoudhuri R, Restifo NP, Gadina M, Tang Z, Ruan Y, Collins FS, Sartorelli V, O'Shea JJ. Super-enhancers delineate disease-associated regulatory nodes in T cells. Nature. 520: 558-62. PMID 25686607 DOI: 10.1038/Nature14154 |
0.386 |
|
2014 |
Shih HY, Sciumè G, Poholek AC, Vahedi G, Hirahara K, Villarino AV, Bonelli M, Bosselut R, Kanno Y, Muljo SA, O'Shea JJ. Transcriptional and epigenetic networks of helper T and innate lymphoid cells. Immunological Reviews. 261: 23-49. PMID 25123275 DOI: 10.1111/Imr.12208 |
0.374 |
|
2014 |
Bonelli M, Shih HY, Hirahara K, Singelton K, Laurence A, Poholek A, Hand T, Mikami Y, Vahedi G, Kanno Y, O'Shea JJ. Helper T cell plasticity: impact of extrinsic and intrinsic signals on transcriptomes and epigenomes. Current Topics in Microbiology and Immunology. 381: 279-326. PMID 24831346 DOI: 10.1007/82_2014_371 |
0.308 |
|
2014 |
Nakayamada S, Poholek AC, Lu KT, Takahashi H, Kato M, Iwata S, Hirahara K, Cannons JL, Schwartzberg PL, Vahedi G, Sun HW, Kanno Y, O'Shea JJ. Type I IFN induces binding of STAT1 to Bcl6: divergent roles of STAT family transcription factors in the T follicular helper cell genetic program. Journal of Immunology (Baltimore, Md. : 1950). 192: 2156-66. PMID 24489092 DOI: 10.4049/Jimmunol.1300675 |
0.303 |
|
2013 |
Roychoudhuri R, Hirahara K, Mousavi K, Clever D, Klebanoff CA, Bonelli M, Sciumè G, Zare H, Vahedi G, Dema B, Yu Z, Liu H, Takahashi H, Rao M, Muranski P, et al. BACH2 represses effector programs to stabilize T(reg)-mediated immune homeostasis. Nature. 498: 506-10. PMID 23728300 DOI: 10.1038/Nature12199 |
0.331 |
|
2013 |
Hirahara K, Poholek A, Vahedi G, Laurence A, Kanno Y, Milner JD, O'Shea JJ. Mechanisms underlying helper T-cell plasticity: implications for immune-mediated disease. The Journal of Allergy and Clinical Immunology. 131: 1276-87. PMID 23622118 DOI: 10.1016/J.Jaci.2013.03.015 |
0.329 |
|
2013 |
Vahedi G, Kanno Y, Sartorelli V, O'Shea JJ. Transcription factors and CD4 T cells seeking identity: masters, minions, setters and spikers. Immunology. 139: 294-8. PMID 23586907 DOI: 10.1111/Imm.12113 |
0.307 |
|
2013 |
Adamson A, Ghoreschi K, Rittler M, Chen Q, Sun HW, Vahedi G, Kanno Y, Stetler-Stevenson WG, O'Shea JJ, Laurence A. Tissue inhibitor of metalloproteinase 1 is preferentially expressed in Th1 and Th17 T-helper cell subsets and is a direct STAT target gene. Plos One. 8: e59367. PMID 23555662 DOI: 10.1371/Journal.Pone.0059367 |
0.308 |
|
2013 |
Vahedi G, C Poholek A, Hand TW, Laurence A, Kanno Y, O'Shea JJ, Hirahara K. Helper T-cell identity and evolution of differential transcriptomes and epigenomes. Immunological Reviews. 252: 24-40. PMID 23405893 DOI: 10.1111/Imr.12037 |
0.341 |
|
2012 |
Vahedi G, Takahashi H, Nakayamada S, Sun HW, Sartorelli V, Kanno Y, O'Shea JJ. STATs shape the active enhancer landscape of T cell populations. Cell. 151: 981-93. PMID 23178119 DOI: 10.1016/J.Cell.2012.09.044 |
0.339 |
|
2012 |
Kanno Y, Vahedi G, Hirahara K, Singleton K, O'Shea JJ. Transcriptional and epigenetic control of T helper cell specification: molecular mechanisms underlying commitment and plasticity. Annual Review of Immunology. 30: 707-31. PMID 22224760 DOI: 10.1146/Annurev-Immunol-020711-075058 |
0.319 |
|
2011 |
Nakayamada S, Kanno Y, Takahashi H, Jankovic D, Lu KT, Johnson TA, Sun HW, Vahedi G, Hakim O, Handon R, Schwartzberg PL, Hager GL, O'Shea JJ. Early Th1 cell differentiation is marked by a Tfh cell-like transition. Immunity. 35: 919-31. PMID 22195747 DOI: 10.1016/J.Immuni.2011.11.012 |
0.319 |
|
2011 |
Hirahara K, Vahedi G, Ghoreschi K, Yang XP, Nakayamada S, Kanno Y, O'Shea JJ, Laurence A. Helper T-cell differentiation and plasticity: insights from epigenetics. Immunology. 134: 235-45. PMID 21977994 DOI: 10.1111/J.1365-2567.2011.03483.X |
0.346 |
|
2011 |
O'Shea JJ, Lahesmaa R, Vahedi G, Laurence A, Kanno Y. Genomic views of STAT function in CD4+ T helper cell differentiation. Nature Reviews. Immunology. 11: 239-50. PMID 21436836 DOI: 10.1038/Nri2958 |
0.33 |
|
2010 |
Wei L, Vahedi G, Sun HW, Watford WT, Takatori H, Ramos HL, Takahashi H, Liang J, Gutierrez-Cruz G, Zang C, Peng W, O'Shea JJ, Kanno Y. Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation. Immunity. 32: 840-51. PMID 20620946 DOI: 10.1016/J.Immuni.2010.06.003 |
0.344 |
|
2010 |
Durant L, Watford WT, Ramos HL, Laurence A, Vahedi G, Wei L, Takahashi H, Sun HW, Kanno Y, Powrie F, O'Shea JJ. Diverse targets of the transcription factor STAT3 contribute to T cell pathogenicity and homeostasis. Immunity. 32: 605-15. PMID 20493732 DOI: 10.1016/J.Immuni.2010.05.003 |
0.328 |
|
2009 |
Faryabi B, Vahedi G, Datta A, Chamberland JF, Dougherty ER. Recent advances in intervention in markovian regulatory networks. Current Genomics. 10: 463-77. PMID 20436874 DOI: 10.2174/138920209789208246 |
0.79 |
|
2009 |
Vahedi G, Faryabi B, Chamberland JF, Datta A, Dougherty ER. Sampling-rate-dependent probabilistic Boolean networks. Journal of Theoretical Biology. 261: 540-7. PMID 19716832 DOI: 10.1016/J.Jtbi.2009.08.026 |
0.793 |
|
2009 |
Vahedi G, Ivanov IV, Dougherty ER. Inference of Boolean networks under constraint on bidirectional gene relationships. Iet Systems Biology. 3: 191-202. PMID 19449979 DOI: 10.1049/Iet-Syb.2007.0070 |
0.606 |
|
2009 |
Faryabi B, Vahedi G, Chamberland JF, Datta A, Dougherty ER. Intervention in context-sensitive probabilistic Boolean networks revisited. Eurasip Journal On Bioinformatics & Systems Biology. 360864. PMID 19404383 DOI: 10.1155/2009/360864 |
0.8 |
|
2009 |
Vahedi G, Faryabi B, Chamberland JF, Datta A, Dougherty ER. Optimal intervention strategies for cyclic therapeutic methods. Ieee Transactions On Bio-Medical Engineering. 56: 281-91. PMID 19272947 DOI: 10.1109/Tbme.2008.2003092 |
0.808 |
|
2009 |
Vahedi G, Shmulevich I, Liu W, Dougherty E. Critical boolean networks require minimal intervention rate 2009 Ieee International Workshop On Genomic Signal Processing and Statistics, Gensips 2009. DOI: 10.1109/GENSIPS.2009.5174341 |
0.6 |
|
2008 |
Vahedi G, Faryabi B, Chamberland JF, Datta A, Dougherty ER. Intervention in gene regulatory networks via a stationary mean-first-passage-time control policy. Ieee Transactions On Bio-Medical Engineering. 55: 2319-31. PMID 18838357 DOI: 10.1109/Tbme.2008.925677 |
0.802 |
|
2008 |
Faryabi B, Vahedi G, Chamberland JF, Datta A, Dougherty ER. Optimal constrained stationary intervention in gene regulatory networks. Eurasip Journal On Bioinformatics & Systems Biology. 620767. PMID 18516276 DOI: 10.1155/2008/620767 |
0.808 |
|
2008 |
Faryabi B, Chamberland JF, Vahedi G, Datta A, Dougherty ER. Optimal intervention in asynchronous genetic regulatory networks Ieee Journal On Selected Topics in Signal Processing. 2: 412-423. DOI: 10.1109/Jstsp.2008.923853 |
0.82 |
|
2008 |
Vahedi G, Faryabi B, Chamberland JF, Datta A, Dougherty E. Modeling cyclic therapy in gene regulatory networks Gensips'08 - 6th Ieee International Workshop On Genomic Signal Processing and Statistics. DOI: 10.1109/GENSIPS.2008.4555670 |
0.775 |
|
2008 |
Faryabi B, Vahedi G, Chamberland JF, Datta A, Dougherty ER. Constrained intervention in a cancerous mammalian cell cycle network Gensips'08 - 6th Ieee International Workshop On Genomic Signal Processing and Statistics. DOI: 10.1109/GENSIPS.2008.4555669 |
0.784 |
|
2008 |
Vahedi G, Faryabi B, Chamberland JF, Datta A, Dougherty ER. Mean first-passage time control policy versus reinforcement-learning control policy in gene regulatory networks Proceedings of the American Control Conference. 1394-1399. DOI: 10.1109/ACC.2008.4586687 |
0.763 |
|
2008 |
Faryabi B, Chamberland JF, Vahedi G, Datta A, Dougherty ER. Optimal intervention in semi-Markov-based asynchronous genetic regulatory networks Proceedings of the American Control Conference. 1388-1393. DOI: 10.1109/ACC.2008.4586686 |
0.798 |
|
2007 |
Vahedi G, Datta A, Dougherty ER. Which control gene should be used in genetic regulatory networks? Ieee Workshop On Statistical Signal Processing Proceedings. 6-10. DOI: 10.1109/SSP.2007.4301207 |
0.593 |
|
2007 |
Vahedi G, Ivanov I, Dougherty ER. Bidirectional relationships and attractor structure of Boolean networks Gensips'07 - 5th Ieee International Workshop On Genomic Signal Processing and Statistics. DOI: 10.1109/GENSIPS.2007.4365822 |
0.345 |
|
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