Rothenberg, Ellen V.

Combined from CaltechAUTHORS

• Andersson, Emil and Rothenberg, Ellen V., et el. (2024) T-cell commitment inheritance—an agent-based multi-scale model; npj Systems Biology and Applications; Vol. 10; 40; PMCID PMC11024127; 10.1038/s41540-024-00368-y
• Schulte, Samuel J. and Shin, Boyoung, et el. (2024) Multiplex, Quantitative, High-Resolution Imaging of Protein:Protein Complexes via Hybridization Chain Reaction; ACS Chemical Biology; Vol. 19; No. 2; 280-288; PMCID PMC10877569; 10.1021/acschembio.3c00431
• Spolski, Rosanne and Li, Peng, et el. (2023) Distinct use of super-enhancer elements controls cell type–specific CD25 transcription and function; Science Immunology; Vol. 8; No. 89; eadi8217; 10.1126/sciimmunol.adi8217
• MacNabb, Brendan W. and Rothenberg, Ellen V. (2023) Speed and navigation control of thymocyte development by the fetal T-cell gene regulatory network; Immunological Reviews; 10.1111/imr.13190
• Kagan, Jonathan C. and Rothenberg, Ellen V., et el. (2023) Cold Spring Harbor Laboratory 2022: emerging insights and viewpoints in immunology; Trends in Immunology; Vol. 44; No. 4; 248-255; 10.1016/j.it.2023.02.003
• Spolski, Rosanne and Li, Peng, et el. (2023) Distinct super-enhancer elements differentially control Il2ra gene expression in a cell-type specific fashion; 10.1101/2022.11.18.516445
• Shin, Boyoung and Rothenberg, Ellen V. (2023) Multi-modular structure of the gene regulatory network for specification and commitment of murine T cells; Frontiers in Immunology; Vol. 14; Art. No. 1108368; PMCID PMC9928580; 10.3389/fimmu.2023.1108368
• Shin, Boyoung and Zhou, Wen, et el. (2022) Runx factors launch T cell and innate lymphoid programs via direct and gene network-based mechanisms; 10.1101/2022.11.18.517146
• Rothenberg, Ellen V. (2022) Transcription factors specifically control change; Genes and Development; Vol. 36; No. 21-24; 1097-1099; PMCID PMC9851400; 10.1101/gad.350308.122
• Rothenberg, Ellen V. (2022) The Heart of the Machine: Construction of T Cell Identity, Made Accessible; Journal of Immunology; Vol. 209; No. 7; 1235-1236; 10.4049/jimmunol.2200264
• Zhou, Wen and Gao, Fan, et el. (2022) Single-cell deletion analyses show control of pro–T cell developmental speed and pathways by Tcf7, Spi1, Gata3, Bcl11a, Erg, and Bcl11b; Science Immunology; Vol. 7; No. 71; eabm1920; PMCID PMC9273332; 10.1126/sciimmunol.abm1920
• Rothenberg, Ellen V. (2021) Logic and lineage impacts on functional transcription factor deployment for T-cell fate commitment; Biophysical Journal; Vol. 120; No. 19; 4162-4181; 10.1016/j.bpj.2021.04.002
• Zhou, Wen and Gao, Fan, et el. (2021) Single-cell perturbation dissects transcription factor control of progression speed and trajectory choice in early T-cell development; 10.1101/2021.09.03.458944
• Hosokawa, Hiroyuki and Koizumi, Maria, et el. (2021) Stage-specific action of Runx1 and GATA3 controls silencing of PU.1 expression in mouse pro-T cells; Journal of Experimental Medicine; Vol. 218; No. 8; Art. No. e20202648; PMCID PMC8241539; 10.1084/jem.20202648
• Sidwell, Tom and Rothenberg, Ellen V. (2021) Epigenetic Dynamics in the Function of T-Lineage Regulatory Factor Bcl11b; Frontiers in Immunology; Vol. 12; Art. No. 669498; PMCID PMC8079813; 10.3389/fimmu.2021.669498
• Rothenberg, Ellen V. (2021) Single-cell insights into the hematopoietic generation of T-lymphocyte precursors in mouse and human; Experimental Hematology; Vol. 95; 1-12; PMCID PMC8018899; 10.1016/j.exphem.2020.12.005
• Hosokawa, Hiroyuki and Rothenberg, Ellen V. (2021) How transcription factors drive choice of the T cell fate; Nature Reviews. Immunology; Vol. 21; No. 3; 162-176; 10.1038/s41577-020-00426-6
• Shin, Boyoung and Hosokawa, Hiroyuki, et el. (2021) Runx1 and Runx3 drive progenitor to T-lineage transcriptome conversion in mouse T cell commitment via dynamic genomic site switching; Proceedings of the National Academy of Sciences of the United States of America; Vol. 118; No. 4; Art. No. e2019655118; PMCID PMC7848575; 10.1073/pnas.2019655118
• Olariu, Victor and Yui, Mary A., et el. (2021) Multi-scale Dynamical Modeling of T Cell Development from an Early Thymic Progenitor State to Lineage Commitment; Cell Reports; Vol. 34; No. 2; Art. No. 108622; PMCID PMC7943435; 10.1016/j.celrep.2020.108622
• Rothenberg, Ellen V. and Göttgens, Berthold (2021) How haematopoiesis research became a fertile ground for regulatory network biology as pioneered by Eric Davidson; Current Opinion in Hematology; Vol. 28; No. 1; 1-10; PMCID PMC7755131; 10.1097/moh.0000000000000628
• Romero-Wolf, Maile and Shin, Boyoung, et el. (2020) Notch2 complements Notch1 to mediate inductive signaling that initiates early T cell development; Journal of Cell Biology; Vol. 219; No. 10; Art. No. e202005093; PMCID PMC7659720; 10.1083/jcb.202005093
• Wang, Xun and Rothenberg, Ellen V. (2020) Illuminating the core of adaptive immunity—how the regulatory genome controls Rag chromatin dynamics; Science Immunology; Vol. 5; No. 51; Art. No. eabd6427; 10.1126/sciimmunol.abd6427
• Spolski, Rosanne and Li, Peng, et el. (2020) Functional dissection of the Il2ra superenhancer reveals developmentally regulated and cell type specific elements; Journal of Immunology; Vol. 204; No. S1; Art. No. 78.16
• Hosokawa, Hiroyuki and Romero-Wolf, Maile, et el. (2020) Cell type–specific actions of Bcl11b in early T-lineage and group 2 innate lymphoid cells; Journal of Experimental Medicine; Vol. 217; No. 1; Art. No. e20190972; PMCID PMC7037248; 10.1084/jem.20190972
• Rothenberg, Ellen V. (2019) Dynamic control of the T-cell specification gene regulatory network; Current Opinion in Systems Biology; Vol. 18; 62-76; PMCID PMC7015151; 10.1016/j.coisb.2019.10.012
• Zhou, Wen and Rothenberg, Ellen V. (2019) Building a Human Thymus: A Pointillist View; Immunity; Vol. 51; No. 5; 788-790; 10.1016/j.immuni.2019.10.003
• Zhou, Wen and Yui, Mary A., et el. (2019) Single-Cell Analysis Reveals Regulatory Gene Expression Dynamics Leading to Lineage Commitment in Early T Cell Development; Cell Systems; Vol. 9; No. 4; 321-337; PMCID PMC6932747; 10.1016/j.cels.2019.09.008
• Sashital, Dipali and Blanpain, Cedric, et el. (2019) Advice from Cell Press Reviewers; Cell; Vol. 179; No. 1; 40-45; 10.1016/j.cell.2019.08.044
• Rothenberg, Ellen V. (2019) Programming for T-lymphocyte fates: modularity and mechanisms; Genes and Development; Vol. 33; No. 17-18; 1117-1135; PMCID PMC6719619; 10.1101/gad.327163.119
• Rothenberg, Ellen V. (2019) Causal Gene Regulatory Network Modeling and Genomics: Second-Generation Challenges; Journal of Computational Biology; Vol. 26; No. 7; 703-718; PMCID PMC6661971; 10.1089/cmb.2019.0098
• Rothenberg, Ellen V. (2019) Encounters across networks: Windows into principles of genomic regulation; Marine Genomics; Vol. 44; 3-12; PMCID PMC6431589; 10.1016/j.margen.2019.01.003
• Rothenberg, Ellen V. and Hosokawa, Hiroyuki, et el. (2019) Mechanisms of Action of Hematopoietic Transcription Factor PU.1 in Initiation of T-Cell Development; Frontiers in Immunology; Vol. 10; Art. No. 228; PMCID PMC6391351; 10.3389/fimmu.2019.00228
• Hosokawa, Hiroyuki and Romero-Wolf, Maile, et el. (2018) Bcl11b sets pro-T cell fate by site-specific cofactor recruitment and by repressing Id2 and Zbtb16; Nature Immunology; Vol. 19; No. 12; 1427-1440; PMCID PMC6240390; 10.1038/s41590-018-0238-4
• Ng, Kenneth K. N. and Yui, Mary A., et el. (2018) A stochastic epigenetic switch controls the dynamics of T-cell lineage commitment; eLife; Vol. 7; Art. No. e37851; PMCID PMC6245732; 10.7554/eLife.37851
• Guerrero-Peña, Fidel A. and Marrero Fernandez, Pedro D., et el. (2018) Multiclass Weighted Loss for Instance Segmentation of Cluttered Cells; ISBN 9781479970612; 2018 25th IEEE International Conference on Image Processing (ICIP); 2451-2455; 10.1109/icip.2018.8451187
• Ungerbäck, Jonas and Hosokawa, Hiroyuki, et el. (2018) Pioneering, chromatin remodeling, and epigenetic constraint in early T-cell gene regulation by SPI1 (PU.1); Genome Research; Vol. 28; No. 10; 1508-1519; PMCID PMC6169891; 10.1101/gr.231423.117
• Hosokawa, Hiroyuki and Ungerbäck, Jonas, et el. (2018) Transcription Factor PU.1 Represses and Activates Gene Expression in Early T Cells by Redirecting Partner Transcription Factor Binding; Immunity; Vol. 48; No. 6; 1119-1134; PMCID PMC6063530; 10.1016/j.immuni.2018.04.024
• Hosokawa, Hiroyuki and Rothenberg, Ellen V. (2018) Cytokines, Transcription Factors, and the Initiation of T-Cell Development; Cold Spring Harbor Perspectives in Biology; Vol. 10; No. 5; 1-19; PMCID PMC5876153; 10.1101/cshperspect.a028621
• Hu, Gangqing and Cui, Kairong, et el. (2018) Transformation of Accessible Chromatin and 3D Nucleome Underlies Lineage Commitment of Early T Cells; Immunity; Vol. 48; No. 2; 227-242; PMCID PMC5847274; 10.1016/j.immuni.2018.01.013
• Rothenberg, Ellen V. (2017) Fitting structure to function in gene regulatory networks; History and Philosophy of the Life Sciences; Vol. 39; No. 4; Art. No. 37; PMCID PMC5660880; 10.1007/s40656-017-0164-z
• He, Zhiheng and Ma, Jian, et el. (2017) A two-amino-acid substitution in the transcription factor RORγt disrupts its function in T_H17 differentiation but not in thymocyte development; Nature Immunology; Vol. 18; No. 10; 1128-1138; PMCID PMC5678981; 10.1038/ni.3832
• Longabaugh, William J. R. and Zeng, Weihua, et el. (2017) Bcl11b and combinatorial resolution of cell fate in the T-cell gene regulatory network; Proceedings of the National Academy of Sciences of the United States of America; Vol. 114; No. 23; 5800-5807; PMCID PMC5468679; 10.1073/pnas.1610617114
• Tsagaratou, Ageliki and González-Avalos, Edahí, et el. (2017) TET proteins regulate the lineage specification and TCR-mediated expansion of iNKT cells; Nature Immunology; Vol. 18; No. 1; 45-53; PMCID PMC5376256; 10.1038/ni.3630
• Rothenberg, Ellen V. (2016) Multiple Curricula for B Cell Developmental Programming; Immunity; Vol. 45; No. 3; 457-458; 10.1016/j.immuni.2016.09.005
• Manesso, Erica and Kueh, Hao Yuan, et el. (2016) Irreversibility of T-cell specification: insights from computational modelling of a minimal network architecture; PLoS ONE; Vol. 11; No. 8; Art. No. e0161260; PMCID PMC4995000; 10.1371/journal.pone.0161260
• Kueh, Hao Yuan and Yui, Mary A., et el. (2016) Asynchronous combinatorial action of four regulatory factors activates Bcl11b for T cell commitment; Nature Immunology; Vol. 17; No. 8; 956-965; PMCID PMC4955789; 10.1038/ni.3514
• Rothenberg, E. and Kueh, H. Y., et el. (2016) Dissecting the transcriptional regulatory network for early T-cell commitment; European Journal of Immunology; Vol. 46; No. S1; 797; 10.1002/eji.201670200
• Rothenberg, Ellen V. and Kueh, Hao Yuan, et el. (2016) Hematopoiesis and T-cell specification as a model developmental system; Immunological Reviews; Vol. 271; No. 1; 72-97; PMCID PMC4837658; 10.1111/imr.12417
• Rothenberg, Ellen V. (2016) Eric Davidson: Steps to A Gene Regulatory Network for Development; Developmental Biology; Vol. 412; No. 2; S7-S19; PMCID PMC4828313; 10.1016/j.ydbio.2016.01.020
• Van de Walle, Inge and Dolens, Anne-Catherine, et el. (2016) GATA3 induces human T-cell commitment by restraining Notch activity and repressing NK-cell fate; Nature Communications; Vol. 7; Art. No. 11171; PMCID PMC4823830; 10.1038/ncomms11171
• Rothenberg, Ellen V. (2016) Transcriptional Regulation of T Cell Lineage Commitment; ISBN 978-0-08-092152-5; Encyclopedia of Immunobiology; 201-210; 10.1016/B978-0-12-374279-7.04006-6
• Rothenberg, Ellen V. and Ungerbäck, Jonas, et el. (2016) Forging T-Lymphocyte Identity: Intersecting Networks of Transcriptional Control; Advances in Immunology; Vol. 129; 109-174; PMCID PMC4747653; 10.1016/bs.ai.2015.09.002
• Hood, Leroy and Rothenberg, Ellen V. (2015) Developmental biologist Eric H. Davidson, 1937–2015; Proceedings of the National Academy of Sciences of the United States of America; Vol. 112; No. 44; 13423-13425; PMCID PMC4640791; 10.1073/pnas.1518876112
• Champhekar, Ameya and Damle, Sagar S., et el. (2015) Regulation of early T-lineage gene expression and developmental progression by the progenitor cell transcription factor PU.1; Genes and Development; Vol. 29; No. 8; 832-848; PMCID PMC4403259; 10.1101/gad.259879.115
• Rothenberg, Ellen V. (2015) Immune Cell Identity: Perspective from a Palimpsest; Perspectives in Biology and Medicine; Vol. 58; No. 2; 205-228; PMCID PMC4747652; 10.1353/pbm.2015.0020
• Scripture-Adams, Deirdre D. and Damle, Sagar S., et el. (2014) GATA-3 Dose-Dependent Checkpoints in Early T Cell Commitment; Journal of Immunology; Vol. 193; No. 7; 3470-3491; PMCID PMC4170028; 10.4049/jimmunol.1301663
• Kueh, Hao Yuan and Elowitz, Michael B., et el. (2014) Macrophage and T-cell fate control: Insights from tracking transcription factor dynamics in single cells; Experimental Hematology; Vol. 42; No. 8; S16; 10.1016/j.exphem.2014.07.054
• Yui, Mary A. and Rothenberg, Ellen V. (2014) Developmental gene networks: a triathlon on the course to T cell identity; Nature Reviews. Immunology; Vol. 14; No. 8; 529-545; PMCID PMC4153685; 10.1038/nri3702
• Rothenberg, Ellen V. (2014) The chromatin landscape and transcription factors in T cell programming; Trends in Immunology; Vol. 35; No. 5; 195-204; PMCID PMC4039984; 10.1016/j.it.2014.03.001
• Rothenberg, Ellen V. (2014) Transcriptional Control of Early T and B Cell Developmental Choices; Annual Review of Immunology; Vol. 32; 283-321; PMCID PMC3994230; 10.1146/annurev-immunol-032712-100024
• Rothenberg, Ellen V. (2013) Epigenetic mechanisms and developmental choice hierarchies in T-lymphocyte development; Briefings in Functional Genomics; Vol. 12; No. 6; 512-524; PMCID PMC3838197; 10.1093/bfgp/elt027
• Rothenberg, Ellen V. and Champhekar, Ameya, et el. (2013) Transcriptional Establishment of Cell-Type Identity: Dynamics and Causal Mechanisms of T-Cell Lineage Commitment; Cold Spring Harbor Symposia on Quantitative Biology; Vol. 78; 1-11; PMCID PMC3990665; 10.1101/sqb.2013.78.020271
• Kueh, Hao Yuan and Champhekhar, Ameya, et el. (2013) Positive Feedback Between PU.1 and the Cell Cycle Controls Myeloid Differentiation; Science; Vol. 341; No. 6146; 670-673; PMCID PMC3913367; 10.1126/science.1240831
• Li, Long and Zhang, Jingli A., et el. (2013) A far downstream enhancer for murine Bcl11b controls its T-cell specific expression; Blood; Vol. 122; No. 6; 902-911; PMCID PMC3739036; 10.1182/blood-2012-08-447839
• Rothenberg, Ellen (2013) Transcriptional and epigenetic thresholds for entry to the T-cell developmental program; Experimental Hematology; Vol. 41; No. 8; S8
• Yui, Mary A. and Feng, Ni, et el. (2013) Loss of T Cell Progenitor Checkpoint Control Underlies Leukemia Initiation in Rag1-Deficient Nonobese Diabetic Mice; Journal of Immunology; Vol. 190; No. 7; 3276-3288; PMCID PMC3608698; 10.4049/jimmunol.1202970
• Del Real, Marissa Morales and Rothenberg, Ellen V. (2013) Architecture of a lymphomyeloid developmental switch controlled by PU.1, Notch and Gata3; Development; Vol. 140; No. 6; 1207-1219; PMCID PMC3585658; 10.1242/dev.088559
• Rothenberg, Ellen V. (2013) GATA-3 locks the door to the B-cell option; Blood; Vol. 121; No. 10; 1673-1674; PMCID PMC3591792; 10.1182/blood-2013-01-477737
• Manesso, Erica and Chickarmane, Vijay, et el. (2013) Computational modelling of T-cell formation kinetics: output regulated by initial proliferation-linked deferral of developmental competence; Journal of the Royal Society Interface; Vol. 10; No. 78; Art. No. 20120774; PMCID PMC3565808; 10.1098/rsif.2012.0774
• Zarnegar, M. A. and Rothenberg, E. V. (2012) Ikaros represses and activates PU.1 cell-type-specifically through the multifunctional Sfpi1 URE and a myeloid specific enhancer; Oncogene; Vol. 31; No. 43; 4647-4654; PMCID PMC3679182; 10.1038/onc.2011.597
• Zhang, Jingli A. and Mortazavi, Ali, et el. (2012) Dynamic Transformations of Genome-wide Epigenetic Marking and Transcriptional Control Establish T Cell Identity; Cell; Vol. 149; No. 2; 467-482; PMCID PMC3336965; 10.1016/j.cell.2012.01.056
• Rothenberg, Ellen V. (2012) Transcriptional drivers of the T-cell lineage program; Current Opinion in Immunology; Vol. 24; No. 2; 132-138; PMCID PMC3319509; 10.1016/j.coi.2011.12.012
• Kueh, Hao Yuan and Rothenberg, Ellen V. (2012) Regulatory gene network circuits underlying T cell development from multipotent progenitors; Wiley Interdisciplinary Reviews. Systems Biology and Medicine; Vol. 4; No. 1; 79-102; PMCID PMC3242926; 10.1002/wsbm.162
• Rothenberg, Ellen V. and Zhang, Jingli A. (2012) T-cell identity and epigenetic memory; ISBN 9783642241024; Epigenetic Regulation of Lymphocyte Development; 117-143; PMCID PMC3679184; 10.1007/82_2011_168
• Rothenberg, Ellen V. (2011) T Cell Lineage Commitment: Identity and Renunciation; Journal of Immunology; Vol. 186; No. 12; 6649-6655; PMCID PMC3111953; 10.4049/jimmunol.1003703
• Feng, Ni and Vegh, Patricia, et el. (2011) Lineage Divergence at the First TCR-Dependent Checkpoint: Preferential γδ and Impaired αβ T Cell Development in Nonobese Diabetic Mice; Journal of Immunology; Vol. 186; No. 2; 826-837; PMCID PMC4087166; 10.4049/jimmunol.1002630
• Rothenberg, Ellen V. (2010) Lineage determination in the immune system; Immunological Reviews; Vol. 238; No. 1; 5-11; PMCID PMC3058842; 10.1111/j.1600-065X.2010.00965.x
• Rothenberg, Ellen V. and Zhang, Jingli, et el. (2010) Multilayered specification of the T-cell lineage fate; Immunological Reviews; Vol. 238; No. 1; 150-168; PMCID PMC2965335; 10.1111/j.1600-065X.2010.00964.x
• Zarnegar, Mark A. and Chen, Jing, et el. (2010) Cell-Type-Specific Activation and Repression of PU.1 by a Complex of Discrete, Functionally Specialized cis-Regulatory Elements; Molecular and Cellular Biology; Vol. 30; No. 20; 4922-1939; PMCID PMC2950536; 10.1128/MCB.00354-10
• Li, Long and Leid, Mark, et el. (2010) An Early T Cell Lineage Commitment Checkpoint Dependent on the Transcription Factor Bcl11b; Science; Vol. 329; No. 5987; 89-93; PMCID PMC2935300; 10.1126/science.1188989
• Rothenberg, Ellen V. (2010) B cell specification from the genome up; Nature Immunology; Vol. 11; No. 7; 572-574; 10.1038/ni0710-572
• Yui, Mary A. and Feng, Ni, et el. (2010) Fine-Scale Staging of T Cell Lineage Commitment in Adult Mouse Thymus; Journal of Immunology; Vol. 185; No. 1; 284-293; PMCID PMC4091773; 10.4049/jimmunol.1000679
• Rothenberg, Ellen V. and Murre, Cornelis (2010) Editorial overview; Current Opinion in Immunology; Vol. 22; No. 2; 145-147; 10.1016/j.coi.2010.03.002
• Rothenberg, Ellen V. and Murre, Cornelis (2010) Lymphocyte development; Current Opinion in Immunology; Vol. 22; No. 2; 145-147; 10.1016/j.coi.2010.03.002
• Novak, Thomas J. and Rothenberg, Ellen V. (2009) Differential Transient and Long-Term Expression of DNA Sequences Introduced into T-Lymphocyte Lines; DNA; Vol. 5; No. 6; 439-451; 10.1089/dna.1.1986.5.439
• Rothenberg, Ellen V. (2009) Decision by committee: new light on the CD4/CD8-lineage choice; Immunology and Cell Biology; Vol. 87; No. 2; 109-112; 10.1038/icb.2008.100
• David-Fung, Elizabeth-Sharon and Butler, Robert, et el. (2009) Transcription factor expression dynamics of early T-lymphocyte specification and commitment; Developmental Biology; Vol. 325; No. 2; 444-467; PMCID PMC2663971; 10.1016/j.ydbio.2008.10.021
• Georgescu, Constantin and Longabaugh, William J. R., et el. (2008) A gene regulatory network armature for T lymphocyte specification; Proceedings of the National Academy of Sciences of the United States of America; Vol. 105; No. 51; 20100-20105; PMCID PMC2629331; 10.1073/pnas.0806501105
• Taghon, Tom and Rothenberg, Ellen V. (2008) Molecular mechanisms that control mouse and human TCR-αβ and TCR-γδ T cell development; Seminars In Immunopathology; Vol. 30; No. 4; 383-398; 10.1007/s00281-008-0134-3
• Guo, Yalin and Maillard, Ivan, et el. (2008) Core binding factors are necessary for natural killer cell development, and cooperate with Notch signaling during T cell specification; Blood; Vol. 112; No. 3; 480-492; PMCID PMC2481540; 10.1182/blood-2007-10-120261
• Rothenberg, Ellen V. and Scripture-Adams, Deirdre D. (2008) Competition and collaboration: GATA-3, PU.1, and Notch signaling in early T-cell fate determination; Seminars in Immunology; Vol. 20; No. 4; 236-246; PMCID PMC2634812; 10.1016/j.smim.2008.07.006
• Rothenberg, Ellen V. (2008) Erg in stem cells: a function emerges; Nature Immunology; Vol. 9; No. 7; 714-716; 10.1038/ni0708-714
• Rothenberg, Ellen V. and Moore, Jonathan E., et el. (2008) Launching the T-cell-lineage developmental programme; Nature Reviews. Immunology; Vol. 8; No. 1; 9-21; PMCID PMC3131407; 10.1038/nri2232
• Rothenberg, Ellen V. and Yui, Mary A. (2008) Development of T cells; ISBN 9780781765190; Fundamental Immunology, Sixth Edition; 376-406
• Taghon, Tom and Yui, Mary A., et el. (2007) Mast cell lineage diversion of T lineage precursors by the essential T cell transcription factor GATA-3; Nature Immunology; Vol. 8; No. 8; 845-855; PMCID PMC3140173; 10.1038/ni1486
• Tydell, C. C. and David-Fung, Elizabeth-Sharon, et el. (2007) Molecular Dissection of Prethymic Progenitor Entry into the T Lymphocyte Developmental Pathway; Journal of Immunology; Vol. 179; No. 1; 421-438; 10.4049/jimmunol.179.1.421
• Rothenberg, Ellen V. (2007) Regulatory factors for initial T lymphocyte lineage specification; Current Opinion in Hematology; Vol. 14; No. 4; 322-329; 10.1097/MOH.0b013e3281de72a8
• Rothenberg, Ellen V. (2007) Negotiation of the T Lineage Fate Decision by Transcription-Factor Interplay and Microenvironmental Signals; Immunity; Vol. 26; No. 6; 690-702; 10.1016/j.immuni.2007.06.005
• Rothenberg, Ellen V. (2007) Cell lineage regulators in B and T cell development; Nature Immunology; Vol. 8; No. 5; 441-444; 10.1038/ni1461
• Franco, Christopher B. and Scripture-Adams, Dierdre D., et el. (2006) Notch/Delta signaling constrains reengineering of pro-T cells by PU.1; Proceedings of the National Academy of Sciences of the United States of America; Vol. 103; No. 32; 11993-11998; PMCID PMC1567686; 10.1073/pnas.0601188103
• Wang, Duncheng and Claus, Carol L., et el. (2006) The Basic Helix-Loop-Helix Transcription Factor HEBAlt Is Expressed in Pro-T Cells and Enhances the Generation of T Cell Precursors; Journal of Immunology; Vol. 177; No. 1; 109-119; 10.4049/jimmunol.177.1.109
• David-Fung, Elizabeth-Sharon and Yui, Mary A., et el. (2006) Progression of regulatory gene expression states in fetal and adult pro-T-cell development; Immunological Reviews; Vol. 209; No. 1; 212-236; PMCID PMC4157939; 10.1111/j.0105-2896.2006.00355.x
• Taghon, Tom and Yui, Mary A., et el. (2006) Developmental and Molecular Characterization of Emerging β- and γδ-Selected Pre-T Cells in the Adult Mouse Thymus; Immunity; Vol. 24; No. 1; 53-64; 10.1016/j.immuni.2005.11.012
• Adachi, Satoko and Rothenberg, Ellen V. (2005) Cell-type-specific epigenetic marking of the IL2 gene at a distal cis-regulatory region in competent, nontranscribing T-cells; Nucleic Acids Research; Vol. 33; No. 10; 3200-3210; PMCID PMC1142491; 10.1093/nar/gki637
• Dionne, Christopher J. and Tse, Kevin Y., et el. (2005) Subversion of T lineage commitment by PU.1 in a clonal cell line system; Developmental Biology; Vol. 280; No. 2; 448-466; 10.1016/j.ydbio.2005.01.027
• Taghon, Tom N. and David, Elizabeth-Sharon, et el. (2005) Delayed, asynchronous, and reversible T-lineage specification induced by Notch/Delta signaling; Genes and Development; Vol. 19; No. 8; 965-978; PMCID PMC1080135; 10.1101/gad.1298305
• Rothenberg, Ellen V. and Taghon, Tom (2005) Molecular Genetics of T Cell Development; Annual Review of Immunology; Vol. 23; 601-649; 10.1146/annurev.immunol.23.021704.115737
• Rothenberg, Ellen V. (2005) Thymic Regulation--Hidden in Plain Sight; Science; Vol. 307; No. 5711; 858-859; 10.1126/science.1109501
• Yui, Mary A. and Rothenberg, Ellen V. (2004) Deranged Early T Cell Development in Immunodeficient Strains of Nonobese Diabetic Mice; Journal of Immunology; Vol. 173; No. 9; 5381-5391; 10.4049/jimmunol.173.9.5381
• Rothenberg, Ellen V. and Pant, Rashmi (2004) Origins of lymphocyte developmental programs: transcription factor evidence; Seminars in Immunology; Vol. 16; No. 4; 227-238; 10.1016/j.smim.2004.08.002
• Anderson, Michele K. and Pant, Rashmi, et el. (2004) Evolutionary Origins of Lymphocytes: Ensembles of T Cell and B Cell Transcriptional Regulators in a Cartilaginous Fish; Journal of Immunology; Vol. 172; No. 10; 5851-5860; 10.4049/jimmunol.172.10.5851
• Yui, Mary A. and Sharp, Leslie L., et el. (2004) Preferential Activation of an IL-2 Regulatory Sequence Transgene in TCRγδ and NKT Cells: Subset-Specific Differences in IL-2 Regulation; Journal of Immunology; Vol. 172; No. 8; 4691-4699; 10.4049/jimmunol.172.8.4691
• Telfer, J. C. and Hedblom, E. E., et el. (2004) Localization of the Domains in Runx Transcription Factors Required for the Repression of CD4 in Thymocytes; Journal of Immunology; Vol. 172; No. 7; 4359-4370; 10.4049/jimmunol.172.7.4359
• Rothenberg, Ellen V. (2004) From totipotency to T in a dish; Nature Immunology; Vol. 5; No. 4; 359-360; 10.1038/ni0404-359
• Hernández-Hoyos, Gabriela and Anderson, Michele K., et el. (2003) GATA-3 Expression Is Controlled by TCR Signals and Regulates CD4/CD8 Differentiation; Immunity; Vol. 19; No. 1; 83-94; 10.1016/S1074-7613(03)00176-6
• Warren, Luigi A. and Rothenberg, Ellen V. (2003) Regulatory coding of lymphoid lineage choice by hematopoietic transcription factors; Current Opinion in Immunology; Vol. 15; No. 2; 166-175; 10.1016/S0952-7915(03)00011-6
• Rothenberg, Ellen V. and Yui, Mary A., et el. (2003) T-Cell Developmental Biology; ISBN 9780781735148; Fundamental Immunology, Fifth Edition; 259-301
• Rothenberg, Ellen V. (2002) T-lineage specification and commitment: a gene regulation perspective; Seminars in Immunology; Vol. 14; No. 6; 431-440; 10.1016/S1044532302000787
• Rothenberg, Ellen V. and Dionne, Christopher J. (2002) Lineage plasticity and commitment in T-cell development; Immunological Reviews; Vol. 187; No. 1; 96-115; 10.1034/j.1600-065X.2002.18709.x
• Anderson, Michele K. and Hernandez-Hoyos, Gabriela, et el. (2002) Definition of Regulatory Network Elements for T Cell Development by Perturbation Analysis with PU.1 and GATA-3; Developmental Biology; Vol. 246; No. 1; 103-121; 10.1006/dbio.2002.0674
• Rothenberg, Ellen V. and Anderson, Michele K. (2002) Elements of Transcription Factor Network Design for T-Lineage Specification; Developmental Biology; Vol. 246; No. 1; 29-44; 10.1006/dbio.2002.0667
• Anderson, Michele K. and Weiss, Angela H., et el. (2002) Constitutive Expression of PU.1 in Fetal Hematopoietic Progenitors Blocks T Cell Development at the Pro-T Cell Stage; Immunity; Vol. 16; No. 2; 285-296; 10.1016/S1074-7613(02)00277-7
• Rothenberg, Ellen V. (2001) Mapping of complex regulatory elements by pufferfish/zebrafish transgenesis; Proceedings of the National Academy of Sciences of the United States of America; Vol. 98; No. 12; 6540-6542; PMCID PMC34387
• Makita, Takako and Hernandez-Hoyos, Gabriela, et el. (2001) A developmental transition in definitive erythropoiesis: erythropoietin expression is sequentially regulated by retinoic acid receptors and HNF4; Genes and Development; Vol. 15; No. 7; 889-901; PMCID PMC312661; 10.1101/gad.871601
• Miracle, Ann L. and Anderson, Michele K., et el. (2001) Complex expression patterns of lymphocyte-specific genes during the development of cartilaginous fish implicate unique lymphoid tissues in generating an immune repertoire; International Immunology; Vol. 13; No. 4; 567-580; 10.1093/intimm/13.4.567
• Rothenberg, Ellen V. (2001) Notchless T cell maturation?; Nature Immunology; Vol. 2; No. 3; 189-190; 10.1038/85231
• Yui, Mary A. and Hernández-Hoyos, Gabriela, et el. (2001) A New Regulatory Region of the IL-2 Locus That Confers Position-Independent Transgene Expression; Journal of Immunology; Vol. 166; No. 3; 1730-1739; 10.4049/jimmunol.166.3.1730
• Chen, Fei and Rowen, Lee, et el. (2001) Differential Transcriptional Regulation of Individual TCR V Segments Before Gene Rearrangement; Journal of Immunology; Vol. 166; No. 3; 1771-1780; 10.4049/jimmunol.166.3.1771
• Anderson, Michele K. and Sun, Xiao, et el. (2001) Evolution of hematopoiesis: Three members of the PU.1 transcription factor family in a cartilaginous fish, Raja eglanteria; Proceedings of the National Academy of Sciences of the United States of America; Vol. 98; No. 2; 553-558; PMCID PMC14625; 10.1073/pnas.021478998
• Telfer, Janice C. and Rothenberg, Ellen V. (2001) Expression and Function of a Stem Cell Promoter for the Murine CBFα2 Gene: Distinct Roles and Regulation in Natural Killer and T Cell Development; Developmental Biology; Vol. 229; No. 2; 363-382; 10.1006/dbio.2000.9991
• Rothenberg, Ellen V. (2000) Stepwise specification of lymphocyte developmental lineages; Current Opinion in Genetics and Development; Vol. 10; No. 4; 370-379; 10.1016/S0959-437X(00)00098-8
• Hernández-Hoyos, Gabriela and Sohn, Sue J., et el. (2000) Lck Activity Controls CD4/CD8 T Cell Lineage Commitment; Immunity; Vol. 12; No. 3; 313-322; 10.1016/S1074-7613(00)80184-3
• Anderson, M. K. and Rothenberg, E. V. (2000) Transcription Factor Expression in Lymphocyte Development: Clues to the Evolutionary Origins of Lymphoid Cell Lineages?; ISBN 978-3-642-64078-0; Origin and Evolution of the Vertebrate Immune System; 137-155; 10.1007/978-3-642-59674-2_7
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• Anderson, Michele K. and Hernandez-Hoyos, Gabriela, et el. (1999) Precise developmental regulation of Ets family transcription factors during specification and commitment to the T cell lineage; Development; Vol. 126; No. 14; 3131-3148
• Chen, Fei and Chen, Dan, et el. (1999) Specific regulation of Fos family transcription factors in thymocytes at two developmental checkpoints; International Immunology; Vol. 11; No. 5; 677-688; 10.1093/intimm/11.5.677
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• Ward, Susan B. and Hernandez-Hoyos, Gabriela, et el. (1998) Chromatin remodeling of the interleukin-2 gene: distinct alterations in the proximal versus distal enhancer regions; Nucleic Acids Research; Vol. 26; No. 12; 2923-2934; PMCID PMC147656
• Wang, Hua and Diamond, Rochelle A., et el. (1998) Cross-lineage expression of Ig-beta (B29) in thymocytes: Positive and negative gene regulation to establish T cell identity; Proceedings of the National Academy of Sciences of the United States of America; Vol. 95; No. 12; 6831-6836; PMCID PMC22652
• Yang-Snyder, Julia A. and Rothenberg, Ellen V. (1998) Spontaneous Expression of Interleukin-2 In Vivo in Specific Tissues of Young Mice; Developmental Immunology; Vol. 5; No. 4; 223-245; PMCID PMC2275993; 10.1155/1998/12421
• Diamond, Rochelle A. and Ward, Susan B., et el. (1997) Different Developmental Arrest Points in RAG-2 -/- and SCID Thymocytes on Two Genetic Backgrounds Developmental Choices and Cell Death Mechanisms before TCR Gene Rearrangement; Journal of Immunology; Vol. 158; No. 9; 4052-4064
• Rothenberg, Ellen V. and Ward, Susan B. (1996) A dynamic assembly of diverse transcription factors integrates activation and cell-type information for interleukin 2 gene regulation; Proceedings of the National Academy of Sciences of the United States of America; Vol. 93; No. 18; 9358-9365; PMCID PMC38432
• Rothenberg, Ellen V. (1996) How T Cells Count; Science; Vol. 273; No. 5271; 78-79; 10.1126/science.273.5271.78
• Reya, Tannishtha and Yang-Snyder, Julia A., et el. (1996) Regulated expression and function of CD122 (interleukin-2/interleukin-15R-β) during lymphoid development; Blood; Vol. 87; No. 1; 190-201
• Lindenboim, Liora and Diamond, Rochelle, et el. (1995) Apoptosis Induced by Serum Deprivation of PC12 Cells Is Not Preceded by Growth Arrest and Can Occur at Each Phase of the Cell Cycle; Cancer Research; Vol. 55; No. 6; 1242-1247
• Rothenberg, Ellen V. (1994) Signaling mechanisms in thymocyte selection; Current Opinion in Immunology; Vol. 6; No. 2; 257-265; 10.1016/0952-7915(94)90099-X
• Chen, Dan and Rothenberg, Ellen V. (1994) Interleukin 2 transcription factors as molecular targets of cAMP inhibition: delayed inhibition kinetics and combinatorial transcription roles; Journal of Experimental Medicine; Vol. 179; No. 3; 931-942; PMCID PMC2191402; 10.1084/jem.179.3.931
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• Rothenberg, Ellen V. and Diamond, Rochelle A. (1994) Costimulation by interleukin-1 of multiple activation responses in a developmentally restricted subset of immature thymocytes; European Journal of Immunology; Vol. 24; No. 1; 24-33; 10.1002/eji.1830240105
• Rothenberg, Ellen V. and Chen, Dan, et el. (1993) Functional and phenotypic analysis of thymocytes in SCID mice. Evidence for functional response transitions before and after the SCID arrest point; Journal of Immunology; Vol. 151; No. 7; 3530-3546
• Chen, Dan and Rothenberg, Ellen V. (1993) Molecular basis for developmental changes in interleukin-2 gene inducibility; Molecular and Cellular Biology; Vol. 13; No. 1; 228-237; PMCID PMC358902
• Yang-Snyder, Julia A. and Rothenberg, Ellen V. (1993) Developmental and Anatomical Patterns Of IL-2 Gene Expression in Vivo in The Murine Thymus; Developmental Immunology; Vol. 3; No. 2; 85-102; PMCID PMC2275923; 10.1155/1993/86096
• Rothenberg, Ellen V. (1992) The Development of Functionally Responsive T Cells; ISBN 978-0-12-022451-7; Advances in Immunology; 85-214; 10.1016/S0065-2776(08)60487-3
• Novak, Thomas J. and Yoshimura, Fayth K., et el. (1992) In vitro transfection of fresh thymocytes and T cells shows subset-specific expression of viral promoters; Molecular and Cellular Biology; Vol. 12; No. 4; 1515-1527; PMCID PMC369593
• Rothenberg, Ellen V. and Chen, Dan, et el. (1991) Acquisition of Mature Functional Responsiveness in T Cells: Programming for Function via Signaling; ISBN 978-1-4684-5945-6; Mechanisms of Lymphocyte Activation and Immune Regulation III; 71-83; 10.1007/978-1-4684-5943-2_9
• Novak, Thomas J. and Rothenberg, Ellen V. (1990) cAMP inhibits induction of interleukin 2 but not of interleukin 4 in T cells; Proceedings of the National Academy of Sciences of the United States of America; Vol. 87; No. 23; 9353-9357; PMCID PMC55163; 10.1073/pnas.87.23.9353
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• Rothenberg, Ellen V. (1990) Death and transfiguration of cortical thymocytes: a reconsideration; Immunology Today; Vol. 11; No. 4; 116-119; 10.1016/0167-5699(90)90047-D
• Rothenberg, Ellen V. and Diamond, Rochelle A., et el. (1990) IL-2 gene inducibility in T cells before T cell receptor expression. Changes in signaling pathways and gene expression requirements during intrathymic maturation; Journal of Immunology; Vol. 144; No. 5; 1614-1624
• Boyer, Paul D. and Diamond, Rochelle A., et el. (1989) Changes in inducibility of IL-2 receptor alpha-chain and T cell-receptor expression during thymocyte differentiation in the mouse; Journal of Immunology; Vol. 142; No. 12; 4124-4130
• Rothenberg, Ellen V. (1989) The long road to functional maturity for developing T cells; Immunology Today; Vol. 10; No. 4; 116-117; 10.1016/0167-5699(89)90243-0
• McGuire, Kathleen L. and Yang, Julia A., et el. (1988) Influence of activating stimulus on functional phenotype: Interleukin 2 mRNA accumulation differentially induced by ionophore and receptor ligands in subsets of murine T cells; Proceedings of the National Academy of Sciences of the United States of America; Vol. 85; No. 17; 6503-6507; PMCID PMC282001
• Rothenberg, Ellen V. and McGuire, Kathleen L., et el. (1988) Molecular Indices of Functional Competence in Developing T Cells; Immunological Reviews; Vol. 104; No. 1; 29-53; 10.1111/j.1600-065X.1988.tb00758.x
• Boyer, Paul D. and Rothenberg, Ellen V. (1988) IL-2 receptor inducibility is blocked in cortical-type thymocytes; Journal of Immunology; Vol. 140; No. 9; 2886-2892
• Kinnon, Christine and McGuire, Kathleen L., et el. (1987) Differential regulation of T cell receptor gamma genes in immature thymocyte populations; European Journal of Immunology; Vol. 17; No. 9; 1265-1269; 10.1002/eji.1830170908
• McGuire, Kathleen L. and Rothenberg, Ellen V. (1987) Inducibility of interleukin-2 RNA expression in individual mature and immature T lymphocytes; EMBO Journal; Vol. 6; No. 4; 939-946; PMCID PMC553486
• Haas, Martin and Altman, Amnon, et el. (1987) Radiation leukemia virus and X-irradiation induce in C57BL/6 mice two distinct T-cell neoplasms: A growth factor-dependent lymphoma and a growth factor-independent lymphoma; Leukemia Research; Vol. 11; No. 3; 223-239; 10.1016/0145-2126(87)90046-4
• Kinnon, Christine and Diamond, Rochelle A., et el. (1986) Activation of T cell antigen receptor alpha- and beta-chain genes in the thymus: implications for the lineages of developing cortical thymocytes; Journal of Immunology; Vol. 137; No. 12; 4010-4015
• Lugo, James P. and Krishnan, Santosh N., et el. (1986) Early Precursor Thymocytes Can Produce Interleukin 2 upon Stimulation with Calcium Ionophore and Phorbol Ester; Proceedings of the National Academy of Sciences of the United States of America; Vol. 83; No. 6; 1862-1866; PMCID PMC323184
• Rothenberg, Ellen and Lugo, James P. (1985) Differentiation and cell division in the mammalian thymus; Developmental Biology; Vol. 112; No. 1; 1-17; 10.1016/0012-1606(85)90114-9
• Lugo, J. P. and Krishnan, S. N., et el. (1985) Proliferation of thymic stem cells with and without receptors for interleukin 2. Implications for intrathymic antigen recognition; Journal of Experimental Medicine; Vol. 161; No. 5; 1048-1062; PMCID PMC2187600; 10.1084/jem.161.5.1048
• Caplan, Barry and Rothenberg, Ellen (1984) High-level secretion of interleukin 2 by a subset of proliferating thymic lymphoblasts; Journal of Immunology; Vol. 133; No. 4; 1983-1991
• Haas, Martin and Altman, Amnon, et el. (1984) Mechanism of T-Cell Lymphomagenesis: Transformation of Growth-Factor-Dependent T-Lymphoblastoma Cells to Growth-Factor-Independent T-Lymphoma Cells; Proceedings of the National Academy of Sciences of the United States of America; Vol. 81; No. 6; 1742-1746; PMCID PMC344995
• Rothenberg, Ellen and Triglia, Dennis (1983) Clonal proliferation unlinked to terminal deoxynucleotidyl transferase synthesis in thymocytes of young mice; Journal of Immunology; Vol. 130; No. 4; 1627-1633
• Rothenberg, E. and Triglia, D. (1983) Lyt-2 glycoprotein is synthesized as a single molecular species; Journal of Experimental Medicine; Vol. 157; No. 1; 365-370; PMCID PMC2186898; 10.1084/jem.157.1.365
• Rothenberg, Ellen (1982) What is the role of T-lymphocyte surveillance in neoplastic disease?; American Journal of Surgery; Vol. 143; No. 6; 664-669; 10.1016/0002-9610(82)90032-0
• Rothenberg, Ellen (1982) A specific biosynthetic marker for immature thymic lymphoblasts. Active synthesis of thymus-leukemia antigen restricted to proliferating cells; Journal of Experimental Medicine; Vol. 155; No. 1; 140-154; PMCID PMC2186575; 10.1084/jem.155.1.140
• Rothenberg, Ellen and Triglia, Dennis (1981) Structure and expression of glycoproteins controlled by the Qa-1^a allele; Immunogenetics; Vol. 14; No. 6; 455-468; 10.1007/BF00350118
• Triglia, Dennis and Rothenberg, Ellen V. (1981) "Mature" thymocytes are not glucocorticoid-resistant in vitro; Journal of Immunology; Vol. 127; No. 1; 64-68
• Michaelson, James and Rothenberg, Ellen, et el. (1980) Genetic polymorphism of murineβ_2-microglobulin detected biochemically; Immunogenetics; Vol. 11-11; No. 1; 93-95; 10.1007/BF01567773
• Rothenberg, Ellen (1980) Expression of Differentiation Antigens in Subpopulations of Mouse Thymocytes: Regulation at the Level of de Novo Synthesis; Cell; Vol. 20; No. 1; 1-9; 10.1016/0092-8674(80)90228-7
• Rothenberg, Ellen and Triglia, Dennis (1980) In vitro maintenance of differentiation marker synthesis by subpopulations of mouse thymocytes; Journal of Supramolecular Structure; Vol. 14; No. 3; 371-382; 10.1002/jss.400140310
• Rothenberg, E. and Boyser, Edward A. (1979) Synthesis and processing of molecules bearing thymus leukemia antigen; Journal of Experimental Medicine; Vol. 150; No. 4; 777-791; PMCID PMC2185687; 10.1084/jem.150.4.777
• Baltimore, D. and Gilboa, E., et el. (1979) Production of a Discrete, Infectious, Double-stranded DNA by Reverse Transcription in Virions of Moloney Murine Leukemia Virus; Cold Spring Harbor Symposia on Quantitative Biology; Vol. 43; No. 0; 869-874; 10.1101/SQB.1979.043.01.093
• Donoghue, Daniel J. and Rothenberg, Ellen, et el. (1978) Heteroduplex Analysis of the Nonhomology Region between Moloney MuLV and the Dual Host Range Derivative HIX Virus; Cell; Vol. 14; No. 4; 959-970; 10.1016/0092-8674(78)90350-1
• Shields, Anthony and Witte, Owen N., et el. (1978) High frequency of aberrant expression of moloney murine leukemia virus in clonal infections; Cell; Vol. 14; No. 3; 601-609; 10.1016/0092-8674(78)90245-3
• Rothenberg, Ellen and Donoghue, Daniel J., et el. (1978) Analysis of a 5' Leader Sequence on Murine Leukemia Virus 21S RNA: Heteroduplex Mapping with Long Reverse Transcriptase Products; Cell; Vol. 13; No. 3; 435-451; 10.1016/0092-8674(78)90318-5
• Rothenberg, Ellen and Smotkin, David, et el. (1977) In vitro synthesis of infectious DNA of murine leukaemia virus; Nature; Vol. 269; No. 5624; 122-126; 10.1038/269122a0
• Rothenberg, Ellen and Baltimore, David (1977) Increased Length of DNA Made by Virions of Murine Leukemia Virus at Limiting Magnesium Ion Concentration; Journal of Virology; Vol. 21; No. 1; 168-178; PMCID PMC353803
• Haseltine, William A. and Kleid, Dennis G., et el. (1976) Ordered transcription of RNA tumor virus genomes; Journal of Molecular Biology; Vol. 106; No. 1; 109-131; 10.1016/0022-2836(76)90303-X
• Rothenberg, Ellen and Baltimore, David (1976) Synthesis of Long, Representative DNA Copies of the Murine RNA Tumor Virus Genome; Journal of Virology; Vol. 17; No. 1; 168-174; PMCID PMC515400