Transcription factor EBF1 is essential for the maintenance of B cell identity and prevention of alternative fates in committed cells

Innate lymphoid cells — a proposal for uniform nomenclature

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The Immunological Genome Project: networks of gene expression in immune cells

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The Transcription Factor GATA-3 Controls Cell Fate and Maintenance of Type 2 Innate Lymphoid Cells

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A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate

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Systems-level identification of key transcription factors in immune cell specification

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Integrating transcription-factor abundance with chromatin accessibility in human erythroid lineage commitment

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Genetic and Epigenetic Control of Early Lymphocyte Development

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In vivo CRISPR/Cas9-mediated screen reveals a critical function of TFDP1 and E2F4 transcription factors in hematopoiesis

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Fine-mapping of Antipsychotic Response Genome-wide Association Studies Reveals Novel Regulatory Mechanisms

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Early B Cell Progenitors Deficient for GON4L Fail To Differentiate Due to a Block in Mitotic Cell Division

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Establishment and Maintenance of B Cell IdentityPreprint

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Bone Marrow Niche in Cardiometabolic Disease: Mechanisms and Therapeutic Potential

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Epiregulon: Single-cell transcription factor activity inference to predict drug response and drivers of cell states

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Keratinocytes drive the epithelial hyperplasia key to sea lice resistance in coho salmon

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EBF1 is continuously required for stabilizing local chromatin accessibility in pro-B cells

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Chromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq

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Limitations of CAR-T-Cell Therapy in Hematologic Malignancies: Focusing on Antigen Escape and T-Cell Dysfunction

Lin, Y., Luo, S., Wei, J., Lin, S., Wang, D., Zhao, X., Feng, Z., Shen, Y., & Chen, Q. (2025) · International Journal of Molecular Sciences · doi:10.3390/ijms26199669 · Cited by 12

EBF1-Correlated Long Non-coding RNA Transcript Levels in 3rd Trimester Maternal Blood and Risk of Spontaneous Preterm Birth

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A scalable algorithm for structure identification of complex gene regulatory network from temporal expression data

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B Lymphocyte Specification Is Preceded by Extensive Epigenetic Priming in Multipotent Progenitors

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FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors

Peña‐Pérez, L., Kharazi, S., Frengen, N. S., Krstic, A., Bouderlique, T., Hauenstein, J., He, M., Somuncular, E., Wang, X. L., Dahlberg, C. I. M., et al. (2022) · Frontiers in Immunology · doi:10.3389/fimmu.2022.880668 · Cited by 11

Assessment of DNA methylation in porcine immune cells reveals novel regulatory elements associated with cell-specific gene expression and immune capacity traits

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Ikaros Regulates microRNA Networks in Acute Lymphoblastic Leukemia

Kogut, S., Paculová, H., Rodriguez, P. D., Boyd, J. R., Richman, A. R., Palaria, A., Schjerven, H., & Frietze, S. E. (2022) · Epigenomes · doi:10.3390/epigenomes6040037 · Cited by 11

Zinc Finger Protein 521 Regulates Early Hematopoiesis through Cell-Extrinsic Mechanisms in the Bone Marrow Microenvironment

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Chromodomain helicase DNA‐binding 4 (CHD4) regulates early B cell identity and V(D)J recombination*

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Chronic exposure to IFNα drives medullar lymphopoiesis towards T-cell differentiation in mice

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A regulatory network of microRNAs confers lineage commitment during early developmental trajectories of B and T lymphocytes

Nikhat, S., Yadavalli, A. D., Prusty, A., Narayan, P. K., Palakodeti, D., Murre, C., & Pongubala, J. M. R. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2104297118 · Cited by 10

Noncoding RNAs and Their Response Predictive Value in Azacitidine-treated Patients With Myelodysplastic Syndrome and Acute Myeloid Leukemia With Myelodysplasia-related Changes

Merkerová, M. D., Kléma, J., Kundrát, D., Szikszai, K., Krejčík, Z., Hruštincová, A., Trsová, I., Le, A. V., Čermák, J., Jonasova, A. T., et al. (2022) · Cancer Genomics & Proteomics · doi:10.21873/cgp.20315 · Cited by 10

The transcription factor EBF1 non-cell-autonomously regulates cardiac growth and differentiation

Kim, E. E., Shekhar, A., Ramachandran, J., Khodadadi‐Jamayran, A., Liu, F.-Y., Zhang, J., & Fishman, G. I. (2023) · Development · doi:10.1242/dev.202054 · Cited by 9

PAX5-ESRRB is a recurrent fusion gene in B-cell precursor pediatric acute lymphoblastic leukemia

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The Evolution of Rag Gene Enhancers and Transcription Factor E and Id Proteins in the Adaptive Immune System

Yoshikawa, G., Miyazaki, K., Ogata, H., & Miyazaki, M. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22115888 · Cited by 9

Tnpo3 enables EBF1 function in conditions of antagonistic Notch signalingPreprint

Bayer, M., Boller, S., Ramamoorthy, S., Zolotarev, N., Cauchy, P., Iwanami, N., Mittler, G., Boehm, T. L. J., & Grosschedl, R. (2022) · Genes & Development · doi:10.1101/gad.349696.122 · Cited by 9

Lineage-determining transcription factors constrain cohesin to drive multi-enhancer oncogene regulation

Zhou, Y., Jay, A., Burget, N. G., Friedrich, T., Yoon, S., Alsing, J., Nir, G., Grosschedl, R., Vahedi, G., & Faryabi, R. B. (2025) · Nature Cell Biology · doi:10.1038/s41556-025-01827-2 · Cited by 8

The influence of space and time on the establishment of B cell identity

Elsaid, R., Yang, J., & Cumano, A. (2019) · Biomedical Journal · doi:10.1016/j.bj.2019.07.008 · Cited by 7

Cross-trait genomic modeling reveals the polygenic architecture and systemic impact of MASLD

Du, M., Yuan, H., Wu, T., Jiang, Y., Suo, C., Li, J., Zhang, T., Liu, Z., & Chen, X. (2026) · Science Advances · doi:10.1126/sciadv.aeb5665 · Cited by 7

Indirect Mechanisms of Transcription Factor‐Mediated Gene Regulation during Cell Fate Changes

Larcombe, M. R., Hsu, S., Polo, J. M., & Knaupp, A. S. (2022) · Advanced Genetics · doi:10.1002/ggn2.202200015 · Cited by 9

EBF1 Limits the Numbers of Cochlear Hair and Supporting Cells and Forms the Scala Tympani and Spiral Limbus during Inner Ear Development

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Transcriptional regulation of cathelicidin genes in chicken bone marrow cells

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Spontaneous loss of B lineage transcription factors leads to pre-B leukemia in Ebf1+/–Bcl-xLTg mice

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Responsiveness of chronic lymphocytic leukemia cells to B-cell receptor stimulation is associated with low expression of regulatory molecules of the nuclear factor-κB pathway

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Mechanisms of dexamethasone-induced bone toxicity in developing bone: a single-cell perspective

Warmink, K., Lijnzaad, P., Schubert, S. A., Zhang, B., Vermaat, T. C. W., Jansen, L., van Gend, M. C. C., Balwierz, A., Proost, N., van de Ven, M., et al. (2025) · JBMR Plus · doi:10.1093/jbmrpl/ziaf146 · Cited by 6

Differential carbonic anhydrase activities control EBV-induced B-cell transformation and lytic cycle reactivation

Malik, S., Biswas, J., Sarkar, P., Nag, S., Gain, C., Roy, S. G., Bhattacharya, B., Ghosh, D., & Saha, A. (2024) · PLoS Pathogens · doi:10.1371/journal.ppat.1011998 · Cited by 5

Exploring the multifaceted nature of the common lymphoid progenitor compartment

Jensen, C. T., Strid, T., & Sigvardsson, M. (2016) · Current Opinion in Immunology · doi:10.1016/j.coi.2016.01.009 · Cited by 6

YY1 knockout in pro-B cells impairs lineage commitment, enabling unusual hematopoietic lineage plasticityPreprint

Banerjee, S., Sanyal, S., Hodawadekar, S., Naiyer, S., Bano, N., Banerjee, A., Rhoades, J. H., Dong, D. W., Allman, D., & Atchison, M. L. (2024) · Genes & Development · doi:10.1101/gad.351734.124 · Cited by 6

Enhancer jungles establish robust tissue-specific regulatory control in the human genome

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Ezh2 Represses Transcription of Innate Lymphoid Genes in B Lymphocyte Progenitors and Maintains the B-2 Cell Fate

Jacobsen, J. A., Bartom, E. T., Sigvardsson, M., & Kee, B. L. (2020) · The Journal of Immunology · doi:10.4049/jimmunol.1901188 · Cited by 6

Human B Cell Development and Tolerance

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Immune Cell Development and Epigenetics

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Maintenance of Lineage Identity: Lessons from a B Cell

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Transcriptional Regulation of Early B Cell Development

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CT-FOCS: a novel method for inferring cell type-specific enhancer–promoter maps

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The significance of PAX5 in Merkel cell carcinoma

Chteinberg, E., Kolarova, J., Vogt, J. A., Macamo, A., Bormann, F., Kretzmer, H., Speel, E. M., van den Oord, J., Schneider, C., Stilgenbauer, S., et al. (2025) · The Journal of Pathology · doi:10.1002/path.6410 · Cited by 3

Genomic regions associated with bovine respiratory disease in pacific northwest Holstein cattle

Herrick, A. L., Kiser, J. N., White, S. N., & Neibergs, H. L. (2025) · Frontiers in Veterinary Science · doi:10.3389/fvets.2025.1637087 · Cited by 3

Tumor‐infiltrating B cells participate in shaping the immunosuppressive microenvironment in solid tumors

Li, Z., Shen, Z., Sun, Y., Zhu, P., Liu, T., & Yin, R. H. (2025) · International Journal of Cancer · doi:10.1002/ijc.70166 · Cited by 5

C/EBPα induces Ebf1 gene expression in common lymphoid progenitors

Barberi, T. J., Cui, C., & Friedman, A. D. (2020) · PLoS ONE · doi:10.1371/journal.pone.0244161 · Cited by 3

The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

Charton, C., Youm, D.-J., Ko, B. J., Seol, D., Kim, B., Chai, H., Lim, D., & Kim, H. (2021) · BMC Genomics · doi:10.1186/s12864-021-07903-9 · Cited by 3

HyperIgE in hypomorphic recombination-activating gene defects

Castiello, M. C., Brandas, C., Capo, V., & VILLA, A. M. (2022) · Current Opinion in Immunology · doi:10.1016/j.coi.2022.102279 · Cited by 3

Progression of Notch signaling regulation of B cells under radiation exposure

Shu, X., Wang, J., Zeng, H., & Shao, L. (2024) · Frontiers in Immunology · doi:10.3389/fimmu.2024.1339977 · Cited by 4

Pre-pregnancy gene expression signatures are associated with subsequent improvement/worsening of rheumatoid arthritis during pregnancy

Wright, M., Smed, M. K., Nelson, J. L., Olsen, J., Hetland, M. L., Jewell, N. P., Zoffmann, V., & Jawaheer, D. (2023) · Arthritis Research & Therapy · doi:10.1186/s13075-023-03169-6 · Cited by 3

Enforced MYC expression directs a distinct transcriptional state during plasma cell differentiation

Vardaka, P., Kemp, B., Stephenson, S., Stephenson, S., Care, M. A., Umpierrez, M., O'Callaghan, E., O’Callaghan, E., Owen, R. G., Hodson, D. J., et al. (2025) · Life Science Alliance · doi:10.26508/lsa.202402814 · Cited by 6

IL-7 promotes the formation of DNA double strand breaks and DNA repair in murine pro-B cells

Lamolinara, A., Lisio, C. D., Hixon, J. A., Simeone, P., Cola, A. D., Falco, M. D., Meyer, T. J., Ferrone, A., Genovesi, D., Lanuti, P., et al. (2025) · Frontiers in Immunology · doi:10.3389/fimmu.2025.1633892 · Cited by 2

Early B-Cell Factor 1: An Archetype for a Lineage-Restricted Transcription Factor Linking Development to Disease

Sigvardsson, M. (2024) · Advances in experimental medicine and biology · doi:10.1007/978-3-031-62731-6_7 · Cited by 2

Aberrant heterochromatin silences immune response genes in chronic lymphocytic leukemia

Depies, O. M., Guo, Q., Gao, Y., Sinha, S., Ye, Z., Han, W., Rabe, K. G., Hoel, M. S., Darby, H. C., Yu, C., et al. (2024) · Blood Neoplasia · doi:10.1016/j.bneo.2024.100059 · Cited by 2

Building a bovine blood DNA methylation epimap related to disease phenotypes

Bouzeraa, L., Martin, H., Marques, J. C. S., Cerri, R. L. A., & Sirard, M. (2025) · BMC Genomics · doi:10.1186/s12864-025-12112-9 · Cited by 2

EBF1 Exhibits Crosstalk Regulation with ERα and ERβ in Some Hormone-Based Cancers

Lotesto, M. J., & Raimondi, S. L. (2020) · OBM Genetics · doi:10.21926/obm.genet.2004117 · Cited by 2

Identifying the Immunological Gene Signatures of Immune Cell Subtypes

Zhang, Y., Li, Z., Zeng, T., Lu, W., Huang, T., & Cai, Y. (2021) · BioMed Research International · doi:10.1155/2021/6639698 · Cited by 2

Transcriptional Regulation of Early B-Cell Development

Ng, A. P., Morris, R., & Nutt, S. L. (2024) · Elsevier eBooks · doi:10.1016/b978-0-323-95895-0.00014-3 · Cited by 2

CaSSiDI: novel single-cell “Cluster Similarity Scoring and Distinction Index” reveals critical functions for PirB and context-dependent Cebpb repression

Nechanitzky, R., Ramachandran, P., Nechanitzky, D., Li, W. Y., Wakeham, A. C., Haight, J., Saunders, M. E., Epelman, S., & Mak, T. W. (2024) · Cell Death and Differentiation · doi:10.1038/s41418-024-01268-8 · Cited by 2

A new computational method to predict transcriptional activity of a DNA sequence from diverse datasets of massively parallel reporter assays

Liu, Y., Irie, T., Yada, T., & Suzuki, Y. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx396 · Cited by 2

Tree-Based Co-Clustering Identifies Chromatin Accessibility Patterns Associated With Hematopoietic Lineage Structure

George, T. B., Strawn, N. K., & Leviyang, S. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.707117 · Cited by 2

B-lineage commitment is dependent on a reversible epigenetic switchPreprint

Tingvall-Gustafsson, J., Hellerstedt, K., Ungerbäck, J., & Sigvardsson, M. (2025) · Genes & Development · doi:10.1101/gad.353002.125 · Cited by 2

Single‐cell analysis reveals cytotoxic and memory CD8 + T cells associated with prolonged survival in relapsed/refractory leukaemia patients after haplo+cord haematopoietic stem cell transplantation

Li, H., Zhang, Z., Zhu, M., Li, X., Dai, J., Chen, P., Chen, F., Chen, X., Yang, Y., Yuan, X., et al. (2026) · Clinical and Translational Medicine · doi:10.1002/ctm2.70529 · Cited by 1

CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determination

Bai, W., Yang, Y., Zhao, Y., Gong, Lu, Y., Xue, Z., Wang, L., Meng, F., Chen, C., & Dong, J. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag125 · Cited by 2

Single-cell epigenetic and transcriptomic states across the continuum of monoclonal B cell lymphocytosis to chronic lymphocytic leukemia

Rathgeber, A. C., Fernandes, S. M., Nagler, A., Li, S., Dorfman, D. M., Bullinger, L., Davids, M. S., Brown, J. R., Livak, K. J., Ludwig, L. S., et al. (2026) · Genome biology · doi:10.1186/s13059-026-04072-4 · Cited by 1

Properz über seine Dichtung

Syndikus, H. P. (2008) · Gymnasium · Cited by 1

Synergistic and antagonistic activities of IRF8 and FOS enhancer pairs during an immune-cell fate switch

Klonizakis, A., Alcoverro-Bertran, M., Massó, P., Thomas, J., de Andrés-Aguayo, L., Wei, X., Varamogianni‐Mamatsi, V., Nikolaou, C., & Graf, T. (2025) · The EMBO Journal · doi:10.1038/s44318-025-00380-w · Cited by 1

Chromatin interaction-based annotation of regulatory elements reveals dynamic promoter-enhancer interactions in lymphocyte development

Tingvall-Gustafsson, J., Jensen, C. T., Ungerbäck, J., & Sigvardsson, M. (2025) · iScience · doi:10.1016/j.isci.2025.112855 · Cited by 1

Cell Lineage Choice During Haematopoiesis: A Commemorative Issue in Honor of Professor Antonius Rolink

Brown, G., & Ceredig, R. (2018) · MDPI eBooks · doi:10.3390/books978-3-03897-275-4 · Cited by 1

Enforced MYC expression selectively redirects transcriptional programs during human plasma cell differentiationPreprint

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Heterogeneity in chromatin structure drives core regulatory pathways in B-cell Acute Lymphoblastic LeukemiaPreprint

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Additional file 2 of Pre-pregnancy gene expression signatures are associated with subsequent improvement/worsening of rheumatoid arthritis during pregnancy

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Additional file 4 of Pre-pregnancy gene expression signatures are associated with subsequent improvement/worsening of rheumatoid arthritis during pregnancy

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Transcription factor EBF restricts alternative lineage options and promotes B cell fate commitment independently of Pax5

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Combined heterozygous loss of Ebf1 and Pax5 allows for T-lineage conversion of B cell progenitors

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EBF Deficient Hematopoietic Progenitor Cells Potentialy Differentiated into Immature B Cell: EBF1 Dispensable for B Cell Linage Commitment from Pro-B to Pre-B Stage

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