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Research
  1. Queen Mary University of London
  2. Research
  3. Publications

Publications: Dr Mirjana Efremova

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Vyas V, Sandhar B, Keane JM, Wood EG, Blythe H, Jones A, Shahaj E, Fanti S et al. ( 2024 ) . Tissue-resident memory T cells in epicardial adipose tissue comprise transcriptionally distinct subsets that are modulated in atrial fibrillation . Nature Cardiovascular Research vol. 3 , ( 9 ) 1067 - 1082 .
Efremova M ( 2023 ) . The role of colorectal cancer plasticity in metastasis and treatment: an interview with Mirjana Efremova . Colorectal Cancer vol. 12 , ( 4 )
Zhang Z, Sun H, Mariappan R, Chen X, Chen X, Jain MS, Efremova M, Teichmann SA et al. ( 2023 ) . scMoMaT jointly performs single cell mosaic integration and multi-modal bio-marker detection . Nature Communications vol. 14 , ( 1 )
Ganuza M, Sanchez-Lanzas R, Jimenez-Pompa A, Efremova M ( 2023 ) . 1009 – GENETIC IDENTIFICATION OF THE CELLULAR INTERACTOME THAT SUPPORTS T-CELL DEVELOPMENT IN THE THYMUS . Experimental Hematology vol. 124 ,
Ganuza M, Sanchez-Lanzas R, Jimenez-Pompa A, Efremova M ( 2023 ) . GENETIC IDENTIFICATION OF THE CELLULAR INTERACTOME THAT SUPPORTS T-CELL DEVELOPMENT IN THE THYMUS . EXPERIMENTAL HEMATOLOGY . vol. 124 , S24 - S24 .
Perrett M, Pickard L, Kumar E, Palladino G, Khan F, Edmondson C, Knight C, Poynton E et al. ( 2022 ) . Longitudinal Single Cell Analyses Reveal the Co-Evolutionary Dynamics of the Tumor and Microenvironment Accompanying Follicular Lymphoma Transformation . Blood vol. 140 , ( Supplement 1 ) 748 - 749 .
Caetano AJ, Caetano A, Sharpe P, Volponi AA, Yianni V, Bush M, McKay LK, Wallet S et al. ( 2022 ) . A Roadmap for the Human Oral and Craniofacial Cell Atlas . Journal of Dental Research vol. 101 , ( 11 ) 1274 - 1288 .
Fletcher J, Vegh P, Reynolds G, Botting RA, Huang N, Dixon D, Green K, Stephenson E et al. ( 2022 ) . Spatially resolved poised immunity in human skin . BRITISH JOURNAL OF DERMATOLOGY . Conference: BRITISH JOURNAL OF DERMATOLOGY vol. 187 , E7 - E8 .
Jain MS, Polanski K, Conde CD, Chen X, Park J, Mamanova L, Knights A, Botting RA et al. ( 2021 ) . MultiMAP: dimensionality reduction and integration of multimodal data . Genome Biology vol. 22 , ( 1 )
Jardine L, Webb S, Goh I, Quiroga Londoño M, Reynolds G, Mather M, Olabi B, Stephenson E et al. ( 2021 ) . Blood and immune development in human fetal bone marrow and Down syndrome . Nature vol. 598 , ( 7880 ) 327 - 331 .
Haim-Vilmovsky L, Henriksson J, Walker JA, Miao Z, Natan E, Kar G, Clare S, Barlow JL et al. ( 2021 ) . Mapping Rora expression in resting and activated CD4+ T cells . PLOS ONE vol. 16 , ( 5 )
Reynolds G, Vegh P, Fletcher J, Poyner EFM, Stephenson E, Goh I, Botting RA, Huang N et al. ( 2021 ) . Developmental cell programs are co-opted in inflammatory skin disease . Science vol. 371 , ( 6527 )
Prokopi A, Tripp CH, Tummers B, Hornsteiner F, Spoeck S, Crawford JC, Clements DR, Efremova M et al. ( 2021 ) . Skin dendritic cells in melanoma are key for successful checkpoint blockade therapy . Journal for ImmunoTherapy of Cancer vol. 9 , ( 1 )
Efremova M, Vento-Tormo R ( 2021 ) . Inference of Ligand–Receptor Pairs from Single-Cell Transcriptomics Data . Methods in Molecular Biology vol. 2346 , 1 - 10 .
Prokopi N, Tripp C, Tummers B, Crawford J, Efremova M, Hutter K, Bellmann L, Cappellano G et al. ( 2020 ) . P03.31 Skin dendritic cells in melanoma are key for successful checkpoint blockade therapy . a35.2 - a3a36 .
Penkava F, Velasco-Herrera MDC, Young MD, Yager N, Nwosu LN, Pratt AG, Lara AL, Guzzo C et al. ( 2020 ) . Single-cell sequencing reveals clonal expansions of pro-inflammatory synovial CD8 T cells expressing tissue-homing receptors in psoriatic arthritis . Nature Communications vol. 11 , ( 1 )
Raddi G, Barletta ABF, Efremova M, Ramirez JL, Cantera R, Teichmann SA, Barillas-Mury C, Billker O ( 2020 ) . Mosquito cellular immunity at single-cell resolution . Science vol. 369 , ( 6507 ) 1128 - 1132 .
Davidson S, Efremova M, Riedel A, Mahata B, Pramanik J, Huuhtanen J, Kar G, Vento-Tormo R et al. ( 2020 ) . Single-Cell RNA Sequencing Reveals a Dynamic Stromal Niche That Supports Tumor Growth . Cell Reports vol. 31 , ( 7 )
Efremova M, Vento-Tormo R, Park JE, Teichmann SA, James KR ( 2020 ) . Immunology in the Era of Single-Cell Technologies . Annual Review of Immunology vol. 38 , 727 - 757 .
Efremova M, Vento-Tormo M, Teichmann SA, Vento-Tormo R ( 2020 ) . CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes . Nature Protocols vol. 15 , ( 4 ) 1484 - 1506 .
Efremova M, Teichmann SA ( 2020 ) . Computational methods for single-cell omics across modalities . Nature Methods vol. 17 , ( 1 ) 14 - 17 .
Popescu D-M, Botting RA, Stephenson E, Green K, Webb S, Jardine L, Calderbank EF, Polanski K et al. ( 2019 ) . Decoding human fetal liver haematopoiesis . Nature vol. 574 , ( 7778 ) 365 - 371 .
Ramachandran P, Dobie R, Wilson-Kanamori JR, Dora EF, Henderson BEP, Luu NT, Portman JR, Matchett KP et al. ( 2019 ) . Resolving the fibrotic niche of human liver cirrhosis at single-cell level . Nature vol. 575 , ( 7783 ) 512 - 518 .
Stewart BJ, Ferdinand JR, Young MD, Mitchell TJ, Loudon KW, Riding AM, Richoz N, Frazer GL et al. ( 2019 ) . Spatiotemporal immune zonation of the human kidney . Science vol. 365 , ( 6460 ) 1461 - 1466 .
Vieira Braga FA, Kar G, Berg M, Carpaij OA, Polanski K, Simon LM, Brouwer S, Gomes T et al. ( 2019 ) . A cellular census of human lungs identifies novel cell states in health and in asthma . Nature Medicine vol. 25 , ( 7 ) 1153 - 1163 .
Prokopi A, Tripp CH, Tummers B, Komenda K, Hutter K, Cappellano G, Bellmann L, Efremova M et al. ( 2019 ) . Abstract A102: Rescue of lost skin dendritic cells in melanoma is key for the resuscitation of antitumor T-cell responses . Cancer Immunology Research . vol. 7 , a102 - a102 .
Prokopi N, Tripp CH, Tummers B, Komenda K, Hutter K, Cappellano G, Bellmann L, Efremova M et al. ( 2019 ) . Restoration of anti-tumor T cell responses by restoration of skin dendritic cell numbers in a spontaneous melanoma mouse model . EXPERIMENTAL DERMATOLOGY . vol. 28 , E76 - E76 .
Vento-Tormo R, Efremova M, Botting RA, Turco MY, Vento-Tormo M, Meyer KB, Park J-E, Stephenson E et al. ( 2018 ) . Single-cell reconstruction of the early maternal–fetal interface in humans . Nature vol. 563 , ( 7731 ) 347 - 353 .
Klepsch V, Hermann-Kleiter N, Do-Dinh P, Jakic B, Offermann A, Efremova M, Sopper S, Rieder D et al. ( 2018 ) . Nuclear receptor NR2F6 inhibition potentiates responses to PD-L1/PD-1 cancer immune checkpoint blockade . Nature Communications vol. 9 , ( 1 )
Efremova M, Rieder D, Klepsch V, Charoentong P, Finotello F, Hackl H, Hermann-Kleiter N, Löwer M et al. ( 2018 ) . Targeting immune checkpoints potentiates immunoediting and changes the dynamics of tumor evolution . Nature Communications vol. 9 , ( 1 )
Efremova M, Finotello F, Rieder D, Trajanoski Z ( 2017 ) . Neoantigens Generated by Individual Mutations and Their Role in Cancer Immunity and Immunotherapy . Frontiers in Immunology vol. 8 ,
Charoentong P, Finotello F, Angelova M, Mayer C, Efremova M, Rieder D, Hackl H, Trajanoski Z ( 2017 ) . Pan-cancer Immunogenomic Analyses Reveal Genotype-Immunophenotype Relationships and Predictors of Response to Checkpoint Blockade . Cell Reports vol. 18 , ( 1 ) 248 - 262 .
Gallasch R, Efremova M, Charoentong P, Hackl H, Trajanoski Z ( 2013 ) . Mathematical models for translational and clinical oncology . Journal of Clinical Bioinformatics vol. 3 , ( 1 )
Pabinger S, Dander A, Fischer M, Snajder R, Sperk M, Efremova M, Krabichler B, Speicher MR et al. ( 2013 ) . A survey of tools for variant analysis of next-generation genome sequencing data . Briefings in Bioinformatics vol. 15 , ( 2 ) 256 - 278 .
Charoentong P, Angelova M, Efremova M, Gallasch R, Hackl H, Galon J, Trajanoski Z ( 2012 ) . Bioinformatics for cancer immunology and immunotherapy . Cancer Immunology, Immunotherapy vol. 61 , ( 11 ) 1885 - 1903 .
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