Co-authored publications with mentees

Eftychia Apostolou, PhD · 28 publications across 9 mentees

CSV Word

PhD mentee

Postmitotic transcription and 3D regulation show locus-specific and differentiation-specific sensitivity to cohesin depletion.
Nature genetics · 2026
EAEftychia ApostolouUJUk Jin LeeALAlejandra Laguillo-Diego DMDaniela MagliuloWWWilfred Wong+2 more →
PMID: 41974992DOI2 citations
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Disruption of TAD hierarchy promotes LTR co-option in cancer.
Nature genetics · 2025
EAEftychia ApostolouUJUk Jin LeeRYRui YangNANawaf AlomranAPAlexander Polyzos+6 more →
PMID: 40588507PMCID: PMC12283374DOI5 citations
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
Molecular cell · 2025
EAEftychia ApostolouUJUk Jin LeeSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano Cirigliano+7 more →
PMID: 40147440PMCID: PMC12009607DOI8 citations
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
Molecular cell · 2025
EAEftychia ApostolouSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano CiriglianoSRSyed Raza Mahmood+7 more →
PMID: 40147440PMCID: PMC12009607DOI8 citations
With Sarah Breves · Physiology, Biophysics & Systems Biology (PhD)
Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion.
bioRxiv : the preprint server for biology · 2025
EAEftychia ApostolouUJUk Jin LeeALAlejandra Laguillo-DiegoWWWilfred WongBPBobbie Pelham-Webb
PMID: 40034648PMCID: PMC11875242DOI
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouUJUk Jin LeeSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano Cirigliano+7 more →
PMID: 40034649PMCID: PMC11875237DOI
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano CiriglianoSRSyed Raza Mahmood+7 more →
PMID: 40034649PMCID: PMC11875237DOI
With Sarah Breves · Physiology, Biophysics & Systems Biology (PhD)
TAD hierarchy restricts poised LTR activation and loss of TAD hierarchy promotes LTR co-option in cancer.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouUJUk Jin LeeAPAlexander PolyzosSCShuyuan Cheng+3 more →PCPing Chi
PMID: 38895201PMCID: PMC11185511DOI
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
CRISPR Screening Uncovers a Long-Range Enhancer for ONECUT1 in Pancreatic Differentiation and Links a Diabetes Risk Variant.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouDMDylan MurphyWWWilfred WongQLQianzi Li+2 more →DHDanwei Huangfu
PMID: 38746154PMCID: PMC11092487DOI
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
3D Enhancer-promoter networks provide predictive features for gene expression and coregulation in early embryonic lineages.
Nature structural & molecular biology · 2023
EAEftychia ApostolouDMDylan MurphyESEralda SalatajECErin CharCMChristopher M Uyehara+5 more →
PMID: 38053013PMCID: PMC10897904DOI36 citations
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
3D Enhancer-promoter networks provide predictive features for gene expression and coregulation in early embryonic lineages.
Nature structural & molecular biology · 2023
EAEftychia ApostolouUJUk Jin LeeDMDylan MurphyESEralda SalatajECErin Char+5 more →
PMID: 38053013PMCID: PMC10897904DOI36 citations
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouDMDylan MurphyESEralda SalatajECErin CharCMChristopher M Uyehara+5 more →
PMID: 37577543PMCID: PMC10422694DOI
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouUJUk Jin LeeDMDylan MurphyESEralda SalatajECErin Char+5 more →
PMID: 37577543PMCID: PMC10422694DOI
With Uk Jin Lee · Molecular Biology (PhD) · Class of 2026
Dynamic network-guided CRISPRi screen identifies CTCF-loop-constrained nonlinear enhancer gene regulatory activity during cell state transitions.
Nature genetics · 2023
EAEftychia ApostolouDMDylan MurphyWWWilfred WongBPBess P RosenRARachel A Glenn+2 more →
PMID: 37488417PMCID: PMC11012226DOI38 citations
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
Discovery of Competent Chromatin Regions in Human Embryonic Stem Cells.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouDMDylan MurphyZTZakieh TayyebiWWWilfred Wong+2 more →DHDanwei Huangfu
PMID: 37398096PMCID: PMC10312725DOI
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
Single-cell analysis of bidirectional reprogramming between early embryonic states reveals mechanisms of differential lineage plasticities.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouDMDylan MurphyMSManu SettyAPAlexander Polyzos+2 more →AHAnna-Katerina Hadjantonakis
PMID: 37034770PMCID: PMC10081288DOI
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
Dynamic network-guided CRISPRi screen reveals CTCF loop-constrained nonlinear enhancer-gene regulatory activity in cell state transitions.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouDMDylan MurphyWWWilfred WongRGRachel GlennTVThomas Vierbuchen+1 more →
PMID: 36945628PMCID: PMC10028945DOI
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
Dynamic 3D Chromatin Reorganization during Establishment and Maintenance of Pluripotency.
Stem cell reports · 2020
EAEftychia ApostolouDMDylan MurphyBPBobbie Pelham-Webb
PMID: 33242398PMCID: PMC7724465DOI36 citations
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024
KLF4 is involved in the organization and regulation of pluripotency-associated three-dimensional enhancer networks.
Nature cell biology · 2019
EAEftychia ApostolouDMDylan MurphyAPAlexander PolyzosAAAbderhman AbuhashemPCPaola Cavaliere+3 more →
PMID: 31548608PMCID: PMC7339746DOI157 citations
With Dylan Murphy · Physiology, Biophysics & Systems Biology (PhD) · Class of 2024

Postdoc mentee

Postmitotic transcription and 3D regulation show locus-specific and differentiation-specific sensitivity to cohesin depletion.
Nature genetics · 2026
EAEftychia Apostolou ALAlejandra Laguillo-DiegoUJUk Jin LeeDMDaniela MagliuloWWWilfred Wong+2 more →
PMID: 41974992DOI2 citations
With Alejandra Laguillo-Diego · Postdoc mentee
Postmitotic transcription and 3D regulation show locus-specific and differentiation-specific sensitivity to cohesin depletion.
Nature genetics · 2026
EAEftychia Apostolou DMDaniela MagliuloUJUk Jin LeeALAlejandra Laguillo-DiegoWWWilfred Wong+2 more →
PMID: 41974992DOI2 citations
With Daniela Magliulo · Postdoc mentee
Coordinated repression of totipotency-associated gene loci by histone methyltransferase EHMT2 via LINE1 regulatory elements.
EMBO reports · 2025
EAEftychia ApostolouCMChristopher Mitsuo UyeharaKCKaushiki ChatterjeeKKKritika Kasliwal+2 more →MSMatthias Stadtfeld
PMID: 41366101PMCID: PMC12894760DOI
With Christopher Uyehara · Postdoc mentee
Enhancer remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm.
Developmental cell · 2025
EAEftychia ApostolouCUChristopher UyeharaLELy-Sha EeEGEmily Goetzler+3 more →MSMatthias Stadtfeld
PMID: 40834858PMCID: PMC12489875DOI6 citations
With Christopher Uyehara · Postdoc mentee
Enhancer remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm.
Developmental cell · 2025
EAEftychia ApostolouESEralda SalatajLELy-Sha EeEGEmily Goetzler+3 more →MSMatthias Stadtfeld
PMID: 40834858PMCID: PMC12489875DOI6 citations
With Eralda Salataj · Postdoc mentee
The yin yang of transcriptional memory.
Nature structural & molecular biology · 2025
EAEftychia Apostolou ALAlejandra Laguillo-Diego
PMID: 40399620DOI
With Alejandra Laguillo-Diego · Postdoc mentee
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
Molecular cell · 2025
EAEftychia ApostolouDCDafne Campigli Di GiammartinoSBSarah BrevesSCStefano CiriglianoSRSyed Raza Mahmood+7 more →
PMID: 40147440PMCID: PMC12009607DOI8 citations
With Dafne Campigli Di Giammartino · Postdoc mentee
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
Molecular cell · 2025
EAEftychia ApostolouSRSyed Raza MahmoodSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano Cirigliano+7 more →
PMID: 40147440PMCID: PMC12009607DOI8 citations
With Syed Raza Mahmood · Postdoc mentee
Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion.
bioRxiv : the preprint server for biology · 2025
EAEftychia Apostolou ALAlejandra Laguillo-DiegoUJUk Jin LeeWWWilfred WongBPBobbie Pelham-Webb
PMID: 40034648PMCID: PMC11875242DOI
With Alejandra Laguillo-Diego · Postdoc mentee
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouDCDafne Campigli Di GiammartinoSBSarah BrevesSCStefano CiriglianoSRSyed Raza Mahmood+7 more →
PMID: 40034649PMCID: PMC11875237DOI
With Dafne Campigli Di Giammartino · Postdoc mentee
Three-dimensional regulatory hubs support oncogenic programs in glioblastoma.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouSRSyed Raza MahmoodSBSarah BrevesDCDafne Campigli Di GiammartinoSCStefano Cirigliano+7 more →
PMID: 40034649PMCID: PMC11875237DOI
With Syed Raza Mahmood · Postdoc mentee
Coordinated repression of totipotency-associated gene loci by histone methyltransferase EHMT2 through binding to LINE-1 regulatory elements.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouCMC M UyeharaKCK ChatterjeeKKKritika Kasliwal+2 more →MSMatthias Stadtfeld
PMID: 39763795PMCID: PMC11702699DOI
With Christopher Uyehara · Postdoc mentee
DDX18 coordinates nucleolus phase separation and nuclear organization to control the pluripotency of human embryonic stem cells.
Nature communications · 2024
EAEftychia ApostolouSRSyed Raza Mahmood
PMID: 39738032PMCID: PMC11685540DOI13 citations
With Syed Raza Mahmood · Postdoc mentee
Single-cell analysis of bidirectional reprogramming between early embryonic states identify mechanisms of differential lineage plasticities in mice.
Developmental cell · 2024
EAEftychia ApostolouESEralda SalatajMSManu SettyAPAlexander Polyzos
PMID: 39729987PMCID: PMC11998022DOI3 citations
With Eralda Salataj · Postdoc mentee
Transcriptional remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm.
bioRxiv : the preprint server for biology · 2024
EAEftychia ApostolouCMC M UyeharaLSL S EeEGEmily Goetzler+4 more →MSMatthias Stadtfeld
PMID: 38854146PMCID: PMC11160813DOI
With Christopher Uyehara · Postdoc mentee
3D Enhancer-promoter networks provide predictive features for gene expression and coregulation in early embryonic lineages.
Nature structural & molecular biology · 2023
EAEftychia ApostolouCMChristopher M UyeharaDMDylan MurphyESEralda SalatajECErin Char+5 more →
PMID: 38053013PMCID: PMC10897904DOI36 citations
With Christopher Uyehara · Postdoc mentee
3D Enhancer-promoter networks provide predictive features for gene expression and coregulation in early embryonic lineages.
Nature structural & molecular biology · 2023
EAEftychia ApostolouESEralda SalatajDMDylan MurphyECErin CharCMChristopher M Uyehara+5 more →
PMID: 38053013PMCID: PMC10897904DOI36 citations
With Eralda Salataj · Postdoc mentee
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouCMChristopher M UyeharaDMDylan MurphyESEralda SalatajECErin Char+5 more →
PMID: 37577543PMCID: PMC10422694DOI
With Christopher Uyehara · Postdoc mentee
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouESEralda SalatajDMDylan MurphyECErin CharCMChristopher M Uyehara+5 more →
PMID: 37577543PMCID: PMC10422694DOI
With Eralda Salataj · Postdoc mentee
3D enhancer-promoter interactions and multi-connected hubs: Organizational principles and functional roles.
Cell reports · 2023
EAEftychia ApostolouCMChristopher M Uyehara
PMID: 37059094PMCID: PMC10556201DOI99 citations
With Christopher Uyehara · Postdoc mentee
Single-cell analysis of bidirectional reprogramming between early embryonic states reveals mechanisms of differential lineage plasticities.
bioRxiv : the preprint server for biology · 2023
EAEftychia ApostolouESEralda SalatajMSManu SettyAPAlexander Polyzos+2 more →AHAnna-Katerina Hadjantonakis
PMID: 37034770PMCID: PMC10081288DOI
With Eralda Salataj · Postdoc mentee
Deciphering the Complexity of 3D Chromatin Organization Driving Lymphopoiesis and Lymphoid Malignancies.
Frontiers in immunology · 2021
EAEftychia ApostolouESEralda SalatajLSLaurianne Scourzic
PMID: 34054841PMCID: PMC8160312DOI11 citations
With Eralda Salataj · Postdoc mentee
Transcription factors: building hubs in the 3D space.
Cell cycle (Georgetown, Tex.) · 2020
EAEftychia ApostolouDCDafne Campigli Di GiammartinoAPAlexander Polyzos
PMID: 32783593PMCID: PMC7553511DOI50 citations
With Dafne Campigli Di Giammartino · Postdoc mentee
TAF5L and TAF6L Maintain Self-Renewal of Embryonic Stem Cells via the MYC Regulatory Network.
Molecular cell · 2019
EAEftychia ApostolouDCDafne C Di Giammartino
PMID: 31005419PMCID: PMC6671628DOI42 citations
With Dafne Campigli Di Giammartino · Postdoc mentee
Widespread Mitotic Bookmarking by Histone Marks and Transcription Factors in Pluripotent Stem Cells.
Cell reports · 2017
EAEftychia ApostolouDCDafne Campigli Di GiammartinoBPBobbie Pelham-WebbVGVidur GargASAshley Stephen Doane+3 more →
PMID: 28514649PMCID: PMC5495017DOI109 citations
With Dafne Campigli Di Giammartino · Postdoc mentee
The Chromatin Signature of Pluripotency: Establishment and Maintenance.
Current stem cell reports · 2016
EAEftychia ApostolouDCDafne Campigli Di Giammartino
PMID: 27547710PMCID: PMC4972866DOI15 citations
With Dafne Campigli Di Giammartino · Postdoc mentee