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F. Dündar · SciRah

Researcher profile · Semantic Scholar

F. Dündar

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F. Dündar — researcher profile on SciRah

h-index: 19
Works: 41
Citations: 13K

Most-cited papers

deepTools2: a next generation web server for deep-sequencing data analysis
Fidel Ramírez, D. Ryan, B. Grüning, V. Bhardwaj +5 more
2016Nucleic Acids Res.7,144 citations Open access
Semantic Scholar
deepTools: a flexible platform for exploring deep-sequencing data
Fidel Ramírez, F. Dündar, S. Diehl, B. Grüning +1 more
2014Nucleic Acids Res.3,372 citations Open access
Semantic Scholar
TOX is a critical regulator of tumour-specific T cell differentiation
A. Scott, F. Dündar, P. Zumbo, Smita S. Chandran +23 more
2019Nature995 citations Open access
Semantic Scholar
An autoimmune stem-like CD8 T cell population drives type 1 diabetes
Sofia V. Gearty, F. Dündar, P. Zumbo, Gabriel Espinosa-Carrasco +11 more
2021Nature223 citations Open access
Semantic Scholar
TCR signal strength defines distinct mechanisms of T cell dysfunction and cancer evasion
M. Shakiba, P. Zumbo, Gabriel Espinosa-Carrasco, Laura Menocal +18 more
2021Journal of Experimental Medicine139 citations Open access
Semantic Scholar
Schizophrenia is defined by cell-specific neuropathology and multiple neurodevelopmental mechanisms in patient-derived cerebral organoids
Michael J. Notaras, A. Lodhi, F. Dündar, Paul G Collier +4 more
2021Molecular Psychiatry135 citations Open access
Semantic Scholar
Immunogenicity and therapeutic targeting of a public neoantigen derived from mutated PIK3CA
Smita S. Chandran, Jiaqi Ma, M. Klatt, F. Dündar +18 more
2022Nature Medicine118 citations Open access
Semantic Scholar
Hallmarks of CD8 T cell dysfunction are established within hours of tumor antigen encounter prior to cell division
Michael W. Rudloff, P. Zumbo, Natalie R. Favret, Jessica J. Roetman +7 more
2023Nature Immunology115 citations Open access
Semantic Scholar
Genome-scale screens identify JNK/JUN signaling as a barrier for pluripotency exit and endoderm differentiation
Qing V. Li, Gary Dixon, N. Verma, Bess P. Rosen +20 more
2019Nature Genetics107 citations Open access
Semantic Scholar
MOF-associated complexes ensure stem cell identity and Xist repression
Tomasz Chelmicki, F. Dündar, M. J. Turley, Tasneem Khanam +9 more
2014eLife103 citations Open access
Semantic Scholar
A beta cell subset with enhanced insulin secretion and glucose metabolism is reduced in type 2 diabetes
Alfonso Rubio-Navarro, Nicolás Gómez-Banoy, Lisa Stoll, F. Dündar +21 more
2023Nature Cell Biology60 citations Open access
Semantic Scholar
A reversible epigenetic memory of inflammatory injury controls lineage plasticity and tumor initiation in the mouse pancreas
David Falvo, A. Grimont, P. Zumbo, William B. Fall +13 more
2023Developmental Cell48 citations Open access
Semantic Scholar
Activation of a transient progenitor state in the epicardium is required for zebrafish heart regeneration
Yu Xia, Sierra Duca, Björn Perder, F. Dündar +8 more
2022Nature Communications47 citations Open access
Semantic Scholar
Epsilon toxin–producing Clostridium perfringens colonize the multiple sclerosis gut microbiome overcoming CNS immune privilege
Yinghua Ma, D. Sannino, Jennifer R. Linden, S. Haigh +29 more
2023Journal of Clinical Investigation39 citations Open access
Semantic Scholar
CAR-engineered lymphocyte persistence is governed by a FAS ligand–FAS autoregulatory circuit
Fei Yi, T. Cohen, Natalie Zimmerman, F. Dündar +19 more
2025Nature Cancer35 citations Open access
Semantic Scholar
Introduction to differential gene expression analysis using RNA-seq
F. Dündar, Luce Skrabanek
201726 citations
Semantic Scholar
SARS CoV-2 mRNA vaccination exposes latent HIV to Nef-specific CD8+ T-cells
E. Stevenson, S. Terry, D. Copertino, Louise Leyre +29 more
2022Nature Communications25 citations Open access
Semantic Scholar
Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation
S. Chlamydas, H. Holz, Maria Samata, Tomasz Chelmicki +14 more
2016Nature Structural &Molecular Biology22 citations
Semantic Scholar
Increased Primary Bile Acids with Ileocolonic Resection Impact Ileal Inflammation and Gut Microbiota in Inflammatory Bowel Disease.
R. Battat, E. Scherl, Dana J. Lukin, P. Charilaou +8 more
2022Journal of Crohn's & Colitis19 citations Open access
Semantic Scholar
Cross-species single-cell RNA-seq analysis reveals disparate and conserved cardiac and extracardiac inflammatory responses upon heart injury
Eric Cortada, Jun Yao, Yu Xia, F. Dündar +11 more
2024Communications Biology16 citations Open access
Semantic Scholar
CAR-engineered lymphocyte persistence is governed by a FAS ligand/FAS auto-regulatory circuit
Fei Yi, T. Cohen, Natalie Zimmerman, F. Dündar +15 more
2024bioRxiv13 citations Open access
Semantic Scholar
The latency-reversing agent HODHBt synergizes with IL-15 to enhance cytotoxic function of HIV-specific T cells
D. Copertino, C. Holmberg, J. Weiler, A. Ward +19 more
2023JCI Insight12 citations Open access
Semantic Scholar
Epigenomically Bistable Regions across Neuron-Specific Genes Govern Neuron Eligibility to a Coding Ensemble in the Hippocampus
S. Odell, F. Taki, S. Klein, Rosa J. Chen +13 more
2020Cell Reports10 citations Open access
Semantic Scholar
Selective BCL-XL Antagonists Eliminate Infected Cells from a Primary Cell Model of HIV Latency but not from Ex Vivo Reservoirs
Yan-Qin Ren, Szu-Han Huang, Amanda B. Macedo, A. Ward +13 more
2020bioRxiv10 citations Open access
Semantic Scholar
Hippocampal Transcriptome Changes After Subarachnoid Hemorrhage in Mice
A. Regnier-Golanov, F. Dündar, P. Zumbo, D. Betel +5 more
2021Frontiers in Neurology8 citations Open access
Semantic Scholar
Selective BCL-XL Antagonists Eliminate Infected Cells from a Primary-Cell Model of HIV Latency but Not from Ex Vivo Reservoirs
Yan-Qin Ren, Szu-Han Huang, Amanda B. Macedo, A. Ward +15 more
2021Journal of Virology6 citations Open access
Semantic Scholar
Molecular specification of cortico-brainstem versus corticospinal projection neurons in development
J. Kaiser, Payal Patel, F. Dündar, Jimena Perez-Tetuan +3 more
2022bioRxiv4 citations Open access
Semantic Scholar
Abstract CN01-03: T cell receptor gene therapy for a public neoantigen derived from mutated PIK3CA, a dominant driver oncogene in breast and endometrial cancers
Smita S. Chandran, Jiaqi Ma, M. Klatt, F. Dündar +6 more
20194 citations
Semantic Scholar
Analysis of next-generation sequencing data
F. Dündar
2019ICR SuperComputer System Annual Research Report4 citations Open access
Semantic Scholar
Abstract PR009: An epigenetic memory of inflammation controls context-dependent lineage plasticity in the pancreas
David Falvo, A. Grimont, P. Zumbo, Julie L. Yang +10 more
2022Cancer Research3 citations
Semantic Scholar
A lineage-specific epigenetic memory of inflammation potentiates Kras-driven pancreatic tumorigenesis
David Falvo, A. Grimont, P. Zumbo, Julie L. Yang +11 more
20213 citations
Semantic Scholar
Epigenetically bistable regions across neuron-specific genes govern neuron eligibility to a coding ensemble in the hippocampus
S. Odell, F. Taki, S. Klein, R.-J. Chen +13 more
2019bioRxiv1 citations Open access
Semantic Scholar
deeptools/HiCExplorer: Winter release
Fidel Ramírez, Joachim Wolff, B. Grüning, V. Bhardwaj +2 more
20171 citations
Semantic Scholar
Author response: MOF-associated complexes ensure stem cell identity and Xist repression
Tomasz Chelmicki, F. Dündar, M. J. Turley, Tasneem Khanam +9 more
20141 citations Open access
Semantic Scholar
P912 Increased Primary Bile Acids with Ileocolonic Resection Impact Ileal Inflammation and Gut Microbiota in Inflammatory Bowel Disease
R. Battat, E. Scherl, D. Lukin, P. Charilaou +8 more
2023Journal of Crohn's & Colitis0 citations Open access
Semantic Scholar
Cross-species single-cell comparison of systemic and cardiac inflammatory responses after cardiac injury
Eric Cortada, Jun Yao, Yu Xia, F. Dündar +11 more
2023bioRxiv0 citations Open access
Semantic Scholar
Hallmark features of T cell dysfunction are established within hours after tumor antigen encounter
Michael W Rudloff, Natalie R. Favret, P. Zumbo, F. Dündar +2 more
2022Journal of Immunology0 citations
Semantic Scholar
OP 2.7 – 00057 The latency reversing agent HODHBt synergizes with IL-15 to enhance cytotoxic function of HIV-specific CD8+ T-cells
D. Copertino, C. Holmberg, A. Ward, J. Weiler +16 more
2022Journal of virus eradication0 citations Open access
Semantic Scholar
Activation of an injury-associated transient progenitor state in the epicardium is required for zebrafish heart regeneration
Yu Xia, Sierra Duca, Björn Perder, F. Dündar +8 more
2022bioRxiv0 citations Open access
Semantic Scholar
Diﬀerential Gene Expression Analysis (DGE)
F. Dündar
20200 citations
Semantic Scholar
HiCExplorer 1.1
Fidel Ramírez, F. Dündar, V. Bhardwaj, B. Grüning
20160 citations
Semantic Scholar

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