Author

O. Gokcumen

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Evolutionary Biology· 6 Cell Biology· 2 Pharmacology & Toxicology· 1 Physiology· 1

Signature Assays, Organisms & Methods

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Organism:human· 8 Approach:statistical model· 8 Assay:bulk RNA-seq· 4 Research Focus:chromatin & epigenetic regulation· 4 Research Focus:differential expression· 4 Assay:whole-genome sequencing· 4 Approach:experimental assay· 3 Organism:mouse· 3

Frequent Co-Authors

G. E. Atilla-Gokcumen· 4 shared P. Pajic· 3 shared C. Karageorgiou· 2 shared C. Lee· 2 shared M. Saitou· 2 shared P. Pavlidis· 2 shared S. Ruhl· 2 shared A. Aqil· 1 shared

Activity by Year

2018-2024 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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4 shared papersCell Biology

G. E. Atilla-Gokcumen

Mutual co-authors in cluster

Author profile →

10 papers

Recent·Most cited

Transcriptomics effects of per- and polyfluorinated alkyl substances in differentiated neuronal cells

L. Running, J. R. Cristobal, C. Karageorgiou, M. Camdzic, J. M. Aguilar, O. Gokcumen, D. Aga, G. E. Atilla-Gokcumen

This study investigates the transcriptomic effects of six PFAS compounds on neuronal-like cells, identifying differentially expressed genes and metabolic changes associated with PFAS toxicity.

ACS Chemical Neuroscience · Dec 18, 2024Peer-reviewedPharmacology & Toxicology

Emergence of saliva protein genes in the secretory calcium-binding phosphoprotein (SCPP) locus and accelerated evolution in primates

P. Pajic, L. Landau, O. Gokcumen, S. Ruhl

This study investigates the evolution of saliva-related SCPP genes, identifying convergent duplications and positive selection in primates, with implications for adaptive diversification of saliva composition.

bioRxiv · Feb 14, 2024 · PreprintEvolutionary Biology

Paleolithic Gene Duplications Primed Adaptive Evolution of Human Amylase Locus Upon Agriculture

F. Yilmaz, C. Karageorgiou, K. Kim, P. Pajic, K. Scheer, Human Genome Structural Variation Consortium, C. R. Beck, A.-M. Torregrossa, C. Lee, O. Gokcumen

The paper resolves the amylase locus at nucleotide resolution in modern and ancient humans, showing AMY1 copy number variation predated agriculture and was driven by recombination.

bioRxiv · Nov 27, 2023Evolutionary Biology

SREBP1 activation contributes to fatty acid accumulations in necroptosis

D. Lu, L. R. Parisi, O. Gokcumen, G. E. Atilla-Gokcumen

This study shows SREBP1 activation leads to VLCFA accumulation, which worsens necroptosis by increasing membrane permeabilization.

bioRxiv · Aug 22, 2022 · PreprintCell Biology

Balancing selection on genomic deletion polymorphisms in humans

A. Aqil, L. Speidel, P. Pavlidis, O. Gokcumen

The paper identifies 63 ancient deletion polymorphisms in humans associated with GWAS traits and shows they likely evolved under balancing selection.

bioRxiv · Apr 28, 2022Evolutionary Biology

Trade-Offs Between Hepatic Host Defense and Metabolic Programs Underlie Sex-Biased Diseases

J. Nikkanen, Y. A. Leong, W. C. Krause, D. Dermadi, J. A. Maschek, T. Van Ry, J. Cox, E. Weiss, O. Gokcumen, A. Chawla, H. Ingraham

This study identifies a sex-dependent trade-off between hepatic host defense and metabolic programs in mice, showing that BCL6 protects males from infection but increases metabolic disease risk under dietary excess.

bioRxiv · Jan 7, 2022Physiology

Sex-specific phenotypic effects and evolutionary history of an ancient polymorphic deletion of the human growth hormone receptor

M. Saitou, S. Resendez, A. J. Pradhan, F. Wu, N. C. Lie, N. J. Hall, Q. Zhu, L. Reinholdt, Y. Satta, S. Nakagome, N. A. Hanchard, G. Churchill, C. Lee, G. E. Atilla-Gokcumen, X. Mu, O. Gokcumen

This study investigates the evolutionary history and phenotypic effects of the GHRd3 deletion, finding sex- and environment-dependent impacts on growth and metabolism.

bioRxiv · Mar 1, 2021Evolutionary Biology

Genome-wide Selection Scan in an Arabian Peninsula Population Identifies a TNKS haplotype Linked to Metabolic Traits and Hypertension

M. Eaaswarkhanth, A. L. C. Santos, O. Gokcumen, F. Al-Mulla, T. A. Thanaraj

bioRxiv · Nov 29, 2020Evolutionary Biology

Amylase copy number analysis in several mammalian lineages reveals convergent adaptive bursts shaped by diet

P. Pajic, P. Pavlidis, K. Dean, L. Neznanova, E. Daugherity, R.-A. Romano, D. Garneau, A. Globig, S. Ruhl, O. Gokcumen

The paper analyzes amylase copy number in mammals, finding convergent adaptive expansions linked to starch diets and increased enzymatic activity.

bioRxiv · Jun 5, 2018Evolutionary Biology

An evolutionary transcriptomics approach links CD36 to membrane remodeling in replicative senescence

M. Saitou, D. Lizardo, R. Taskent, A. Millner, G. E. Atilla-Gokcumen, O. Gokcumen

This study identifies CD36 as a key gene upregulated in senescent cells, linking it to membrane remodeling through lipid metabolism and senescence-like phenotypes.

bioRxiv · Apr 3, 2018Cell Biology