Alper Kucukural
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I-TASSER: a unified platform for automated protein structure and function prediction
A Roy, A Kucukural, Y Zhang
Nature protocols 5 (4), 725-738, 2010
Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals
U Sharma, CC Conine, JM Shea, A Boskovic, AG Derr, XY Bing, ...
Science 351 (6271), 391-396, 2016
Identification of Neuronal RNA Targets of TDP-43-containing Ribonucleoprotein Complexes*♦
CF Sephton, C Cenik, A Kucukural, EB Dammer, B Cenik, YH Han, ...
Journal of biological chemistry 286 (2), 1204-1215, 2011
The cellular EJC interactome reveals higher-order mRNP structure and an EJC-SR protein nexus
G Singh, A Kucukural, C Cenik, JD Leszyk, SA Shaffer, Z Weng, MJ Moore
Cell 151 (4), 750-764, 2012
Novel observations from next-generation RNA sequencing of highly purified human adult and fetal islet cell subsets
DM Blodgett, A Nowosielska, S Afik, S Pechhold, AJ Cura, NJ Kennedy, ...
Diabetes 64 (9), 3172-3181, 2015
Simultaneous generation of many RNA-seq libraries in a single reaction
AA Shishkin, G Giannoukos, A Kucukural, D Ciulla, M Busby, C Surka, ...
Nature methods 12 (4), 323-325, 2015
Ebola virus glycoprotein with increased infectivity dominated the 2013–2016 epidemic
WE Diehl, AE Lin, ND Grubaugh, LM Carvalho, K Kim, PP Kyawe, ...
Cell 167 (4), 1088-1098. e6, 2016
DEBrowser: interactive differential expression analysis and visualization tool for count data
A Kucukural, O Yukselen, DM Ozata, MJ Moore, M Garber
BMC genomics 20, 1-12, 2019
Genetic and epigenetic variation, but not diet, shape the sperm methylome
JM Shea, RW Serra, BR Carone, HP Shulha, A Kucukural, MJ Ziller, ...
Developmental cell 35 (6), 750-758, 2015
Staufen1 senses overall transcript secondary structure to regulate translation
EP Ricci, A Kucukural, C Cenik, BC Mercier, G Singh, EE Heyer, ...
Nature structural & molecular biology 21 (1), 26-35, 2014
Diverse repertoire of human adipocyte subtypes develops from transcriptionally distinct mesenchymal progenitor cells
SY Min, A Desai, Z Yang, A Sharma, T DeSouza, RMJ Genga, ...
Proceedings of the National Academy of Sciences 116 (36), 17970-17979, 2019
HLA class II antigen processing and presentation pathway components demonstrated by transcriptome and protein analyses of islet β-cells from donors with type 1 diabetes
MA Russell, SD Redick, DM Blodgett, SJ Richardson, P Leete, L Krogvold, ...
Diabetes 68 (5), 988-1001, 2019
DolphinNext: A distributed data processing platform for high throughput genomics
O Yukselen, O Turkyilmaz, AR Ozturk, M Garber, A Kucukural
BMC genomics 21, 1-16, 2020
Dietary suppression of MHC class II expression in intestinal epithelial cells enhances intestinal tumorigenesis
S Beyaz, C Chung, H Mou, KE Bauer-Rowe, ME Xifaras, I Ergin, ...
Cell stem cell 28 (11), 1922-1935. e5, 2021
An improved zebrafish transcriptome annotation for sensitive and comprehensive detection of cell type-specific genes
ND Lawson, R Li, M Shin, A Grosse, O Yukselen, OA Stone, A Kucukural, ...
Elife 9, e55792, 2020
HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cells
Y Wang, L Lifshitz, K Gellatly, CL Vinton, K Busman-Sahay, S McCauley, ...
Nature immunology 21 (3), 274-286, 2020
Evolutionarily conserved pachytene piRNA loci are highly divergent among modern humans
DM Özata, T Yu, H Mou, I Gainetdinov, C Colpan, K Cecchini, Y Kaymaz, ...
Nature ecology & evolution 4 (1), 156-168, 2020
An atlas of cell types in the mouse epididymis and vas deferens
VD Rinaldi, E Donnard, K Gellatly, M Rasmussen, A Kucukural, ...
elife 9, e55474, 2020
AAV-delivered suppressor tRNA overcomes a nonsense mutation in mice
J Wang, Y Zhang, CA Mendonca, O Yukselen, K Muneeruddin, L Ren, ...
Nature 604 (7905), 343-348, 2022
GUIDEseq: a bioconductor package to analyze GUIDE-Seq datasets for CRISPR-Cas nucleases
LJ Zhu, M Lawrence, A Gupta, H Pagès, A Kucukural, M Garber, SA Wolfe
BMC genomics 18, 1-10, 2017
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