Ferhat Ay

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William Stafford NobleProfessor of Genome Sciences, University of WashingtonE-mailová adresa ověřena na: uw.edu
Tamer KahveciProfessor of Computer Science, University of FloridaE-mailová adresa ověřena na: cise.ufl.edu
Karine Le RochProfessor, University of California, RiversideE-mailová adresa ověřena na: ucr.edu
Jean-Philippe VertOwkin / PSL UniversityE-mailová adresa ověřena na: owkin.com
Nelle VaroquauxCNRS, Université Grenoble AlpesE-mailová adresa ověřena na: univ-grenoble-alpes.fr
Evelien BunnikAssociate Professor at University of Texas Health Science Center at San AntonioE-mailová adresa ověřena na: uthscsa.edu
Sushmita RoyProfessor of Biostatistics and medical informatics, University of Wisconsin-MadisonE-mailová adresa ověřena na: biostat.wisc.edu
Zhijun Duan, PhDInstitute for Stem Cell & Regenerative Medicine, Division of Hematology, Department of MedicineE-mailová adresa ověřena na: uw.edu
Jay ShendureProfessor of Genome Sciences, University of WashingtonE-mailová adresa ověřena na: uw.edu
Wenxiu MaUniversity of California, RiversideE-mailová adresa ověřena na: ucr.edu
Günhan GülsoyGoogleE-mailová adresa ověřena na: google.com
Manolis KellisProfessor of Computer Science, MIT and Broad InstituteE-mailová adresa ověřena na: mit.edu
Andrew HoffmanStanfordE-mailová adresa ověřena na: stanford.edu
Vishnu DileepAssistant Professor, Baylor College of Medicine, Department of Molecular and Human GeneticsE-mailová adresa ověřena na: bcm.edu
Sima JiaoUC BerkeleyE-mailová adresa ověřena na: berkeley.edu
Timothy BaileyUniversity of Nevada, RenoE-mailová adresa ověřena na: unr.edu
Daniel MarbachRoche Pharma Research and Early Development, Basel, SwitzerlandE-mailová adresa ověřena na: roche.com
Thang N. DinhAssociate Professor of Computer Science, Virginia Commonwealth UniversityE-mailová adresa ověřena na: vcu.edu

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Ferhat Ay

Associate Professor, La Jolla Institute for Immunology

E-mailová adresa ověřena na: lji.org - Domovská stránka

Bioinformatics Computational Biology Chromatin Genomics Epigenetics


Název Seřadit podle citací Seřadit podle roku Seřadit podle názvu	Citace Citace	Rok
Identification of functional elements and regulatory circuits by Drosophila modENCODE S Roy, J Ernst, PV Kharchenko, P Kheradpour, N Negre, ML Eaton, ... Science 330 (6012), 1787-1797, 2010	1113	2010
Imbalance of regulatory and cytotoxic SARS-CoV-2-reactive CD4+ T cells in COVID-19 BJ Meckiff, C Ramírez-Suástegui, V Fajardo, SJ Chee, A Kusnadi, ... Cell, 2020	623*	2020
Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts F Ay, TL Bailey, WS Noble Genome research 24 (6), 999-1011, 2014	531	2014
Integrative detection and analysis of structural variation in cancer genomes JR Dixon, J Xu, V Dileep, Y Zhan, F Song, VT Le, GG Yardımcı, ... Nature genetics 50 (10), 1388-1398, 2018	358	2018
A statistical approach for inferring the 3D structure of the genome N Varoquaux, F Ay, WS Noble, JP Vert Bioinformatics 30 (12), i26-i33, 2014	291	2014
Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression F Ay, EM Bunnik, N Varoquaux, SM Bol, J Prudhomme, JP Vert, WS Noble, ... Genome research 24 (6), 974-988, 2014	256	2014
Bipartite structure of the inactive mouse X chromosome X Deng, W Ma, V Ramani, A Hill, F Yang, F Ay, JB Berletch, CA Blau, ... Genome biology 16 (1), 1-21, 2015	249	2015
Severely ill COVID-19 patients display impaired exhaustion features in SARS-CoV-2-reactive CD8+ T cells A Kusnadi, C Ramírez-Suástegui, V Fajardo, SJ Chee, BJ Meckiff, ... Science Immunology 6 (55), 2021	245*	2021
Single-cell transcriptomic analysis of tissue-resident memory T cells in human lung cancer J Clarke, B Panwar, A Madrigal, D Singh, R Gujar, O Wood, SJ Chee, ... Journal of Experimental Medicine 216 (9), 2128-2149, 2019	225	2019
Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes W Ma, F Ay, C Lee, G Gulsoy, X Deng, S Cook, J Hesson, C Cavanaugh, ... Nature Methods, 2014	222	2014
Analysis methods for studying the 3D architecture of the genome F Ay, WS Noble Genome Biology 16 (1), 1-15, 2015	194	2015
Identification of significant chromatin contacts from HiChIP data by FitHiChIP S Bhattacharyya, V Chandra, P Vijayanand, F Ay Nature communications 10 (1), 4221, 2019	189	2019
Topologically-associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication timing program V Dileep, F Ay, J Sima, DL Vera, WS Noble, DM Gilbert Genome Research, gr. 183699.114, 2015	182	2015
Measuring the reproducibility and quality of Hi-C data GG Yardımcı, H Ozadam, MEG Sauria, O Ursu, KK Yan, T Yang, ... Genome biology 20, 1-19, 2019	181	2019
Identifying cis elements for spatiotemporal control of mammalian dna replication J Sima, A Chakraborty, V Dileep, M Michalski, KN Klein, NP Holcomb, ... Cell 176 (4), 816-830. e18, 2019	178	2019
Identifying statistically significant chromatin contacts from Hi-C data with FitHiC2 A Kaul, S Bhattacharyya, F Ay Nature Protocols 15 (3), 991-1012, 2020	177	2020
Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation A Roayaei Ardakany, HT Gezer, S Lonardi, F Ay Genome Biology 21, 2020	153	2020
Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks D Marbach, S Roy, F Ay, PE Meyer, R Candeias, T Kahveci, CA Bristow, ... Genome Research 22 (7), 1334-1349, 2012	148	2012
A predictive modeling approach for cell line-specific long-range regulatory interactions S Roy, AF Siahpirani, D Chasman, S Knaack, F Ay, R Stewart, M Wilson, ... Nucleic acids research 43 (18), 8694-8712, 2015	144	2015
Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages EM Bunnik, KB Cook, N Varoquaux, G Batugedara, J Prudhomme, A Cort, ... Nature communications 9 (1), 1910, 2018	122	2018

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