Justin B. Kinney

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Junwei ShiUniversity of PennsylvaniaVerified email at upenn.edu
Eric WangThe Jackson LaboratoryVerified email at jax.org
Suvrat RajuProfessor, International Centre for Theoretical SciencesVerified email at icts.res.in
Zihua Wangsenior research investigator, Cold Spring Harbor LaboratoryVerified email at cshl.edu
Manolis KellisProfessor of Computer Science, MIT and Broad InstituteVerified email at mit.edu
Tiberiu TesileanuMeta Inc.Verified email at flatironinstitute.org
Tarjei S. MikkelsenVerified email at alum.mit.edu
Daniel JonesUppsala UniversityVerified email at icm.uu.se
Bruce StillmanCold Spring Harbor LaboratoryVerified email at cshl.edu
Thierry MoraLaboratoire de physique de l'École normale supérieure, Centre national de recherche scientifiqueVerified email at phys.ens.fr
Rhys M AdamsThe Francis Crick InstituteVerified email at crick.ac.uk
Serif SenturkProfessor at Dokuz Eylul University & Group Leader at Izmir Biomedicine and Genome CenterVerified email at ibg.edu.tr
Vincenzo CorboUniversity of VeronaVerified email at univr.it
Edward CoxPrinceton universityVerified email at princeton.edu
Dawid G. NowakAssistant Professor at Weill Cornell MedicineVerified email at med.cornell.edu
Ville MustonenUniversity of HelsinkiVerified email at helsinki.fi
Gasper TkacikProfessor, Deputy Dean of the Graduate School, Institute of Science and Technology AustriaVerified email at ist.ac.at
Shinpei KawaokaIDAC, Tohoku University / LiMe, Kyoto UniversityVerified email at infront.kyoto-u.ac.jp
Jonathan J. Ipsaro, Ph.DAtavistik BioVerified email at atavistikbio.com
Manuel RazoBiology Department, Stanford UniversityVerified email at stanford.edu

Justin B. Kinney

Associate Professor, Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory

Verified email at cshl.edu - Homepage

Sequence-Function Relationships Machine Learning Biophysics mRNA Splicing


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
An index for 4 dimensional super conformal theories JB Kinney, J Maldacena, S Minwalla, S Raju Communications in Mathematical Physics 275 (1), 209-254, 2007	917	2007
Discovery of cancer drug targets by CRISPR-Cas9 screening of protein domains J Shi, E Wang, JP Milazzo, Z Wang, JB Kinney, CR Vakoc Nature Biotechnology 33, 661-667, 2015	789	2015
Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay A Melnikov, A Murugan, X Zhang, T Tesileanu, L Wang, P Rogov, S Feizi, ... Nature Biotechnology 30 (3), 271-277, 2012	764	2012
Equitability, mutual information, and the maximal information coefficient JB Kinney, GS Atwal Proceedings of the National Academy of Sciences USA 111 (9), 3354-3359, 2014	669	2014
Evaluation of methods for modeling transcription factor sequence specificity MT Weirauch, A Cote, R Norel, M Annala, Y Zhao, TR Riley, ... Nature biotechnology 31 (2), 126-134, 2013	409	2013
Logomaker: beautiful sequence logos in Python A Tareen, JB Kinney Bioinformatics 36 (7), 2272-2274, 2020	357	2020
Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence JB Kinney, A Murugan, CG Callan, EC Cox Proceedings of the National Academy of Sciences USA 107 (20), 9158-9163, 2010	357	2010
Rapid and tunable method to temporally control gene editing based on conditional Cas9 stabilization S Senturk, NH Shirole, DG Nowak, V Corbo, D Pal, A Vaughan, ... Nature Communications 8, 14370, 2017	171	2017
Energy-dependent fitness: a quantitative model for the evolution of yeast transcription factor binding sites V Mustonen, J Kinney, CG Callan, M Lässig Proceedings of the National Academy of Sciences USA 105 (34), 12376-12381, 2008	138	2008
Massively parallel assays and quantitative sequence–function relationships JB Kinney, DM McCandlish Annual review of genomics and human genetics 20 (1), 99-127, 2019	129	2019
Measuring the sequence-affinity landscape of antibodies with massively parallel titration curves RM Adams, T Mora, AM Walczak, JB Kinney Elife 5, e23156, 2016	129	2016
Quantitative Activity Profile and Context Dependence of All Human 5′ Splice Sites MS Wong, JB Kinney, AR Krainer Molecular cell 71 (6), 1012-1026.e3, 2018	104	2018
Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria NM Belliveau, SL Barnes, WT Ireland, DL Jones, MJ Sweredoski, ... Proceedings of the National Academy of Sciences 115 (21), E4796-E4805, 2018	103	2018
Precise physical models of protein–DNA interaction from high-throughput data JB Kinney, G Tkačik, CG Callan Proceedings of the National Academy of Sciences USA 104 (2), 501-506, 2007	85	2007
Domain within the helicase subunit Mcm4 integrates multiple kinase signals to control DNA replication initiation and fork progression YJ Sheu, JB Kinney, A Lengronne, P Pasero, B Stillman Proceedings of the National Academy of Sciences USA 111 (18), E1899-E1908, 2014	64	2014
A transcription factor addiction in leukemia imposed by the MLL promoter sequence B Lu, O Klingbeil, Y Tarumoto, TDD Somerville, YH Huang, Y Wei, ... Cancer Cell 34 (6), 970-981. e8, 2018	60	2018
Deciphering the regulatory genome of Escherichia coli, one hundred promoters at a time WT Ireland, SM Beeler, E Flores-Bautista, NS McCarty, T Röschinger, ... Elife 9, e55308, 2020	55	2020
Mapping DNA sequence to transcription factor binding energy in vivo SL Barnes, NM Belliveau, WT Ireland, JB Kinney, R Phillips PLoS computational biology 15 (2), e1006226, 2019	51	2019
MAVE-NN: learning genotype-phenotype maps from multiplex assays of variant effect A Tareen, M Kooshkbaghi, A Posfai, WT Ireland, DM McCandlish, ... Genome biology 23 (1), 98, 2022	49	2022
The transcriptional cofactor TRIM33 prevents apoptosis in B lymphoblastic leukemia by deactivating a single enhancer E Wang, S Kawaoka, JS Roe, J Shi, AF Hohmann, Y Xu, AS Bhagwat, ... Elife 4, e06377, 2015	47	2015

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