Finkelstein, Ilya J

Publication with MATCHING institution:

Kuo YA, Jung C, Chen YA, ..., Yeh HC (2022) Massively Parallel Selection of NanoCluster Beacons. Advanced Materials.
[IF=4.1, Cited=2, 35945159].
Quezada A, Annapareddy A, Javanmardi K, ..., Finkelstein IJ (2024) Mammalian Antigen Display for Pandemic
Countermeasures. Methods in Molecular Biology. [IF=0.413, Cited=0, 38315367].
Soniat MM, Myler LR, Finkelstein IJ (2019) Assembling the Human Resectosome on DNA Curtains. Methods in Molecular
Biology. [IF=0.413, Cited=2, 31127580].
Myler LR, Soniat MM, Zhang X, ..., Finkelstein IJ (2019) Purification and Biophysical Characterization of the
Mre11-Rad50-Nbs1 Complex. Methods in Molecular Biology. [IF=0.413, Cited=3, 31147924].
Brown MW, de la Torre A, Finkelstein IJ (2016) Inserting Extrahelical Structures into Long DNA Substrates for Single-
Molecule Studies of DNA Mismatch Repair. None. [IF=None, Cited=0, 28062036].
Soniat MM, Myler LR, Schaub JM, ..., Finkelstein IJ (2017) Next-Generation DNA Curtains for Single-Molecule Studies of
Homologous Recombination. None. [IF=None, Cited=17, 28668123].
Dillard KE, Schaub JM, Brown MW, ..., Finkelstein IJ (2018) Sortase-mediated fluorescent labeling of CRISPR complexes.
None. [IF=None, Cited=3, 30691654].
Long SW, Olsen RJ, Christensen PA, ..., Musser JM (2021) Sequence Analysis of 20,453 Severe Acute Respiratory Syndrome
Coronavirus 2 Genomes from the Houston Metropolitan Area Identifies the Emergence and Widespread Distribution of
Multiple Isolates of All Major Variants of Concern. American Journal of Pathology. [IF=1.235, Cited=28, 33741335].
Olsen RJ, Christensen PA, Long SW, ..., Musser JM (2021) Trajectory of Growth of Severe Acute Respiratory Syndrome
Coronavirus 2 (SARS-CoV-2) Variants in Houston, Texas, January through May 2021, Based on 12,476 Genome Sequences.
American Journal of Pathology. [IF=1.235, Cited=14, 34303698].
Jung C, Hawkins JA, Jones SK, ..., Finkelstein IJ (2017) Massively Parallel Biophysical Analysis of CRISPR-Cas Complexes
on Next Generation Sequencing Chips. Cell. [IF=8.479, Cited=49, 28666121].
Dillard KE, Brown MW, Johnson NV, ..., Finkelstein IJ (2018) Assembly and Translocation of a CRISPR-Cas Primed
Acquisition Complex. Cell. [IF=8.479, Cited=49, 30343903].
Mallam AL, Sae-Lee W, Schaub JM, ..., Drew K (2019) Systematic Discovery of Endogenous Human Ribonucleoprotein
Complexes. Cell Reports. [IF=1.738, Cited=29, 31665645].
Javanmardi K, Segall-Shapiro TH, Chou CW, ..., Gollihar JD (2022) Antibody escape and cryptic cross-domain stabilization
in the SARS-CoV-2 Omicron spike protein. None. [IF=None, Cited=19, 35988543].
Jack A, Kim Y, Strom AR, ..., Brangwynne CP (2022) Compartmentalization of telomeres through DNA-scaffolded phase
separation. Developmental Cell. [IF=2.256, Cited=26, 35077681].
Robison AD, Finkelstein IJ (2014) High-throughput single-molecule studies of protein-DNA interactions. FEBS Letters.
[IF=0.871, Cited=6, 24859086].
Soniat MM, Nguyen G, Kuo HC, Finkelstein IJ (2022) The MRN complex and topoisomerase IIIa-RMI1/2 synchronize DNA
resection motor proteins. Journal of Biological Chemistry. [IF=1.122, Cited=3, 36529288].
Kaur P, Lu X, Xu Q, ..., Wang H (2023) High-speed AFM imaging reveals DNA capture and loop extrusion dynamics by
cohesin-NIPBL. Journal of Biological Chemistry. [IF=1.122, Cited=0, 37774974].
Kozlov AG, Cheng X, Zhang H, ..., Lohman TM (2022) How Glutamate Promotes Liquid-liquid Phase Separation and DNA Binding
Cooperativity of E. coli SSB Protein. Journal of Molecular Biology. [IF=1.281, Cited=14, 35351518].
Lee JY, Finkelstein IJ, Arciszewska LK, ..., Greene EC (2014) Single-molecule imaging of FtsK translocation reveals
mechanistic features of protein-protein collisions on DNA. Molecular Cell. [IF=2.773, Cited=36, 24768536].
Myler LR, Gallardo IF, Soniat MM, ..., Finkelstein IJ (2017) Single-Molecule Imaging Reveals How Mre11-Rad50-Nbs1
Initiates DNA Break Repair. Molecular Cell. [IF=2.773, Cited=99, 28867292].
Strohkendl I, Saifuddin FA, Rybarski JR, ..., Russell R (2018) Kinetic Basis for DNA Target Specificity of CRISPR-
Cas12a. Molecular Cell. [IF=2.773, Cited=109, 30078724].
Soniat MM, Myler LR, Kuo HC, ..., Finkelstein IJ (2019) RPA Phosphorylation Inhibits DNA Resection. Molecular Cell.
[IF=2.773, Cited=54, 31153714].
Javanmardi K, Chou CW, Terrace CI, ..., Finkelstein IJ (2021) Rapid characterization of spike variants via mammalian
cell surface display. Molecular Cell. [IF=2.773, Cited=27, 34919820].
Zhang H, Shi Z, Banigan EJ, ..., Finkelstein IJ (2023) CTCF and R-loops are boundaries of cohesin-mediated DNA looping.
Molecular Cell. [IF=2.773, Cited=6, 37536339].
Myler LR, Finkelstein IJ (2016) Eukaryotic resectosomes: A single-molecule perspective. Progress in Biophysics and
Molecular Biology. [IF=0.953, Cited=5, 27498169].
Robison AD, Finkelstein IJ (2014) Rapid prototyping of multichannel microfluidic devices for single-molecule DNA curtain
imaging. Analytical Chemistry. [IF=1.41, Cited=6, 24734940].
Spivey EC, Xhemalce B, Shear JB, Finkelstein IJ (2014) 3D-printed microfluidic microdissector for high-throughput
studies of cellular aging. Analytical Chemistry. [IF=1.41, Cited=21, 24992972].
Calcines-Cruz C, Finkelstein IJ, Hernandez-Garcia A (2021) CRISPR-Guided Programmable Self-Assembly of Artificial Virus-
Like Nucleocapsids. Nano Letters. [IF=1.873, Cited=8, 33729813].
Brown MW, Kim Y, Williams GM, ..., Finkelstein IJ (2016) Dynamic DNA binding licenses a repair factor to bypass
roadblocks in search of DNA lesions. Nature Communications. [IF=3.268, Cited=25, 26837705].
Seol JH, Holland C, Li X, ..., Lee SE (2018) Distinct roles of XPF-ERCC1 and Rad1-Rad10-Saw1 in replication-coupled and
uncoupled inter-strand crosslink repair. Nature Communications. [IF=3.268, Cited=6, 29795289].
Caron MC, Sharma AK, O'Sullivan J, ..., Masson JY (2019) Poly(ADP-ribose) polymerase-1 antagonizes DNA resection at
double-strand breaks. Nature Communications. [IF=3.268, Cited=86, 31273204].
Eslami-Mossallam B, Klein M, Smagt CVD, ..., Depken M (2022) A kinetic model predicts SpCas9 activity, improves off-
target classification, and reveals the physical basis of targeting fidelity. Nature Communications. [IF=3.268, Cited=9, 35292641].
Kuo HC, Prupes J, Chou CW, Finkelstein IJ (2024) Massively parallel profiling of RNA-targeting CRISPR-Cas13d. Nature
Communications. [IF=3.268, Cited=0, 38216559].
Hibshman GN, Bravo JPK, Hooper MM, ..., Taylor DW (2024) Unraveling the mechanisms of PAMless DNA interrogation by SpRY-
Cas9. Nature Communications. [IF=3.268, Cited=2, 38688943].
Leão P, Little ME, Appler KE, ..., Baker BJ (2024) Asgard archaea defense systems and their roles in the origin of
eukaryotic immunity. Nature Communications. [IF=3.268, Cited=0, 39085212].
Hu K, Chou CW, Wilke CO, Finkelstein IJ (2024) Distinct horizontal transfer mechanisms for type I and type V CRISPR-
associated transposons. Nature Communications. [IF=3.268, Cited=0, 39103341].
Frazer C, Staples MI, Kim Y, ..., Bennett RJ (2020) Epigenetic cell fate in Candida albicans is controlled by
transcription factor condensates acting at super-enhancer-like elements. Nature Microbiology. [IF=4.448, Cited=22, 32719507].
Jones SK, Hawkins JA, Johnson NV, ..., Finkelstein IJ (2020) Massively parallel kinetic profiling of natural and
engineered CRISPR nucleases. Nature Biotechnology. [IF=8.861, Cited=51, 32895548].
Schaub JM, Chou CW, Kuo HC, ..., Finkelstein IJ (2021) Expression and characterization of SARS-CoV-2 spike proteins.
None. [IF=None, Cited=24, 34611365].
Kim Y, de la Torre A, Leal AA, Finkelstein IJ (2017) Efficient modification of λ-DNA substrates for single-molecule
studies. Scientific Reports. [IF=1.312, Cited=10, 28522818].
Spivey EC, Finkelstein IJ (2014) From cradle to grave: high-throughput studies of aging in model organisms. None.
[IF=None, Cited=4, 24535099].
Blevins MS, Walker JN, Schaub JM, ..., Brodbelt JS (2021) Characterization of the T4 gp32-ssDNA complex by native,
cross-linking, and ultraviolet photodissociation mass spectrometry. Chemical Science. [IF=1.563, Cited=3, 34760161].
Myler LR, Gallardo IF, Zhou Y, ..., Finkelstein IJ (2016) Single-molecule imaging reveals the mechanism of Exo1
regulation by single-stranded DNA binding proteins. Proceedings of the National Academy of Sciences of the United States
of America. [IF=2.765, Cited=57, 26884156].
Hawkins JA, Jones SK, Finkelstein IJ, Press WH (2018) Indel-correcting DNA barcodes for high-throughput sequencing.
Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765, Cited=26, 29925596].
Bhattacharyya S, Soniat MM, Walker D, ..., Harshey RM (2018) Phage Mu Gam protein promotes NHEJ in concert with
Escherichia coli ligase. Proceedings of the National Academy of Sciences of the United States of America.
[IF=2.765, Cited=12, 30487222].
Press WH, Hawkins JA, Jones SK, ..., Finkelstein IJ (2020) HEDGES error-correcting code for DNA storage corrects indels
and allows sequence constraints. Proceedings of the National Academy of Sciences of the United States of America.
[IF=2.765, Cited=34, 32675237].
Rybarski JR, Hu K, Hill AM, ..., Finkelstein IJ (2021) Metagenomic discovery of CRISPR-associated transposons.
Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765, Cited=25, 34845024].
Zhang H, Schaub JM, Finkelstein IJ (2020) RADX condenses single-stranded DNA to antagonize RAD51 loading. Nucleic Acids
Research. [IF=4.663, Cited=11, 32621611].
Schaub JM, Soniat MM, Finkelstein IJ (2022) Polymerase theta-helicase promotes end joining by stripping single-stranded
DNA-binding proteins and bridging DNA ends. Nucleic Acids Research. [IF=4.663, Cited=14, 35357490].
Kim Y, Furman CM, Manhart CM, ..., Finkelstein IJ (2019) Intrinsically disordered regions regulate both catalytic and
non-catalytic activities of the MutLα mismatch repair complex. Nucleic Acids Research. [IF=4.663, Cited=20, 30541127].
Eichmiller R, Medina-Rivera M, DeSanto R, ..., Surtees JA (2018) Coordination of Rad1-Rad10 interactions with Msh2-Msh3,
Saw1 and RPA is essential for functional 3' non-homologous tail removal. Nucleic Acids Research. [IF=4.663, Cited=6, 29660012].
Simon AJ, Ellington AD, Finkelstein IJ (2019) Retrons and their applications in genome engineering. Nucleic Acids
Research. [IF=4.663, Cited=29, 31598685].
Hsieh CL, Goldsmith JA, Schaub JM, ..., McLellan JS (2020) Structure-based Design of Prefusion-stabilized SARS-CoV-2
Spikes. None. [IF=None, Cited=0, 32577660].
Long SW, Olsen RJ, Christensen PA, ..., Musser JM (2020) Molecular Architecture of Early Dissemination and Massive
Second Wave of the SARS-CoV-2 Virus in a Major Metropolitan Area. None. [IF=None, Cited=0, 33024977].
Goike J, Hsieh CL, Horton A, ..., Gollihar JD (2021) Synthetic repertoires derived from convalescent COVID-19 patients
enable discovery of SARS-CoV-2 neutralizing antibodies and a novel quaternary binding modality. None. [IF=None,
Cited=1, 33851158].
Hu K, Chia-Wei C, Wilke CO, Finkelstein IJ (2023) Distinct horizontal transfer mechanisms for type I and type V CRISPR-
associated transposons. None. [IF=None, Cited=0, 37502928].
Kuo HC, Prupes J, Chou CW, Finkelstein IJ (2023) Massively Parallel Profiling of RNA-targeting CRISPR-Cas13d. None.
[IF=None, Cited=0, 37034598].
Sang CC, Moore G, Tereshchenko M, ..., Lee HO (2024) PARP1 condensates differentially partition DNA repair proteins and
enhance DNA ligation. None. [IF=None, Cited=0, 38328070].
Deshpande RA, Myler LR, Soniat MM, ..., Paull TT (2020) DNA-dependent protein kinase promotes DNA end processing by MRN
and CtIP. Science advances. [IF=2.861, Cited=63, 31934630].
Strohkendl I, Saifuddin FA, Gibson BA, ..., Finkelstein IJ (2021) Inhibition of CRISPR-Cas12a DNA targeting by
nucleosomes and chromatin. Science advances. [IF=2.861, Cited=20, 33692102].
Kim Y, Shi Z, Zhang H, ..., Yu H (2019) Human cohesin compacts DNA by loop extrusion. Science. [IF=7.729, Cited=288, 31780627].
Voss WN, Hou YJ, Johnson NV, ..., Ippolito GC (2021) Prevalent, protective, and convergent IgG recognition of SARS-CoV-2
non-RBD spike epitopes. Science. [IF=7.729, Cited=143, 33947773].
Long SW, Olsen RJ, Christensen PA, ..., Musser JM (2020) Molecular Architecture of Early Dissemination and Massive
Second Wave of the SARS-CoV-2 Virus in a Major Metropolitan Area. mBio. [IF=1.357, Cited=80, 33127862].
Finkelstein IJ, Greene EC (2013) Molecular traffic jams on DNA. Annual Review of Biophysics. [IF=3.276, Cited=23, 23451891].
Sinan S, Appleby NM, Chou CW, ..., Russell R (2024) Kinetic dissection of pre-crRNA binding and processing by CRISPR-
Cas12a. RNA. [IF=0.956, Cited=0, 39009379].
Leung JW, Agarwal P, Canny MD, ..., Miller KM (2014) Nucleosome acidic patch promotes RNF168- and RING1B/BMI1-dependent
H2AX and H2A ubiquitination and DNA damage signaling. PLoS Genetics. [IF=1.236, Cited=64, 24603765].
Hill AM, Rybarski JR, Hu K, ..., Wilke CO (2021) Opfi: A Python package for identifying gene clusters in large genomics
and metagenomics data sets. None. [IF=None, Cited=1, 35445164].
Jones SK, Spivey EC, Rybarski JR, Finkelstein IJ (2018) A Microfluidic Device for Massively Parallel, Whole-lifespan
Imaging of Single Fission Yeast Cells. Bio-protocol. [IF=0.267, Cited=1, 29770351].
Spivey EC, Jones SK, Rybarski JR, ..., Finkelstein IJ (2017) An aging-independent replicative lifespan in a
symmetrically dividing eukaryote. eLife. [IF=1.743, Cited=20, 28139976].
Greenstein RA, Jones SK, Spivey EC, ..., Al-Sady B (2018) Noncoding RNA-nucleated heterochromatin spreading is
intrinsically labile and requires accessory elements for epigenetic stability. eLife. [IF=1.743, Cited=19, 30020075].
Forsberg KJ, Bhatt IV, Schmidtke DT, ..., Malik HS (2019) Functional metagenomics-guided discovery of potent Cas9
inhibitors in the human microbiome. eLife. [IF=1.743, Cited=33, 31502535].
Ma CH, Javanmardi K, Finkelstein IJ, Jayaram M (2021) Disintegration promotes protospacer integration by the Cas1-Cas2
complex. eLife. [IF=1.743, Cited=4, 34435949].

Publication with MISMATCHING institution:

Finkelstein IJ, Greene EC (2011) Supported lipid bilayers and DNA curtains for high-throughput single-molecule studies.
Methods in Molecular Biology. [IF=0.413, Cited=16, 21660710].
Finkelstein IJ, Greene EC (2009) XPD helicase speeds through a molecular traffic jam. Molecular Cell. [IF=2.773,
Cited=1, 19748351].
Gibb B, Silverstein TD, Finkelstein IJ, Greene EC (2012) Single-stranded DNA curtains for real-time single-molecule
visualization of protein-nucleic acid interactions. Analytical Chemistry. [IF=1.41, Cited=46, 22950646].
Merchant KA, Noid WG, Akiyama R, ..., Fayer MD (2003) Myoglobin-CO substate structures and dynamics: multidimensional
vibrational echoes and molecular dynamics simulations. Journal of the American Chemical Society. [IF=2.573, Cited=66, 14599220].
McClain BL, Finkelstein IJ, Fayer MD, ..., Fayer MD (2004) Dynamics of hemoglobin in human erythrocytes and in solution:
influence of viscosity studied by ultrafast vibrational echo experiments. Journal of the American Chemical Society.
[IF=2.573, Cited=16, 15571392].
Massari AM, Finkelstein IJ, McClain BL, ..., Fayer MD (2005) The influence of aqueous versus glassy solvents on protein
dynamics: vibrational echo experiments and molecular dynamics simulations. Journal of the American Chemical Society.
[IF=2.573, Cited=38, 16218622].
Massari AM, Finkelstein IJ, Fayer M, Fayer MD (2006) Dynamics of proteins encapsulated in silica sol-gel glasses studied
with IR vibrational echo spectroscopy. Journal of the American Chemical Society. [IF=2.573, Cited=28, 16551107].
Finkelstein IJ, Goj A, McClain BL, ..., Fayer MD (2005) Ultrafast dynamics of myoglobin without the distal histidine:
stimulated vibrational echo experiments and molecular dynamics simulations. Journal of Physical Chemistry B. [IF=0.893,
Cited=32, 16853158].
Massari AM, McClain BL, Finkelstein IJ, ..., Fayer MD (2006) Cytochrome c552 mutants: structure and dynamics at the
active site probed by multidimensional NMR and vibration echo spectroscopy. Journal of Physical Chemistry B. [IF=0.893,
Cited=7, 16986870].
Finkelstein IJ, Visnapuu ML, Greene EC (2010) Single-molecule imaging reveals mechanisms of protein disruption by a DNA
translocase. Nature. [IF=11.591, Cited=103, 21107319].
Finkelstein IJ, Zheng J, Ishikawa H, ..., Fayer MD (2007) Probing dynamics of complex molecular systems with ultrafast
2D IR vibrational echo spectroscopy. Physical Chemistry Chemical Physics. [IF=0.906, Cited=44, 17429547].
Finkelstein IJ, Greene EC (2008) Single molecule studies of homologous recombination. None. [IF=None, Cited=14, 18931785].
Finkelstein IJ, McClain BL, Fayer MD, ..., Fayer MD (2004) Fifth-order contributions to ultrafast spectrally resolved
vibrational echoes: heme-CO proteins. Journal of Chemical Physics. [IF=1.184, Cited=7, 15260618].
Kwak K, Park S, Finkelstein IJ, ..., Fayer MD (2007) Frequency-frequency correlation functions and apodization in two-
dimensional infrared vibrational echo spectroscopy: a new approach. Journal of Chemical Physics. [IF=1.184, Cited=128, 17902917].
Finkelstein IJ, Ishikawa H, Kim S, ..., Fayer MD (2007) Substrate binding and protein conformational dynamics measured
by 2D-IR vibrational echo spectroscopy. Proceedings of the National Academy of Sciences of the United States of America.
[IF=2.765, Cited=47, 17296942].
Ishikawa H, Finkelstein IJ, Kim S, ..., Fayer MD (2007) Neuroglobin dynamics observed with ultrafast 2D-IR vibrational
echo spectroscopy. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765,
Cited=41, 17916624].
Lee JY, Finkelstein IJ, Crozat E, ..., Greene EC (2012) Single-molecule imaging of DNA curtains reveals mechanisms of
KOPS sequence targeting by the DNA translocase FtsK. Proceedings of the National Academy of Sciences of the United
States of America. [IF=2.765, Cited=32, 22493241].
Yu H, Singh Gautam AK, Wilmington SR, ..., Matouschek A (2016) Conserved Sequence Preferences Contribute to Substrate
Recognition by the Proteasome. Journal of Biological Chemistry. [IF=1.122, Cited=34, 27226608].
Hsieh CL, Goldsmith JA, Schaub JM, ..., McLellan JS (2020) Structure-based design of prefusion-stabilized SARS-CoV-2
spikes. Science. [IF=7.729, Cited=608, 32703906].
Finkelstein IJ, Massari AM, Fayer MD, ..., Fayer MD (2007) Viscosity-dependent protein dynamics. Biophysical Journal.
[IF=0.842, Cited=22, 17446536].

Finkelstein, Ilya J

Publication with MATCHING institution:

Publication with MISMATCHING institution:

Publication with MISSING institution: