Srinivas Ramachandran
Srinivas Ramachandran
Assistant Professor, University of Colorado School of Medicine
Verified email at ucdenver.edu - Homepage
Title
Cited by
Cited by
Year
Nucleosomes Are Context-Specific, H2A. Z-Modulated Barriers to RNA Polymerase
CM Weber, S Ramachandran, S Henikoff
Molecular Cell 53 (5), 819-830, 2014
2482014
Automated minimization of steric clashes in protein structures
S Ramachandran, P Kota, F Ding, NV Dokholyan
Proteins: Structure, Function, and Bioinformatics 79 (1), 261-270, 2011
1912011
Discrete molecular dynamics: an efficient and versatile simulation method for fine protein characterization
D Shirvanyants, F Ding, D Tsao, S Ramachandran, NV Dokholyan
The Journal of Physical Chemistry B 116 (29), 8375-8382, 2012
1302012
Transcription of Nearly All Yeast RNA Polymerase II-Transcribed Genes Is Dependent on Transcription Factor TFIID
L Warfield, S Ramachandran, T Baptista, D Devys, L Tora, S Hahn
Molecular Cell 68 (1), 118-129. e5, 2017
832017
Transcriptional Regulators Compete with Nucleosomes Post-replication
S Ramachandran, S Henikoff
Cell 165 (3), 580-592, 2016
812016
The budding yeast Centromere DNA Element II wraps a stable Cse4 hemisome in either orientation in vivo
S Henikoff, S Ramachandran, K Krassovsky, TD Bryson, CA Codomo, ...
eLife 3, e01861, 2014
792014
Asymmetric nucleosomes flank promoters in the budding yeast genome
S Ramachandran, GE Zentner, S Henikoff
Genome research 25, 381–390, 2014
622014
Precise genome-wide mapping of single nucleosomes and linkers in vivo
RV Chereji, S Ramachandran, TD Bryson, S Henikoff
Genome Biology 19 (1), 19, 2018
572018
ATP hydrolysis at one of the two sites in ABC transporters initiates transport related conformational transitions
G Gyimesi, S Ramachandran, P Kota, NV Dokholyan, B Sarkadi, ...
Biochimica et Biophysica Acta (BBA)-Biomembranes 1808 (12), 2954-2964, 2011
492011
Replicating nucleosomes
S Ramachandran, S Henikoff
Science Advances 1 (7), e1500587, 2015
472015
Structural determinants of skeletal muscle ryanodine receptor gating
S Ramachandran, A Chakraborty, L Xu, Y Mei, M Samsó, NV Dokholyan, ...
Journal of Biological Chemistry 288 (9), 6154-6165, 2013
472013
Solution Structure of the DNA Damage Lesion 8-Oxoguanosine from Ultraviolet Resonance Raman Spectroscopy
N Jayanth, S Ramachandran, M Puranik
The Journal of Physical Chemistry A 113 (8), 1459-1471, 2009
462009
Gaia: automated quality assessment of protein structure models
P Kota, F Ding, S Ramachandran, NV Dokholyan
Bioinformatics 27 (16), 2209-2215, 2011
422011
Transcription and Remodeling Produce Asymmetrically Unwrapped Nucleosomal Intermediates
S Ramachandran, K Ahmad, S Henikoff
Molecular cell 68 (6), 1038-1053. e4, 2017
382017
Structural basis for the sequence-dependent effects of platinum–DNA adducts
S Ramachandran, BR Temple, SG Chaney, NV Dokholyan
Nucleic acids research 37 (8), 2434-2448, 2009
372009
A structural model of the pore-forming region of the skeletal muscle ryanodine receptor (RyR1)
S Ramachandran, AWR Serohijos, L Xu, G Meissner, NV Dokholyan
PLoS computational biology 5 (4), e1000367, 2009
282009
Computational approaches to understanding protein aggregation in neurodegeneration
RL Redler, D Shirvanyants, O Dagliyan, F Ding, DN Kim, P Kota, ...
Journal of molecular cell biology 6 (2), 104-115, 2014
252014
Flanking bases influence the nature of DNA distortion by platinum 1, 2-intrastrand (GG) cross-links
D Bhattacharyya, S Ramachandran, S Sharma, W Pathmasiri, CL King, ...
PLoS one 6 (8), e23582, 2011
222011
Nucleosome dynamics during chromatin remodeling in vivo
S Ramachandran, S Henikoff
Nucleus 7 (1), 20-26, 2016
182016
Homology Modeling: Generating Structural Models to Understand Protein Function and Mechanism
S Ramachandran, NV Dokholyan
Computational Modeling of Biological Systems, 97-116, 2012
172012
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Articles 1–20