RAId_DbS: Peptide Identification using Database Searches with Realistic Statistics

por Alves, Gelio, Ogurtsov, Aleksey Y, Yu, Yi-Kuo
Publicado 2007

RAId_DbS: mass-spectrometry based peptide identification web server with knowledge integration

por Alves, Gelio, Ogurtsov, Aleksey Y, Yu, Yi-Kuo
Publicado 2008

RAId_aPS: MS/MS Analysis with Multiple Scoring Functions and Spectrum-Specific Statistics

por Alves, Gelio, Ogurtsov, Aleksey Y., Yu, Yi-Kuo
Publicado 2010

Molecular Isotopic Distribution Analysis (MIDAs) with Adjustable Mass Accuracy

por Alves, Gelio, Ogurtsov, Aleksey Y., Yu, Yi-Kuo
Publicado 2013

Computational models with thermodynamic and composition features improve siRNA design

por Shabalina, Svetlana A, Spiridonov, Alexey N, Ogurtsov, Aleksey Y
Publicado 2006

A periodic pattern of mRNA secondary structure created by the genetic code

por Shabalina, Svetlana A., Ogurtsov, Aleksey Y., Spiridonov, Nikolay A.
Publicado 2006

Role of mRNA structure in the control of protein folding

por Faure, Guilhem, Ogurtsov, Aleksey Y., Shabalina, Svetlana A., Koonin, Eugene V.
Publicado 2016

Optimized models for design of efficient miR30-based shRNAs

por Matveeva, Olga V., Nazipova, Nafisa N., Ogurtsov, Aleksey Y., Shabalina, Svetlana A.
Publicado 2012

Evolution at protein ends: major contribution of alternative transcription initiation and termination to the transcriptome and proteome diversity in mammals

por Shabalina, Svetlana A., Ogurtsov, Aleksey Y., Spiridonov, Nikolay A., Koonin, Eugene V.
Publicado 2014

Sequence characteristics define trade-offs between on-target and genome-wide off-target hybridization of oligoprobes

por Matveeva, Olga V., Ogurtsov, Aleksey Y., Nazipova, Nafisa N., Shabalina, Svetlana A.
Publicado 2018

Evolution of alternative and constitutive regions of mammalian 5'UTRs

por Resch, Alissa M, Ogurtsov, Aleksey Y, Rogozin, Igor B, Shabalina, Svetlana A, Koonin, Eugene V
Publicado 2009

Calibrating E-values for MS(2 )database search methods

por Alves, Gelio, Ogurtsov, Aleksey Y, Wu, Wells W, Wang, Guanghui, Shen, Rong-Fong, Yu, Yi-Kuo
Publicado 2007

Expression Patterns of Protein Kinases Correlate with Gene Architecture and Evolutionary Rates

por Ogurtsov, Aleksey Y., Mariño-Ramírez, Leonardo, Johnson, Gibbes R., Landsman, David, Shabalina, Svetlana A., Spiridonov, Nikolay A.
Publicado 2008

Distinct Patterns of Expression and Evolution of Intronless and Intron-Containing Mammalian Genes

por Shabalina, Svetlana A., Ogurtsov, Aleksey Y., Spiridonov, Alexey N., Novichkov, Pavel S., Spiridonov, Nikolay A., Koonin, Eugene V.
Publicado 2010

Detection of co-eluted peptides using database search methods

por Alves, Gelio, Ogurtsov, Aleksey Y, Kwok, Siwei, Wu, Wells W, Wang, Guanghui, Shen, Rong-Fong, Yu, Yi-Kuo
Publicado 2008

Rapid Classification and Identification of Multiple Microorganisms with Accurate Statistical Significance via High-Resolution Tandem Mass Spectrometry

por Alves, Gelio, Wang, Guanghui, Ogurtsov, Aleksey Y., Drake, Steven K., Gucek, Marjan, Sacks, David B., Yu, Yi-Kuo
Publicado 2018

Uncertainty-aware and interpretable evaluation of Cas9–gRNA and Cas12a–gRNA specificity for fully matched and partially mismatched targets with Deep Kernel Learning

por Kirillov, Bogdan, Savitskaya, Ekaterina, Panov, Maxim, Ogurtsov, Aleksey Y, Shabalina, Svetlana A, Koonin, Eugene V, Severinov, Konstantin V
Publicado 2021

Comparison of approaches for rational siRNA design leading to a new efficient and transparent method

por Matveeva, Olga, Nechipurenko, Yury, Rossi, Leo, Moore, Barry, Sætrom, Pål, Ogurtsov, Aleksey Y., Atkins, John F., Shabalina, Svetlana A.
Publicado 2007

Identification of Microorganisms by High Resolution Tandem Mass Spectrometry with Accurate Statistical Significance

por Alves, Gelio, Wang, Guanghui, Ogurtsov, Aleksey Y., Drake, Steven K., Gucek, Marjan, Suffredini, Anthony F., Sacks, David B., Yu, Yi-Kuo
Publicado 2015

Optimization of Duplex Stability and Terminal Asymmetry for shRNA Design

por Matveeva, Olga V., Kang, Yibin, Spiridonov, Alexey N., Sætrom, Pål, Nemtsov, Vladimir A., Ogurtsov, Aleksey Y., Nechipurenko, Yury D., Shabalina, Svetlana A.
Publicado 2010