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Ramzan Umarov
Ramzan Umarov
Postdoctoral researcher, RIKEN
在 riken.jp 的电子邮件经过验证
标题
引用次数
引用次数
年份
DEEPre: sequence-based enzyme EC number prediction by deep learning
Y Li, S Wang, R Umarov, B Xie, M Fan, L Li, X Gao
Bioinformatics 34 (5), 760-769, 2018
2692018
Recognition of prokaryotic and eukaryotic promoters using convolutional deep learning neural networks
RK Umarov, VV Solovyev
PloS one 12 (2), e0171410, 2017
2352017
TSSPlant: a new tool for prediction of plant Pol II promoters
IA Shahmuradov, RK Umarov, VV Solovyev
Nucleic acids research 45 (8), e65-e65, 2017
1212017
Promoter analysis and prediction in the human genome using sequence-based deep learning models
R Umarov, H Kuwahara, Y Li, X Gao, V Solovyev
Bioinformatics 35 (16), 2730-2737, 2019
972019
RNA secondary structure prediction by learning unrolled algorithms
X Chen, Y Li, R Umarov, X Gao, L Song
arXiv preprint arXiv:2002.05810, 2020
932020
A deep learning framework to predict binding preference of RNA constituents on protein surface
JH Lam, Y Li, L Zhu, R Umarov, H Jiang, A Héliou, FK Sheong, T Liu, ...
Nature communications 10 (1), 4941, 2019
842019
Sequence2vec: a novel embedding approach for modeling transcription factor binding affinity landscape
H Dai, R Umarov, H Kuwahara, Y Li, L Song, X Gao
Bioinformatics 33 (22), 3575-3583, 2017
582017
HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes
Y Li, Z Xu, W Han, H Cao, R Umarov, A Yan, M Fan, H Chen, CM Duarte, ...
Microbiome 9, 1-12, 2021
572021
Analysis of transcript-deleterious variants in Mendelian disorders: implications for RNA-based diagnostics
S Maddirevula, H Kuwahara, N Ewida, HE Shamseldin, N Patel, ...
Genome biology 21, 1-21, 2020
572020
ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation
R Umarov, Y Li, T Arakawa, S Takizawa, X Gao, E Arner
PLOS Computational Biology 17, 1-18, 2021
112021
DeepCellState: An autoencoder-based framework for predicting cell type specific transcriptional states induced by drug treatment
R Umarov, Y Li, E Arner
PLoS Computational Biology 17 (10), e1009465, 2021
92021
SBOLme: a repository of SBOL parts for metabolic engineering
H Kuwahara, X Cui, R Umarov, R Grunberg, CJ Myers, X Gao
ACS Synthetic Biology 6 (4), 732-736, 2017
82017
ACRE: Absolute concentration robustness exploration in module-based combinatorial networks
H Kuwahara, R Umarov, I Almasri, X Gao
Synthetic Biology 2 (1), ysx001, 2017
42017
System and method for promoter prediction in human genome
X Gao, R Umarov
US Patent App. 17/297,233, 2021
22021
Novel computational methods for promoter identification and analysis
R Umarov
22020
HMD-ARG: Identifying antibiotic resistance genes through machine learning
Y Li, Z Xu, W Han, H Cao, R Umarov, A Yan, M Fan, H Chen, C Duarte, ...
12021
NNfold: RNA secondary structure prediction by deep learning with an architecture imposing contextual constraining
C Van Neste, R Umarov, Y Li, A Salhi, H Kuwahara, X Gao
Available at SSRN 3813288, 2021
12021
A DeepFake framework for prediction of cell type specific transcriptional states induced by drug treatment
R Umarov, E Arner
bioRxiv, 2020.12. 14.422792, 2020
12020
Enhancer target prediction: state-of-the-art approaches and future prospects
R Umarov, CC Hon
Biochemical Society Transactions 51 (5), 1975-1988, 2023
2023
NNfold: RNA secondary structure prediction by deep learning
R Umarov, Y Li, C Van Neste
2020
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