| Year |
Citation |
Score |
| 2024 |
Suita Y, Bright H, Pu Y, Toruner MD, Idehen J, Tapinos N, Singh R. Machine learning on multiple epigenetic features reveals H3K27Ac as a driver of gene expression prediction across patients with glioblastoma. Biorxiv : the Preprint Server For Biology. PMID 38979226 DOI: 10.1101/2024.06.25.600585 |
0.318 |
|
| 2024 |
Murtaza G, Butaney B, Wagner J, Singh R. scGrapHiC: deep learning-based graph deconvolution for Hi-C using single cell gene expression. Bioinformatics (Oxford, England). 40: i490-i500. PMID 38940151 DOI: 10.1093/bioinformatics/btae223 |
0.375 |
|
| 2024 |
Zheng S, Thakkar N, Harris HL, Liu S, Zhang M, Gerstein M, Aiden EL, Rowley MJ, Noble WS, Gürsoy G, Singh R. Predicting A/B compartments from histone modifications using deep learning. Iscience. 27: 109570. PMID 38646172 DOI: 10.1016/j.isci.2024.109570 |
0.559 |
|
| 2023 |
Zhang J, Singh R. Investigating the Complexity of Gene Co-expression Estimation for Single-cell Data. Biorxiv : the Preprint Server For Biology. PMID 36747724 DOI: 10.1101/2023.01.24.525447 |
0.336 |
|
| 2022 |
Berger B, Tian D, Li WV, El-Kebir M, Tomescu AI, Singh R, Beerenwinkel N, Li Y, Boucher C, Bar-Joseph Z. What are the keys to succeeding as a computational biologist in today's research climate? Cell Systems. 13: 781-785. PMID 36265464 DOI: 10.1016/j.cels.2022.09.005 |
0.471 |
|
| 2022 |
Demetci P, Santorella R, Chakravarthy M, Sandstede B, Singh R. SCOTv2: Single-Cell Multiomic Alignment with Disproportionate Cell-Type Representation. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 36251763 DOI: 10.1089/cmb.2022.0270 |
0.766 |
|
| 2022 |
Bigness J, Loinaz X, Patel S, Larschan E, Singh R. Integrating Long-Range Regulatory Interactions to Predict Gene Expression Using Graph Convolutional Networks. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 35325548 DOI: 10.1089/cmb.2021.0316 |
0.623 |
|
| 2022 |
Demetci P, Santorella R, Sandstede B, Noble WS, Singh R. SCOT: Single-Cell Multi-Omics Alignment with Optimal Transport. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 29: 3-18. PMID 35050714 DOI: 10.1089/cmb.2021.0446 |
0.755 |
|
| 2022 |
Demetci P, Santorella R, Sandstede B, Noble WS, Singh R. Single-Cell Multiomics Integration by SCOT. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 34985990 DOI: 10.1089/cmb.2021.0477 |
0.752 |
|
| 2021 |
Bonora G, Ramani V, Singh R, Fang H, Jackson DL, Srivatsan S, Qiu R, Lee C, Trapnell C, Shendure J, Duan Z, Deng X, Noble WS, Disteche CM. Single-cell landscape of nuclear configuration and gene expression during stem cell differentiation and X inactivation. Genome Biology. 22: 279. PMID 34579774 DOI: 10.1186/s13059-021-02432-w |
0.521 |
|
| 2021 |
Conard AM, Goodman N, Hu Y, Perrimon N, Singh R, Lawrence C, Larschan E. TIMEOR: a web-based tool to uncover temporal regulatory mechanisms from multi-omics data. Nucleic Acids Research. PMID 34125906 DOI: 10.1093/nar/gkab384 |
0.676 |
|
| 2020 |
Singh R, Demetci P, Bonora G, Ramani V, Lee C, Fang H, Duan Z, Deng X, Shendure J, Disteche C, Noble WS. Unsupervised manifold alignment for single-cell multi-omics data. Acm-Bcb ... ... : the ... Acm Conference On Bioinformatics, Computational Biology and Biomedicine. Acm Conference On Bioinformatics, Computational Biology and Biomedicine. 2020: 1-10. PMID 33954299 DOI: 10.1145/3388440.3412410 |
0.751 |
|
| 2020 |
Blakely D, Collins E, Singh R, Norton A, Lanchantin J, Qi Y. FastSK: fast sequence analysis with gapped string kernels. Bioinformatics (Oxford, England). 36: i857-i865. PMID 33381828 DOI: 10.1093/bioinformatics/btaa817 |
0.525 |
|
| 2020 |
Schreiber J, Singh R, Bilmes J, Noble WS. A pitfall for machine learning methods aiming to predict across cell types. Genome Biology. 21: 282. PMID 33213499 DOI: 10.1186/s13059-020-02177-y |
0.549 |
|
| 2019 |
Liu J, Huang Y, Singh R, Vert JP, Noble WS. Jointly Embedding Multiple Single-Cell Omics Measurements. Algorithms in Bioinformatics : ... International Workshop, Wabi ..., Proceedings. Wabi (Workshop). 143. PMID 34632462 DOI: 10.4230/LIPIcs.WABI.2019.10 |
0.626 |
|
| 2018 |
Sekhon A, Singh R, Qi Y. DeepDiff: DEEP-learning for predicting DIFFerential gene expression from histone modifications. Bioinformatics (Oxford, England). 34: i891-i900. PMID 30423076 DOI: 10.1093/Bioinformatics/Bty612 |
0.579 |
|
| 2017 |
Singh R, Lanchantin J, Sekhon A, Qi Y. Attend and Predict: Understanding Gene Regulation by Selective Attention on Chromatin. Advances in Neural Information Processing Systems. 30: 6785-6795. PMID 30147283 |
0.601 |
|
| 2017 |
Wang B, Singh R, Qi Y. A constrained $$\ell $$1 minimization approach for estimating multiple sparse Gaussian or nonparanormal graphical models Machine Learning. 106: 1381-1417. DOI: 10.1007/S10994-017-5635-7 |
0.675 |
|
| 2016 |
Lanchantin J, Singh R, Wang B, Qi Y. DEEP MOTIF DASHBOARD: VISUALIZING AND UNDERSTANDING GENOMIC SEQUENCES USING DEEP NEURAL NETWORKS. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 22: 254-265. PMID 27896980 |
0.683 |
|
| 2016 |
Singh R, Lanchantin J, Robins G, Qi Y. Transfer String Kernel for Cross-Context DNA-Protein Binding Prediction. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. PMID 27654939 DOI: 10.1109/Tcbb.2016.2609918 |
0.55 |
|
| 2016 |
Singh R, Lanchantin J, Robins G, Qi Y. DeepChrome: deep-learning for predicting gene expression from histone modifications. Bioinformatics (Oxford, England). 32: i639-i648. PMID 27587684 DOI: 10.1093/Bioinformatics/Btw427 |
0.547 |
|
| 2015 |
Singh R, Kuscu C, Quinlan A, Qi Y, Adli M. Cas9-chromatin binding information enables more accurate CRISPR off-target prediction. Nucleic Acids Research. PMID 26032770 DOI: 10.1093/Nar/Gkv575 |
0.547 |
|
| Show low-probability matches. |