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Items: 1 to 20 of 96

1.

Statistical test of structured continuous trees based on discordance matrix.

Bai X, Ma L, Wan L.

Bioinformatics. 2019 May 22. pii: btz425. doi: 10.1093/bioinformatics/btz425. [Epub ahead of print]

PMID:
31116393
2.

DensityPath: an algorithm to visualize and reconstruct cell state-transition path on density landscape for single-cell RNA sequencing data.

Chen Z, An S, Bai X, Gong F, Ma L, Wan L.

Bioinformatics. 2018 Dec 7. doi: 10.1093/bioinformatics/bty1009. [Epub ahead of print]

PMID:
30535348
3.

Diffusion maps for high-dimensional single-cell analysis of differentiation data.

Haghverdi L, Buettner F, Theis FJ.

Bioinformatics. 2015 Sep 15;31(18):2989-98. doi: 10.1093/bioinformatics/btv325. Epub 2015 May 21.

PMID:
26002886
4.

Spectral clustering based on learning similarity matrix.

Park S, Zhao H.

Bioinformatics. 2018 Jun 15;34(12):2069-2076. doi: 10.1093/bioinformatics/bty050.

5.

PROSSTT: probabilistic simulation of single-cell RNA-seq data for complex differentiation processes.

Papadopoulos N, Parra RG, Söding J.

Bioinformatics. 2019 Feb 1. doi: 10.1093/bioinformatics/btz078. [Epub ahead of print]

PMID:
30715210
6.

SinNLRR: a robust subspace clustering method for cell type detection by nonnegative and low rank representation.

Zheng R, Li M, Liang Z, Wu FX, Pan Y, Wang J.

Bioinformatics. 2019 Mar 1. pii: btz139. doi: 10.1093/bioinformatics/btz139. [Epub ahead of print]

PMID:
30821315
7.

Model-based branching point detection in single-cell data by K-branches clustering.

Chlis NK, Wolf FA, Theis FJ.

Bioinformatics. 2017 Oct 15;33(20):3211-3219. doi: 10.1093/bioinformatics/btx325.

8.

Scalable preprocessing for sparse scRNA-seq data exploiting prior knowledge.

Mukherjee S, Zhang Y, Fan J, Seelig G, Kannan S.

Bioinformatics. 2018 Jul 1;34(13):i124-i132. doi: 10.1093/bioinformatics/bty293.

9.

ClusterMap: Compare multiple Single Cell RNA-Seq datasets across different experimental conditions.

Gao X, Hu D, Gogol M, Li H.

Bioinformatics. 2019 Jan 14. doi: 10.1093/bioinformatics/btz024. [Epub ahead of print]

PMID:
30649203
10.

Robust and sparse correlation matrix estimation for the analysis of high-dimensional genomics data.

Serra A, Coretto P, Fratello M, Tagliaferri R, Stegle O.

Bioinformatics. 2018 Feb 15;34(4):625-634. doi: 10.1093/bioinformatics/btx642.

PMID:
29040390
11.

ASAP: a web-based platform for the analysis and interactive visualization of single-cell RNA-seq data.

Gardeux V, David FPA, Shajkofci A, Schwalie PC, Deplancke B.

Bioinformatics. 2017 Oct 1;33(19):3123-3125. doi: 10.1093/bioinformatics/btx337.

12.

Optimal Gene Filtering for Single-Cell data (OGFSC) - a gene filtering algorithm for single-cell RNA-seq data.

Hao J, Cao W, Huang J, Zou X, Han ZG.

Bioinformatics. 2018 Dec 10. doi: 10.1093/bioinformatics/bty1016. [Epub ahead of print]

PMID:
30535000
13.

Probabilistic Count Matrix Factorization for Single Cell Expression Data Analysis.

Durif G, Modolo L, Mold JE, Lambert-Lacroix S, Picard F.

Bioinformatics. 2019 Mar 13. pii: btz177. doi: 10.1093/bioinformatics/btz177. [Epub ahead of print]

PMID:
30865271
14.

Single-cell RNA-seq Interpretations using Evolutionary Multiobjective Ensemble Pruning.

Li X, Zhang S, Wong KC.

Bioinformatics. 2018 Dec 28. doi: 10.1093/bioinformatics/bty1056. [Epub ahead of print]

PMID:
30596898
15.

Quantifying circular RNA expression from RNA-seq data using model-based framework.

Li M, Xie X, Zhou J, Sheng M, Yin X, Ko EA, Zhou T, Gu W.

Bioinformatics. 2017 Jul 15;33(14):2131-2139. doi: 10.1093/bioinformatics/btx129.

PMID:
28334396
16.

SCOUT: A new algorithm for the inference of pseudo-time trajectory using single-cell data.

Wei J, Zhou T, Zhang X, Tian T.

Comput Biol Chem. 2019 Jun;80:111-120. doi: 10.1016/j.compbiolchem.2019.03.013. Epub 2019 Mar 24.

PMID:
30947069
17.

Detecting hidden batch factors through data-adaptive adjustment for biological effects.

Yi H, Raman AT, Zhang H, Allen GI, Liu Z.

Bioinformatics. 2018 Apr 1;34(7):1141-1147. doi: 10.1093/bioinformatics/btx635.

18.

scMatch: a single-cell gene expression profile annotation tool using reference datasets.

Hou R, Denisenko E, Forrest ARR.

Bioinformatics. 2019 Apr 26. pii: btz292. doi: 10.1093/bioinformatics/btz292. [Epub ahead of print]

PMID:
31028376
19.

Cell-level somatic mutation detection from single-cell RNA-sequencing.

Vu TN, Nguyen HN, Calza S, Kalari KR, Wang L, Pawitan Y.

Bioinformatics. 2019 Apr 26. pii: btz288. doi: 10.1093/bioinformatics/btz288. [Epub ahead of print]

PMID:
31028395
20.

TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees.

Mai U, Mirarab S.

BMC Genomics. 2018 May 8;19(Suppl 5):272. doi: 10.1186/s12864-018-4620-2.

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