Publication

BioTuring’s publications Research with our products

Title	DOI
Benchmarking AlphaSC: A Leap in Single-Cell Data Processing	bioRxiv 10.1101/2023.11.28;doi:10.1101/2023.11.28.569108v1
IC-VAE: A Novel Deep Learning Framework for Interpreting Multiplexed Tissue Imaging Data.	bioRxiv 2023.11.06.565771; doi: 10.1101/2023.11.06.565771v1
Venice: A New Algorithm for Finding Marker Genes in Single-Cell Transcriptomic Data	bioRxiv 2020.11.16.384479; doi: 10.1101/2020.11.16.384479v1
An Entropy Approach for Choosing Gene Expression Cutoff	bioRxiv 2022.05.05.490711; doi: 10.1101/2022.05.05.490711v1
Hera-T: an efficient and accurate approach for quantifying gene abundances from 10X-Chromium data with high rates of non-exonic reads	bioRxiv 530501; doi: 10.1101/530501
A revisit of RSEM generative model and its EM algorithm for quantifying transcript abundances	bioRxiv 503672; doi: 10.1101/503672
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing	J Comput Biol 2012 May;19(5):455-77; doi: 10.1089/cmb.2012.0021
Differential responses to lithium in hyperexcitable neurons from patients with bipolar disorder	Nature. 2016 Feb 11;530(7589):242; doi: 10.1038/nature1618
Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons	Nat Protoc. 2016 Mar;11(3):499-524; doi: 10.1038/nprot.2016.015
Ragout—a reference-assisted assembly tool for bacterial genomes	Bioinformatics. 2014 Jun 15;30(12):i302-9; doi: 10.1093/bioinformatics/btu280
Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci	Nat Genet. 2018 Nov;50(11):1574-1583; doi: 10.1038/s41588-018-0223-8
Sibelia: a scalable and comprehensive synteny block generation tool for closely related microbial genomes	Lecture Notes in Computer Science(), vol 8126. Springer, Berlin, Heidelberg; doi: 10.1007/978-3-642-40453-5_17
Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers	J Comput Biol. 2011 Nov; 18(11): 1625–1634; doi: 10.1089/cmb.2011.0151
ExSPAnder: a universal repeat resolver for DNA fragment assembly	Bioinformatics, Volume 30, Issue 12, 15 June 2014, Pages i293–i301; doi: 10.1093/bioinformatics/btu266
DRIMM-Synteny: decomposing genomes into evolutionary conserved segments	Bioinformatics. 2010 Oct 15;26(20):2509-16. doi; doi: 10.1093/bioinformatics/btq465

Title

Benchmarking AlphaSC: A Leap in Single-Cell Data Processing

DOI

bioRxiv 10.1101/2023.11.28;doi:10.1101/2023.11.28.569108v1

Title

IC-VAE: A Novel Deep Learning Framework for Interpreting Multiplexed Tissue Imaging Data.

DOI

bioRxiv 2023.11.06.565771; doi: 10.1101/2023.11.06.565771v1

Title

Venice: A New Algorithm for Finding Marker Genes in Single-Cell Transcriptomic Data

DOI

bioRxiv 2020.11.16.384479; doi: 10.1101/2020.11.16.384479v1

Title

An Entropy Approach for Choosing Gene Expression Cutoff

DOI

bioRxiv 2022.05.05.490711; doi: 10.1101/2022.05.05.490711v1

Title

Hera-T: an efficient and accurate approach for quantifying gene abundances from 10X-Chromium data with high rates of non-exonic reads

DOI

bioRxiv 530501; doi: 10.1101/530501

Title

A revisit of RSEM generative model and its EM algorithm for quantifying transcript abundances

DOI

bioRxiv 503672; doi: 10.1101/503672

Title

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

DOI

J Comput Biol 2012 May;19(5):455-77; doi: 10.1089/cmb.2012.0021

Title

Differential responses to lithium in hyperexcitable neurons from patients with bipolar disorder

DOI

Nature. 2016 Feb 11;530(7589):242; doi: 10.1038/nature1618

Title

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons

DOI

Nat Protoc. 2016 Mar;11(3):499-524; doi: 10.1038/nprot.2016.015

Title

Ragout—a reference-assisted assembly tool for bacterial genomes

DOI

Bioinformatics. 2014 Jun 15;30(12):i302-9; doi: 10.1093/bioinformatics/btu280

Title

Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

DOI

Nat Genet. 2018 Nov;50(11):1574-1583; doi: 10.1038/s41588-018-0223-8

Title

Sibelia: a scalable and comprehensive synteny block generation tool for closely related microbial genomes

DOI

Lecture Notes in Computer Science(), vol 8126. Springer, Berlin, Heidelberg; doi: 10.1007/978-3-642-40453-5_17

Title

Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers

DOI

J Comput Biol. 2011 Nov; 18(11): 1625–1634; doi: 10.1089/cmb.2011.0151

Title

ExSPAnder: a universal repeat resolver for DNA fragment assembly

DOI

Bioinformatics, Volume 30, Issue 12, 15 June 2014, Pages i293–i301; doi: 10.1093/bioinformatics/btu266

Title

DRIMM-Synteny: decomposing genomes into evolutionary conserved segments

DOI

Bioinformatics. 2010 Oct 15;26(20):2509-16. doi; doi: 10.1093/bioinformatics/btq465