Literature DB >> 34651640

Estimating cell type-specific differential expression using deconvolution.

Maria K Jaakkola1, Laura L Elo2,3.   

Abstract

Entities:  

Year:  2022        PMID： 34651640      PMCID： PMC8769698          DOI： 10.1093/bib/bbab433

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN： 1467-5463            Impact factor:   11.622


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  47 in total

Review 1.  An assessment of computational methods for estimating purity and clonality using genomic data derived from heterogeneous tumor tissue samples.

Authors:  Vinod Kumar Yadav; Subhajyoti De
Journal:  Brief Bioinform       Date:  2014-02-20       Impact factor: 11.622

2.  DeconRNASeq: a statistical framework for deconvolution of heterogeneous tissue samples based on mRNA-Seq data.

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Journal:  Bioinformatics       Date:  2013-02-21       Impact factor: 6.937

3.  Patch-Seq Links Single-Cell Transcriptomes to Human Islet Dysfunction in Diabetes.

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4.  TOAST: improving reference-free cell composition estimation by cross-cell type differential analysis.

Authors:  Ziyi Li; Hao Wu
Journal:  Genome Biol       Date:  2019-09-04       Impact factor: 13.583

Review 5.  Beta cells in type 1 diabetes: mass and function; sleeping or dead?

Authors:  Richard A Oram; Emily K Sims; Carmella Evans-Molina
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6.  Predicting bacterial infection outcomes using single cell RNA-sequencing analysis of human immune cells.

Authors:  Noa Bossel Ben-Moshe; Shelly Hen-Avivi; Natalia Levitin; Dror Yehezkel; Marije Oosting; Leo A B Joosten; Mihai G Netea; Roi Avraham
Journal:  Nat Commun       Date:  2019-07-22       Impact factor: 14.919

7.  Accurate estimation of cell-type composition from gene expression data.

Authors:  Daphne Tsoucas; Rui Dong; Haide Chen; Qian Zhu; Guoji Guo; Guo-Cheng Yuan
Journal:  Nat Commun       Date:  2019-07-05       Impact factor: 14.919

8.  Cell-type-specific resolution epigenetics without the need for cell sorting or single-cell biology.

Authors:  Elior Rahmani; Regev Schweiger; Brooke Rhead; Lindsey A Criswell; Lisa F Barcellos; Eleazar Eskin; Saharon Rosset; Sriram Sankararaman; Eran Halperin
Journal:  Nat Commun       Date:  2019-07-31       Impact factor: 14.919

9.  A mixture model for expression deconvolution from RNA-seq in heterogeneous tissues.

Authors:  Yi Li; Xiaohui Xie
Journal:  BMC Bioinformatics       Date:  2013-04-10       Impact factor: 3.169

10.  Benchmarking of cell type deconvolution pipelines for transcriptomics data.

Authors:  Joseph E Powell; Pieter Mestdagh; Katleen De Preter; Francisco Avila Cobos; José Alquicira-Hernandez
Journal:  Nat Commun       Date:  2020-11-06       Impact factor: 14.919
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