Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 101

1.

High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes.

Singh M, Al-Eryani G, Carswell S, Ferguson JM, Blackburn J, Barton K, Roden D, Luciani F, Giang Phan T, Junankar S, Jackson K, Goodnow CC, Smith MA, Swarbrick A.

Nat Commun. 2019 Jul 16;10(1):3120. doi: 10.1038/s41467-019-11049-4.

2.

Evaluation of the capacities of mouse TCR profiling from short read RNA-seq data.

Bai Y, Wang D, Li W, Huang Y, Ye X, Waite J, Barry T, Edelmann KH, Levenkova N, Guo C, Skokos D, Wei Y, Macdonald LE, Fury W.

PLoS One. 2018 Nov 15;13(11):e0207020. doi: 10.1371/journal.pone.0207020. eCollection 2018.

3.

Improving nanopore read accuracy with the R2C2 method enables the sequencing of highly multiplexed full-length single-cell cDNA.

Volden R, Palmer T, Byrne A, Cole C, Schmitz RJ, Green RE, Vollmers C.

Proc Natl Acad Sci U S A. 2018 Sep 25;115(39):9726-9731. doi: 10.1073/pnas.1806447115. Epub 2018 Sep 10.

4.

Transcript Profiling Using Long-Read Sequencing Technologies.

Bayega A, Wang YC, Oikonomopoulos S, Djambazian H, Fahiminiya S, Ragoussis J.

Methods Mol Biol. 2018;1783:121-147. doi: 10.1007/978-1-4939-7834-2_6.

PMID:
29767360
5.

Targeted reconstruction of T cell receptor sequence from single cell RNA-seq links CDR3 length to T cell differentiation state.

Afik S, Yates KB, Bi K, Darko S, Godec J, Gerdemann U, Swadling L, Douek DC, Klenerman P, Barnes EJ, Sharpe AH, Haining WN, Yosef N.

Nucleic Acids Res. 2017 Sep 19;45(16):e148. doi: 10.1093/nar/gkx615.

6.

Optimized Threshold Inference for Partitioning of Clones From High-Throughput B Cell Repertoire Sequencing Data.

Nouri N, Kleinstein SH.

Front Immunol. 2018 Jul 26;9:1687. doi: 10.3389/fimmu.2018.01687. eCollection 2018.

7.

Assessment of T-cell receptor repertoire and clonal expansion in peripheral T-cell lymphoma using RNA-seq data.

Gong Q, Wang C, Zhang W, Iqbal J, Hu Y, Greiner TC, Cornish A, Kim JH, Rabadan R, Abate F, Wang X, Inghirami GG, McKeithan TW, Chan WC.

Sci Rep. 2017 Sep 12;7(1):11301. doi: 10.1038/s41598-017-11310-0.

8.

Single read and paired end mRNA-Seq Illumina libraries from 10 nanograms total RNA.

Sengupta S, Bolin JM, Ruotti V, Nguyen BK, Thomson JA, Elwell AL, Stewart R.

J Vis Exp. 2011 Oct 27;(56):e3340. doi: 10.3791/3340.

9.

Impact of sequencing depth and read length on single cell RNA sequencing data of T cells.

Rizzetto S, Eltahla AA, Lin P, Bull R, Lloyd AR, Ho JWK, Venturi V, Luciani F.

Sci Rep. 2017 Oct 6;7(1):12781. doi: 10.1038/s41598-017-12989-x.

10.

Profiling the B/T cell receptor repertoire of lymphocyte derived cell lines.

Tan KT, Ding LW, Sun QY, Lao ZT, Chien W, Ren X, Xiao JF, Loh XY, Xu L, Lill M, Mayakonda A, Lin DC, Yang H, Koeffler HP.

BMC Cancer. 2018 Oct 1;18(1):940. doi: 10.1186/s12885-018-4840-5.

11.

High-resolution transcriptome analysis with long-read RNA sequencing.

Cho H, Davis J, Li X, Smith KS, Battle A, Montgomery SB.

PLoS One. 2014 Sep 24;9(9):e108095. doi: 10.1371/journal.pone.0108095. eCollection 2014.

12.

Transcriptome analysis using next generation sequencing reveals molecular signatures of diabetic retinopathy and efficacy of candidate drugs.

Kandpal RP, Rajasimha HK, Brooks MJ, Nellissery J, Wan J, Qian J, Kern TS, Swaroop A.

Mol Vis. 2012;18:1123-46. Epub 2012 May 2.

13.

RNA sequencing read depth requirement for optimal transcriptome coverage in Hevea brasiliensis.

Chow KS, Ghazali AK, Hoh CC, Mohd-Zainuddin Z.

BMC Res Notes. 2014 Feb 1;7:69. doi: 10.1186/1756-0500-7-69.

14.

Antigen Receptor Sequence Reconstruction and Clonality Inference from scRNA-Seq Data.

Lindeman I, Stubbington MJT.

Methods Mol Biol. 2019;1935:223-249. doi: 10.1007/978-1-4939-9057-3_15.

PMID:
30758830
15.

Clonal distribution of BCR-ABL1 mutations and splice isoforms by single-molecule long-read RNA sequencing.

Cavelier L, Ameur A, Häggqvist S, Höijer I, Cahill N, Olsson-Strömberg U, Hermanson M.

BMC Cancer. 2015 Feb 12;15:45. doi: 10.1186/s12885-015-1046-y.

16.

The Landscape of SNCA Transcripts Across Synucleinopathies: New Insights From Long Reads Sequencing Analysis.

Tseng E, Rowell WJ, Glenn OC, Hon T, Barrera J, Kujawa S, Chiba-Falek O.

Front Genet. 2019 Jul 9;10:584. doi: 10.3389/fgene.2019.00584. eCollection 2019.

17.

Reversible Oligonucleotide Chain Blocking Enables Bead Capture and Amplification of T-Cell Receptor α and β Chain mRNAs.

Hanson WM, Chen Z, Jackson LK, Attaf M, Sewell AK, Heemstra JM, Phillips JD.

J Am Chem Soc. 2016 Sep 7;138(35):11073-6. doi: 10.1021/jacs.6b04465. Epub 2016 Aug 1.

18.

RNase H-dependent PCR-enabled T-cell receptor sequencing for highly specific and efficient targeted sequencing of T-cell receptor mRNA for single-cell and repertoire analysis.

Li S, Sun J, Allesøe R, Datta K, Bao Y, Oliveira G, Forman J, Jin R, Olsen LR, Keskin DB, Shukla SA, Wu CJ, Livak KJ.

Nat Protoc. 2019 Aug;14(8):2571-2594. doi: 10.1038/s41596-019-0195-x. Epub 2019 Jul 24.

PMID:
31341290
19.

Improving RNA-Seq expression estimation by modeling isoform- and exon-specific read sequencing rate.

Liu X, Shi X, Chen C, Zhang L.

BMC Bioinformatics. 2015 Oct 16;16:332. doi: 10.1186/s12859-015-0750-6.

20.

Current and Future Methods for mRNA Analysis: A Drive Toward Single Molecule Sequencing.

Bayega A, Fahiminiya S, Oikonomopoulos S, Ragoussis J.

Methods Mol Biol. 2018;1783:209-241. doi: 10.1007/978-1-4939-7834-2_11. Review.

PMID:
29767365

Supplemental Content

Support Center