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Recent Posts
- Identifying the best PCR enzyme for library amplification in NGS
- Whole genome sequencing identifies associations for nonsyndromic sagittal craniosynostosis with the intergenic region of BMP2 and noncoding RNA gene LINC01428
- Mature microRNA-binding protein QKI promotes microRNA-mediated gene silencing
- In vitro size-selection of short circulating tumor DNA fragments from late-stage lung cancer patients enhance the detection of mutations and aneuploidies
- The haplotype-resolved T2T carnation (Dianthus caryophyllus) genome reveal the correlation between genome architecture and gene expression
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Author Archives: Alex
Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome
March 2019 Authors: Jared P. Steranka, Zuojian Tang, Mark Grivainis, Cheng Ran Lisa Huang, Lindsay M. Payer, Fernanda O. R. Rego, Thiago Luiz Araujo Miller, Pedro A. F. Galante, Sitharam Ramaswami, Adriana Heguy, David Fenyö, Jef D. Boeke & Kathleen … more »
Posted in Citation
Tagged new method, Pippin Prep, TIPseq, transposon
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Identification of whole blood mRNA and microRNA biomarkers of tissue damage and immune function resulting from amphetamine exposure or heat stroke in adult male rats
February 2019 Authors: Luısa Camacho, Camila S. Silva, Joseph P. Hanig, Robert P. Schleimer, Nysia I. George, John F. Bowyer Info: A report from the USDA and others evaluate the effect of amphetamine and methamphetamine toxicity on immune systems and … more »
AGBT 2019 Re-Cap
AGBT 2019 was a smashing success this year. Featuring a triumphant return to Marco Island FL with postcard perfect weather, the science was (as usual) top-notch. The renovated Marriott greatly upgraded its conference facilities and added an attractive new tower … more »
Posted in Blog
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Iso-Seq Allows Genome-Independent Transcriptome Profiling of Grape Berry Development
March 2019 Authors: Andrea Minio, Mélanie Massonnet, Rosa Figueroa-Balderas, Amanda M. Vondras, Barbara Blanco-Ulate, and Dario Cantu Info: Researchers used PacBio’s Iso-Seq method to sequence full-length cDNA transcripts from ripening Cabernet Savignon berries resulting in 1,5000 cultivar-specific genes. The authors … more »
Posted in Citation
Tagged BluePippin, iso-seq, isoseq
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Cancer stem cell–associated miRNAs serve as prognostic biomarkers in colorectal cancer
March 2019 Authors: Shusuke Toden, Shigeyasu Kunitoshi, Jacob Cardenas, Jinghua Gu, Elizabeth Hutchins, Kendall Van Keuren-Jensen, Hiroyuki Uetake, Yuji Toiyama, and Ajay Goel Info: This study evaluates cancer stems cells (CSC) which resist chemotherapy agents and have high tumor initiation … more »
Gestational jet lag predisposes to later-life skeletal and cardiac disease
February 2019 Authors: Inês Chaves, Bram van der Eerden, Ruben Boers, Joachim Boers, Astrid A. Streng, Yanto Ridwan, Marijke Schreuders-Koedam, Marijn Vermeulen, Ingrid van der Pluijm, Jeroen Essers, Joost Gribnau, Irwin K. M. Reiss & Gijsbertus T. J. van der … more »
Posted in Citation
Tagged CpG island, MED-seq, methylation, PippinHT
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Linked-Read Sequencing Advances Understanding of Cancers
A new study* from the University of Connecticut Medical School, Jackson Labs, and collaborators demonstrate the utility of using emulsion based linked-read sequencing (10X Genomics) for cancer research. Published in January’s Otology & Neurotology studies patients with Neurofibromatosis Type 2 … more »
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SageELF Size Selection for PacBio Circular Consensus Sequencing
A new preprint has landed on BioRxiv that reports on high-accuracy circular consensus sequencing (CCS) on the PacBio Sequel. The study, “Highly-accurate long-read sequencing improves variant detection and assembly of a human genome”, is authored by PacBio and an impressive … more »
Posted in Blog
Tagged long-read sequencing, PacBio, SageELF
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Enhanced detection of circulating tumor DNA by fragment size analysis
November 2018 Authors: Florent Mouliere et al. Info: This study from Cancer Research UK and a large team of collaborators is a continuation of work evaluating circulating tumor DNA (ctDNA) and the significance of sub-167 base pair cell-free DNA as … more »
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Small-seq for single-cell small-RNA sequencing
September 2018 Authors: Michael Hagemann-Jensen, Ilgar Abdullayev, Rickard Sandberg and Omid R Faridani Info: A new protocol from researchers at the Karolinska Institutet and the Ludwig Institute for Cancer Research outline a method for making small RNA sequencing libraries from … more »
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