Tag Archives: SageELF

Nemertean and phoronid genomes reveal lophotrochozoan evolution and the origin of bilaterian heads

Posted on January 4, 2018 by Alex

December 2017 Authors: Yi-Jyun Luo, Miyuki Kanda, Ryo Koyanagi, Kanako Hisata, et al. Info: Scientists from the Okinawa Institute of Science and Technology Graduate University and Okayama University in Japan generated draft genomes and transcriptomes of ribbon worms and horseshoe … more »

Posted in Citation | Tagged , | Comments Off on Nemertean and phoronid genomes reveal lophotrochozoan evolution and the origin of bilaterian heads

A high-quality genome assembly of quinoa provides insights into the molecular basis of salt bladder-based salinity tolerance and the exceptional nutritional value

Posted on October 31, 2017 by Alex

October 2017 Authors: Changsong Zou, Aojun Chen, Lihong Xiao, Heike Muller, et al. Info: Scientists deployed several sequencing platforms to characterize the genome of Chenopodium quinoa, an important and highly nutritious cereal crop. They analyzed the assembly to better understand … more »

Posted in Citation | Tagged | Comments Off on A high-quality genome assembly of quinoa provides insights into the molecular basis of salt bladder-based salinity tolerance and the exceptional nutritional value

Identification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify

Posted on October 30, 2017 by Alex

October 2017 Authors: Malgorzata Komor, Thang Pham, Annemieke Hiemstra, Sander Piersma, et al. Info: In this paper, scientists from the Netherlands Cancer Institute, VU University Medical Center, and other institutions describe results from a new pipeline to detect differentially expressed … more »

Posted in Citation | Tagged , | Comments Off on Identification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify

Poster: Gauging Repeat Expansion Size Quickly for Clinical Use

Posted on October 6, 2017 by Alex

Patients with hereditary ALS-FTLD (Lou Gehrig’s disease, marked by frontotemporal lobar degeneration) typically have a hexanucleotide repeat expansion in C9orf72. The size of that repeat expansion can be indicative of age of onset, severity of symptoms, and more, so it’s … more »

Posted in Blog | Tagged | Comments Off on Poster: Gauging Repeat Expansion Size Quickly for Clinical Use

PacBio Users: Size Selection Is Essential for Generating Excellent Results

Posted on July 6, 2017 by Alex

The Sage Science team was delighted to attend and co-sponsor PacBio’s annual East Coast user group meeting in Baltimore last week, particularly since there was a half-day session devoted to our favorite subject: sample prep. There were plenty of customer … more »

Posted in Blog | Tagged , , , , | Comments Off on PacBio Users: Size Selection Is Essential for Generating Excellent Results

Long-Read Isoform Sequencing Reveals a Hidden Complexity of the Transcriptional Landscape of Herpes Simplex Virus Type 1

Posted on June 12, 2017 by Alex

June 2017 Authors: Dóra Tombácz, Zsolt Csabai, Attila Szűcs, Zsolt Balázs, et al. Info: Scientists from Hungary and California conducted isoform sequencing with PacBio to analyze the transcriptome of herpes simplex virus type 1. They discovered dozens of previously unidentified … more »

Posted in Citation | Tagged , , | Comments Off on Long-Read Isoform Sequencing Reveals a Hidden Complexity of the Transcriptional Landscape of Herpes Simplex Virus Type 1

Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis

Posted on June 10, 2017 by Alex

June 2017 Authors: Jason Weirather, Mariateresa de Cesare, Yunhao Wang, Paolo Piazza, Vittorio Sebastiano, Xiu-Jie Wang, David Buck, Kin Fai Au Info: In this F1000 publication, scientists describe an evaluation of long-read sequencing technologies, finding that PacBio provides better data … more »

Posted in Citation | Tagged , , | Comments Off on Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis

Targeted capture and sequencing of gene-sized DNA molecules

Posted on January 9, 2017 by Alex

December 2016 Authors: Michael Giolai, Pirita Paajanen, Walter Verweij, Lawrence Percival-Alwyn, et al. Info: Scientists adapted the RenSeq capture method for long-read PacBio sequencing, optimizing the method through improved shearing, size selection, and PCR amplification. They used SageELF extensively to … more »

Posted in Citation | Tagged , | Comments Off on Targeted capture and sequencing of gene-sized DNA molecules

Preprints Galore!

Posted on December 8, 2016 by Alex

We normally wait until papers come out in scientific journals before reporting on them here, but there are so many great preprints featuring Sage Science tools we couldn’t resist pointing them out. (On a side note, the rising numbers of … more »

Posted in Blog | Tagged , , | Comments Off on Preprints Galore!

At the University of Florida, SageELF Delivers Better Sizing for ddRAD-seq and Long-Read Pipelines

Posted on October 12, 2016 by Alex

Clients of the NextGen DNA Sequencing core at the University of Florida in Gainesville rely on Scientific Director David Moraga Amador to find and validate the best technologies for their projects. In addition to bringing in the best sequencers, that … more »

Posted in Blog | Tagged , , | Comments Off on At the University of Florida, SageELF Delivers Better Sizing for ddRAD-seq and Long-Read Pipelines