Tag Archives: BluePippin

Assessing a single targeted next generation sequencing for human leukocyte antigen typing protocol for interoperability, as performed by users with variable experience

Posted on October 30, 2017 by Alex

October 2017 Authors: Manish Gandhi, Deborah Ferriola, Curt Lind, Jamie Duke, et al. Info: Scientists from the Mayo Clinic, Children’s Hospital of Philadelphia, and other institutions teamed up to develop a streamlined, NGS-based HLA typing protocol. This method uses the … more »

Posted in Citation | Tagged , , | Comments Off on Assessing a single targeted next generation sequencing for human leukocyte antigen typing protocol for interoperability, as performed by users with variable experience

Comprehensive Transcriptome Profiling of Balding and Non-Balding Scalps in Trichorhinophalangeal Syndrome Type I Patient

Posted on October 30, 2017 by Alex

October 2017 Authors: Yun-Ji Kim, Byulee Yoon, Kyudong Han, Byung Cheol Park Info: Scientists in Korea compared transcriptomes of RNA extracted from balding and non-balding scalp regions on the same patient to understand the genetics of hair loss. They found … more »

Posted in Citation | Tagged , , | Comments Off on Comprehensive Transcriptome Profiling of Balding and Non-Balding Scalps in Trichorhinophalangeal Syndrome Type I Patient

What’s the difference between the 4-10 Kb vs2 and 6-10 Kb vs3 high pass protocols?

Posted on September 15, 2017 by Alex

Customers may have noticed two very similar cassette definitions; 0.75%DF Marker S1 high-pass 4-10kb vs2 and 0.75%DF Marker S1 High-Pass 6-10kb vs3. Since these two protocols cover a similar range, they might seem a bit redundant. However, both of these … more »

Posted in Blog, Tips | Tagged , , | Comments Off on What’s the difference between the 4-10 Kb vs2 and 6-10 Kb vs3 high pass protocols?

Complete Genome Sequences of Seven Strains Composing a Model Bacterial Community of Maize Roots

Posted on September 8, 2017 by Alex

September 2017 Authors: Ben Niu and Roberto Kolter Info: Scientists from Harvard Medical School released the full genome sequences of seven bacterial species they chose for a model community to understand microbial effects on the growth of maize root. They … more »

Posted in Citation | Tagged , | Comments Off on Complete Genome Sequences of Seven Strains Composing a Model Bacterial Community of Maize Roots

Dual redundant sequencing strategy: Full-length gene characterisation of 1056 novel and confirmatory HLA alleles

Posted on July 25, 2017 by Alex

August 2017 Authors: Albrecht V, Zweiniger C, Surendranath V, Lang K, et al. Info: Scientists in Germany describe a high-throughput approach for characterizing novel HLA alleles. The method involves sequencing the full gene with PacBio and MiSeq. For PacBio sequencing, … more »

Posted in Citation | Tagged , , , | Comments Off on Dual redundant sequencing strategy: Full-length gene characterisation of 1056 novel and confirmatory HLA alleles

Transcriptome Profiling Using Single-Molecule Direct RNA Sequencing Approach for In-depth Understanding of Genes in Secondary Metabolism Pathways of Camellia sinensis

Posted on July 24, 2017 by Alex

July 2017 Authors: Qingshan Xu, Junyan Zhu, Shiqi Zhao, Yan Hou, et al. Info: Scientists from Anhui Agricultural University in China performed long-read transcriptome sequencing of the tea plant Camellia sinensis to better understand its production of flavonoids, theanine, and … more »

Posted in Citation | Tagged , , | Comments Off on Transcriptome Profiling Using Single-Molecule Direct RNA Sequencing Approach for In-depth Understanding of Genes in Secondary Metabolism Pathways of Camellia sinensis

Error rates, PCR recombination, and sampling depth in HIV-1 whole genome deep sequencing

Posted on July 24, 2017 by Alex

July 2017 Authors: Fabio Zanini, Johanna Brodin, Jan Albert, Richard Neher Info: Researchers in Germany and Sweden expounded on a previous deep sequencing study of HIV-1 populations to evaluate challenges such as error profiles and proper controls. For the whole … more »

Posted in Citation | Tagged | Comments Off on Error rates, PCR recombination, and sampling depth in HIV-1 whole genome deep sequencing

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

The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly

Posted on June 25, 2017 by Alex

June 2017 Authors: An-Yun Chang, Stephane Castel, Evan Ernst, Hyun Soo Kim, Robert Martienssen Info: Cold Spring Harbor Laboratory researchers studied the Rct1 protein in S. pombe and found that it is involved in processing pericentromeric transcripts into siRNAs. For … more »

Posted in Citation | Tagged , , | Comments Off on The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly

Condensin II is anchored by TFIIIC and H3K4me3 in the mammalian genome and supports the expression of active dense gene clusters

Posted on June 25, 2017 by Alex

June 2017 Authors: Kobe Yuen, Brian Slaughter, and Jennifer Gerton Info: Scientists in Kansas used the 4C-seq method to study the chromosome complex condensin II in mouse and human genomes. They found that it plays a role in maintaining high … more »

Posted in Citation | Tagged | Comments Off on Condensin II is anchored by TFIIIC and H3K4me3 in the mammalian genome and supports the expression of active dense gene clusters