Category Archives: Citation

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 »

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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 »

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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 »

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Spread of Chikungunya Virus East/Central/South African Genotype in Northeast Brazil

Posted on October 25, 2017 by Alex

October 2017 Authors: Antonio Charlys da Costa, Julien Thézé, Shirley Cavalcante Vasconcelos Komninakis, Rodrigo Lopes Sanz-Duro, et al. Info: Scientists in Brazil and collaborators in the U.S. and Europe traced the transmission path of a recent chikungunya virus outbreak. They … more »

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Micro RNA’s (miRNA’s) may help explain expression of multiple genes in Alzheimer’s Frontal Cortex

Posted on September 20, 2017 by Alex

September 2017 Authors: James Bennett and Paula Keeney Info: Scientists from Neurodegeneration Therapeutics used RNA-seq to compare microRNAs found in Alzheimer’s brain samples and controls. They identified 55 up-regulated genes and 191 down-regulated genes in the Alzheimer’s samples. PippinHT was … more »

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Rapid and affordable size-selected PacBio single-molecule real-time sequencing template library construction using the bead-beating DNA extraction method

Posted on September 18, 2017 by Alex

September 2017 Authors: Kengo Kato, Masanori Hashino, Tamaki Ito, Mari Matsui, et al. Info: Researchers developed and validated a streamlined protocol for PacBio sequencing sample prep. The method involves bead-beating for DNA isolation. For the project, the team used Pippin … more »

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Single molecule counting and assessment of random molecular tagging errors with transposable giga-scale error-correcting barcodes

Posted on September 18, 2017 by Alex

September 2017 Authors: Billy Lau and Hanlee Ji Info: Scientists aimed to address errors that occur with conventional molecular barcodes for RNA-seq workflows. They developed transposable error-correcting barcodes with tens of billions of unique labels and found that this approach … more »

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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 »

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A SINE insertion in ATP1B2 in Belgian Shepherd dogs affected by spongy degeneration with cerebellar ataxia (SDCA2)

Posted on August 18, 2017 by Alex

August 2017 Authors: Nico Mauri, Miriam Kleiter, Elisabeth Dietschi, Michael Leschnik, et al. Info: Scientists in Europe and the US studied the genetic basis for a neurodegenerative disorder in dogs. Through whole genome sequencing data, they found a SINE insertion … more »

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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 »

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