Binsheng Gong
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View article: Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology
Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology Open
View article: Attractiveness of Food Baits and Tea Volatile Components to Mirid Bug Apolygus lucorum in Tea Plantation
Attractiveness of Food Baits and Tea Volatile Components to Mirid Bug Apolygus lucorum in Tea Plantation Open
Apolygus lucorum is one of the main pests affecting tea quality. Chemical control is the primary method for managing this pest, but issues such as pesticide residues and the development of resistance are inevitable. The pest’s extensive ho…
View article: Dissecting Sex‐Specific Pathology in K18‐hACE2 Transgenic Mice Infected With Different SARS‐CoV‐2 Variants
Dissecting Sex‐Specific Pathology in K18‐hACE2 Transgenic Mice Infected With Different SARS‐CoV‐2 Variants Open
Sex‐biased differences in COVID‐19 outcomes in relation to individual SARS‐CoV‐2 variants are not well understood. In this study, lungs and nasal cavities of age‐matched female and male K18‐hACE2 transgenic mice were collected for dissecti…
View article: Augmenting precision medicine via targeted RNA-Seq detection of expressed mutations
Augmenting precision medicine via targeted RNA-Seq detection of expressed mutations Open
View article: Zika and dengue viruses differentially modulate host mRNA processing factors defining its virulence
Zika and dengue viruses differentially modulate host mRNA processing factors defining its virulence Open
Changes in global climate have contributed to increased tick and mosquito (vector) populations and subsequent vector-borne flavivirus infections in humans. This increase poses a threat to the safety of human-derived biologics such as cell …
View article: Zika and Dengue Viruses Differentially Modulate Host mRNA Processing Factors Defining Its Virulence
Zika and Dengue Viruses Differentially Modulate Host mRNA Processing Factors Defining Its Virulence Open
Rising global temperatures coupled with increasing international travel, and trade are contributing to spread of vectors such as ticks and mosquitoes, resulting in a surge of vector-borne flavivirus infection in human population. Furthermo…
View article: Targeted DNA-seq and RNA-seq of Reference Samples with Short-read and Long-read Sequencing
Targeted DNA-seq and RNA-seq of Reference Samples with Short-read and Long-read Sequencing Open
View article: Towards accurate indel calling for oncopanel sequencing through an international pipeline competition at precisionFDA
Towards accurate indel calling for oncopanel sequencing through an international pipeline competition at precisionFDA Open
Accurately calling indels with next-generation sequencing (NGS) data is critical for clinical application. The precisionFDA team collaborated with the U.S. Food and Drug Administration’s (FDA’s) National Center for Toxicological Research (…
View article: Extend the benchmarking indel set by manual review using the individual cell line sequencing data from the Sequencing Quality Control 2 (SEQC2) project
Extend the benchmarking indel set by manual review using the individual cell line sequencing data from the Sequencing Quality Control 2 (SEQC2) project Open
View article: SEQC2 Oncopanel Sequencing Working Group - Extended Benchmarking Indel Set by Manual Review
SEQC2 Oncopanel Sequencing Working Group - Extended Benchmarking Indel Set by Manual Review Open
Extend the Benchmarking Indel Set by Manual Review Using the Individual Cell line Sequencing Data from the Sequencing Quality Control 2 (SEQC2) project
View article: Single-cell RNA-sequencing and subcellular spatial transcriptomics facilitate the translation of liver microphysiological systems for regulatory application
Single-cell RNA-sequencing and subcellular spatial transcriptomics facilitate the translation of liver microphysiological systems for regulatory application Open
View article: SEQC2 Oncopanel Sequencing Working Group - Extended Benchmarking Indel Set by Manual Review
SEQC2 Oncopanel Sequencing Working Group - Extended Benchmarking Indel Set by Manual Review Open
Extend the Benchmarking Indel Set by Manual Review Using the Individual Cell line Sequencing Data from the Sequencing Quality Control 2 (SEQC2) project
View article: A Verified Genomic Reference Sample for Assessing Performance of Variant Calling
A Verified Genomic Reference Sample for Assessing Performance of Variant Calling Open
The consensus target region (CTR) for hg19 and hg38.A list of identified variants or positives (> 40,000) and negative 956 positions (> 10,000,000) in the957 coding regions of the genome for Pool Sample A.Droplet digital PCR data from the …
View article: Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples
Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples Open
View article: Ultra-deep multi-oncopanel sequencing of benchmarking samples with a wide range of variant allele frequencies
Ultra-deep multi-oncopanel sequencing of benchmarking samples with a wide range of variant allele frequencies Open
View article: Ultra-deep sequencing data from a liquid biopsy proficiency study demonstrating analytic validity
Ultra-deep sequencing data from a liquid biopsy proficiency study demonstrating analytic validity Open
Recently we reported the accuracy and reproducibility of circulating tumor DNA (ctDNA) assays using a unique set of reference materials, associated analytical framework, and suggested best practices. With the rapid adoption of ctDNA sequen…
View article: Additional file 2 of Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples
Additional file 2 of Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples Open
Additional file 2. A multiple tab Microsoft Excel file of FFPE experiment information, extensive quality check data and analysis results for FFPE samples, and analysis results for free DNA samples.
View article: Additional file 3 of Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples
Additional file 3 of Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples Open
Additional file 3. List of known variants for four participating oncology panels.
View article: Assessment of Clonal Expansion Using CarcSeq Measurement of Lung Cancer Driver Mutations and Correlation With Mouse Strain- and Sex-Related Incidence of Spontaneous Lung Neoplasia
Assessment of Clonal Expansion Using CarcSeq Measurement of Lung Cancer Driver Mutations and Correlation With Mouse Strain- and Sex-Related Incidence of Spontaneous Lung Neoplasia Open
Quantification of variation in levels of spontaneously occurring cancer driver mutations (CDMs) was developed to assess clonal expansion and predict future risk of neoplasm development. Specifically, an error-corrected next-generation sequ…
View article: Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions
Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions Open
View article: A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency
A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency Open
View article: Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology
Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology Open
View article: Deep oncopanel sequencing reveals fixation time- and within block position-dependent quality degradation in FFPE processed samples
Deep oncopanel sequencing reveals fixation time- and within block position-dependent quality degradation in FFPE processed samples Open
Clinical laboratories routinely use formalin-fixed paraffin-embedded (FFPE) tissue or cell block cytology samples in oncology panel sequencing to identify mutations that can predict patient response to targeted therapy. To understand the t…
View article: CarcSeq Measurement of Rat Mammary Cancer Driver Mutations and Relation to Spontaneous Mammary Neoplasia
CarcSeq Measurement of Rat Mammary Cancer Driver Mutations and Relation to Spontaneous Mammary Neoplasia Open
The ability to deduce carcinogenic potential from subchronic, repeat dose rodent studies would constitute a major advance in chemical safety assessment and drug development. This study investigated an error-corrected NGS method (CarcSeq) f…
View article: [ILM] FFPE VCF file and panel bed
[ILM] FFPE VCF file and panel bed Open
Variant calling with the Illumina TruSight Tumor 170 oncopanel
View article: A Verified Genomic Reference Sample for Assessing Performance of Variant Calling
A Verified Genomic Reference Sample for Assessing Performance of Variant Calling Open
The consensus target region (CTR) for hg19 and hg38.A list of identified variants or positives (> 40,000) and negative 956 positions (> 10,000,000) in the957 coding regions of the genome for Pool Sample A.Droplet digital PCR data from the …
View article: [AZ650] FFPE VCF file and panel bed
[AZ650] FFPE VCF file and panel bed Open
Variant Calling with AstraZeneca 650 Oncopanel
View article: [BRP] FFPE VCF file and panel bed
[BRP] FFPE VCF file and panel bed Open
Variant calling with the Burning Rock Oncopanel
View article: Consensus target region(CTR) bed
Consensus target region(CTR) bed Open
Consensus target region for high confidence variants calling
View article: Droplet Digital PCR validation
Droplet Digital PCR validation Open
Droplet digital PCR data from the independent orthogonal validation effort