Vicki Gamble
YOU?
Author Swipe
View article: Distinct 5′ and 3′ Coverage Biases Shape Transcriptome Interpretation in Nanopore Direct RNA versus PCR-cDNA Sequencing
Distinct 5′ and 3′ Coverage Biases Shape Transcriptome Interpretation in Nanopore Direct RNA versus PCR-cDNA Sequencing Open
Long-read RNA sequencing enables isoform-resolved transcriptomics, but library preparation introduces systematic biases that shape biological interpretation. We benchmarked Oxford Nanopore’s two protocols—PCR-cDNA and direct RNA—using SKMM…
View article: A systems-based approach to uterine fibroids identifies differential splicing associated with abnormal uterine bleeding
A systems-based approach to uterine fibroids identifies differential splicing associated with abnormal uterine bleeding Open
View article: ATF4-Mediated Metabolic Stress Response as a Therapeutic Vulnerability in Chordoma
ATF4-Mediated Metabolic Stress Response as a Therapeutic Vulnerability in Chordoma Open
Chordoma, a rare primary bone malignancy, currently lacks effective targeted therapies. Despite surgical resection and adjuvant radiotherapy, prognosis remains poor. Recent preclinical studies have highlighted potential therapeutic targets…
View article: Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences
Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences Open
Single-cell transcriptomics, which utilises barcodes and unique molecular identifiers (UMIs) for polyA+ mRNA capture, is compromised by oligonucleotide synthesis errors. To address this, we modified the oligonucleotide capture design and i…
View article: Anchor-Enhanced Bead Design for Reduced Oligonucleotide Synthesis Errors in Single-cell sequencing
Anchor-Enhanced Bead Design for Reduced Oligonucleotide Synthesis Errors in Single-cell sequencing Open
Single-cell transcriptomics, reliant on the incorporation of barcodes and unique molecular identifiers (UMIs) into captured polyA+ mRNA, faces a significant challenge due to synthesis errors in oligonucleotide capture sequences. These inac…
View article: Discovery of a Potent, Selective, and Cell-Active SPIN1 Inhibitor
Discovery of a Potent, Selective, and Cell-Active SPIN1 Inhibitor Open
The methyl-lysine reader protein SPIN1 plays important roles in various human diseases. However, targeting methyl-lysine reader proteins has been challenging. Very few cellularly active SPIN1 inhibitors have been developed. We previously r…
View article: A systems-based approach to uterine fibroids identifies differential splicing associated with abnormal uterine bleeding
A systems-based approach to uterine fibroids identifies differential splicing associated with abnormal uterine bleeding Open
Uterine fibroids (UFs), benign tumours prevalent in up to 80% of women of reproductive age, are associated with significant morbidity, including abnormal uterine bleeding, pain and infertility. Despite identification of key genomic alterat…
View article: Correcting PCR amplification errors in unique molecular identifiers to generate accurate numbers of sequencing molecules
Correcting PCR amplification errors in unique molecular identifiers to generate accurate numbers of sequencing molecules Open
Unique molecular identifiers are random oligonucleotide sequences that remove PCR amplification biases. However, the impact that PCR associated sequencing errors have on the accuracy of generating absolute counts of RNA molecules is undera…
View article: Discovery of PFI-6, a small-molecule chemical probe for the YEATS domain of MLLT1 and MLLT3
Discovery of PFI-6, a small-molecule chemical probe for the YEATS domain of MLLT1 and MLLT3 Open
View article: Correcting PCR amplification errors in unique molecular identifiers to generate absolute numbers of sequencing molecules
Correcting PCR amplification errors in unique molecular identifiers to generate absolute numbers of sequencing molecules Open
Unique Molecular Identifiers (UMIs) are random oligonucleotide sequences that remove PCR amplification biases. However, the impact that PCR associated sequencing errors have on the accuracy of generating absolute counts of RNA molecules is…
View article: Discovery of High-Affinity Small-Molecule Binders of the Epigenetic Reader YEATS4
Discovery of High-Affinity Small-Molecule Binders of the Epigenetic Reader YEATS4 Open
A series of small-molecule YEATS4 binders have been discovered as part of an ongoing research effort to generate high-quality probe molecules for emerging and/or challenging epigenetic targets. Analogues such as 4d and 4e dem…
View article: Discovery of a Selective Inhibitor for the YEATS Domains of ENL/AF9
Discovery of a Selective Inhibitor for the YEATS Domains of ENL/AF9 Open
View article: Discovery of an MLLT1/3 YEATS Domain Chemical Probe
Discovery of an MLLT1/3 YEATS Domain Chemical Probe Open
YEATS domain (YD) containing proteins are an emerging class of epigenetic targets in drug discovery. Dysregulation of these modified lysine‐binding proteins has been linked to the onset and progression of cancers. We herein report the disc…
View article: Entdeckung einer chemischen Sonde für MLLT1/3‐YEATS‐Domänen
Entdeckung einer chemischen Sonde für MLLT1/3‐YEATS‐Domänen Open
YEATS‐Domänen(YD)‐enthaltende Proteine sind eine neue Klasse epigenetischer Zielstrukturen für die Wirkstoffentwicklung. Die YD‐enthaltenden Proteine MLLT1 (ENL/YEATS1) und MLLT3 (AF9/MLLT3) sind oft in Krebs dereguliert und wurden daher a…
View article: Discovery of an MLLT1/3 YEATS Domain Chemical Probe
Discovery of an MLLT1/3 YEATS Domain Chemical Probe Open
YEATS domain (YD) containing proteins are an emerging class of epigenetic targets in drug discovery. Dysregulation of these modified lysine binding proteins has been linked to the onset and progression of cancers. We herein report the disc…
View article: Assessing histone demethylase inhibitors in cells: lessons learned
Assessing histone demethylase inhibitors in cells: lessons learned Open
View article: MOESM10 of Assessing histone demethylase inhibitors in cells: lessons learned
MOESM10 of Assessing histone demethylase inhibitors in cells: lessons learned Open
Additional file 10. Methods and chemical synthesis.
View article: MOESM3 of Assessing histone demethylase inhibitors in cells: lessons learned
MOESM3 of Assessing histone demethylase inhibitors in cells: lessons learned Open
Additional file 3: Figure S2. Chemical structure of the KDM inhibitors used in the study.
View article: MOESM7 of Assessing histone demethylase inhibitors in cells: lessons learned
MOESM7 of Assessing histone demethylase inhibitors in cells: lessons learned Open
Additional file 7: Table S3. Effect of Doxorubicin, Paclitaxel and Staurosporine on KDM activity measured in in vitro KDM assay.
View article: MOESM2 of Assessing histone demethylase inhibitors in cells: lessons learned
MOESM2 of Assessing histone demethylase inhibitors in cells: lessons learned Open
Additional file 2: Table S1. KDMs and mutant KDMs for which assays are reported including histone mark assessed.
View article: MOESM4 of Assessing histone demethylase inhibitors in cells: lessons learned
MOESM4 of Assessing histone demethylase inhibitors in cells: lessons learned Open
Additional file 4: Table S2. Cell permeability data of compounds tested.
View article: BET inhibition as a new strategy for the treatment of gastric cancer
BET inhibition as a new strategy for the treatment of gastric cancer Open
Gastric cancer is one of the most common malignancies and a leading cause of cancer death worldwide. The prognosis of stomach cancer is generally poor as this cancer is not very sensitive to commonly used chemotherapies. Epigenetic modific…