Phenotype‐driven approaches to enhance variant prioritization and diagnosis of rare disease

JOB Jacobsen, C Kelly, V Cipriani… - Human …, 2022 - Wiley Online Library
Rare disease diagnostics and disease gene discovery have been revolutionized by whole‐
exome and genome sequencing but identifying the causative variant (s) from the millions in …

[HTML][HTML] Proteogenomic characterization of primary colorectal cancer and metastatic progression identifies proteome-based subtypes and signatures

A Tanaka, M Ogawa, Y Zhou, K Namba… - Cell reports, 2024 - cell.com
Metastatic progression of colorectal adenocarcinoma (CRC) remains poorly understood and
poses significant challenges for treatment. To overcome these challenges, we performed …

Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies

K Talsania, TW Shen, X Chen, E Jaeger, Z Li, Z Chen… - Genome biology, 2022 - Springer
Background The cancer genome is commonly altered with thousands of structural
rearrangements including insertions, deletions, translocation, inversions, duplications, and …

PhenoSV: interpretable phenotype-aware model for the prioritization of genes affected by structural variants

Z Xu, Q Li, L Marchionni, K Wang - Nature Communications, 2023 - nature.com
Structural variants (SVs) represent a major source of genetic variation associated with
phenotypic diversity and disease susceptibility. While long-read sequencing can discover …

Genomic architecture of autism spectrum disorder in Qatar: The BARAKA-Qatar Study

M Abdi, E Aliyev, B Trost, M Kohailan, W Aamer… - Genome medicine, 2023 - Springer
Background Autism spectrum disorder (ASD) is a neurodevelopmental condition
characterized by impaired social and communication skills, restricted interests, and …

Long-read sequencing improves the genetic diagnosis of retinitis pigmentosa by identifying an Alu retrotransposon insertion in the EYS gene

E Fernández-Suárez, M González-del Pozo… - Mobile DNA, 2024 - Springer
Background Biallelic variants in EYS are the major cause of autosomal recessive retinitis
pigmentosa (arRP) in certain populations, a clinically and genetically heterogeneous …

Phase II trial of CDK4/6 inhibitor palbociclib in advanced sarcoma based on mRNA expression of CDK4/CDKN2A

J Martin-Broto, J Martinez-Garcia, DS Moura… - Signal transduction and …, 2023 - nature.com
Abstract Cyclin-dependent kinases 4 and 6 (CDK4/6) inhibitors demonstrated activity in
terms of progression-free survival (PFS) in advanced dedifferentiated liposarcoma (DD …

The AnnotSV webserver in 2023: updated visualization and ranking

V Geoffroy, JB Lamouche, T Guignard… - Nucleic Acids …, 2023 - academic.oup.com
Much of the human genetics variant repertoire is composed of single nucleotide variants
(SNV) and small insertion/deletions (indel) but structural variants (SV) remain a major part of …

Discovery of novel predisposing coding and noncoding variants in familial Hodgkin lymphoma

JE Flerlage, JR Myers, JL Maciaszek, N Oak… - Blood, 2023 - ashpublications.org
Familial aggregation of Hodgkin lymphoma (HL) has been demonstrated in large population
studies, pointing to genetic predisposition to this hematological malignancy. To understand …

Clinical utility of periodic reinterpretation of CNVs of uncertain significance: an 8-year retrospective study

JM Ravel, M Renaud, J Muller, A Becker, É Renard… - Genome Medicine, 2023 - Springer
Background Array-CGH is the first-tier genetic test both in pre-and postnatal developmental
disorders worldwide. Variants of uncertain significance (VUS) represent around 10~ 15% of …