Publications by authors named "NiCole A Finch"

Article Synopsis
  • The C9orf72 gene features a non-coding hexanucleotide repeat expansion linked to amyotrophic lateral sclerosis and frontotemporal dementia, and previous research has struggled to assess its methylation levels due to technology limits.
  • We employed a targeted long-read sequencing method to analyze blood DNA from 27 individuals with expanded C9orf72 repeats, aiming to quantify methylation and measure repeat length.
  • Our findings indicate that the expanded repeat is significantly methylated, with levels varying greatly among individuals, and show correlations between methylation, age, and repeat length, highlighting the clinical significance of these methylation differences.
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Amyotrophic lateral sclerosis (ALS) is a neurodegenerative disorder characterized by upper and lower motor neuron signs. There are, however, cases where upper motor neurons (UMNs) are predominantly affected, leading to clinical presentations of UMN-dominant ALS or primary lateral sclerosis. Furthermore, cases exhibiting an UMN-predominant pattern of motor neuron disease (MND) presenting with corticobasal syndrome (CBS) have been sparsely reported.

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The most prominent genetic cause of both amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD) is a repeat expansion in the gene C9orf72. Importantly, the transcriptomic consequences of the C9orf72 repeat expansion remain largely unclear. Here, we used short-read RNA sequencing (RNAseq) to profile the cerebellar transcriptome, detecting alterations in patients with a C9orf72 repeat expansion.

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Objective: Recent evidence supports a link between increased TDP-43 burden and the presence of an APOE4 gene allele in Alzheimer's disease (AD); however, it is difficult to conclude the direct effect of APOE on TDP-43 pathology due to the presence of mixed AD pathologies. The goal of this study is to address how APOE isoforms impact TDP-43 pathology and related neurodegeneration in the absence of typical AD pathologies.

Methods: We overexpressed human TDP-43 via viral transduction in humanized APOE2, APOE3, APOE4 mice, and murine Apoe-knockout (Apoe-KO) mice.

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Frontotemporal lobar degeneration with TDP-43 inclusions (FTLD-TDP) is a complex heterogeneous neurodegenerative disorder for which mechanisms are poorly understood. To explore transcriptional changes underlying FTLD-TDP, we performed RNA-sequencing on 66 genetically unexplained FTLD-TDP patients, 24 FTLD-TDP patients with GRN mutations and 24 control participants. Using principal component analysis, hierarchical clustering, differential expression and coexpression network analyses, we showed that GRN mutation carriers and FTLD-TDP-A patients without a known mutation shared a common transcriptional signature that is independent of GRN loss-of-function.

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Article Synopsis
  • A study utilized No-Amp sequencing to analyze hexanucleotide expansions in the C9orf72 gene, a leading genetic cause of certain neurodegenerative diseases, by examining cerebellar tissue from 28 patients.
  • The research found a strong correlation between expansion sizes measured by No-Amp sequencing and traditional Southern blotting methods, indicating the effectiveness of this new sequencing technique.
  • Results revealed that smaller C9orf72 expansions were associated with increased survival rates and higher levels of specific transcripts and proteins, with a high GC content observed in the repeat expansions, emphasizing the significance of the expansion size in C9orf72-related disorders.
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Genetic variants that define two distinct haplotypes at the TMEM106B locus have been implicated in multiple neurodegenerative diseases and in healthy brain ageing. In frontotemporal dementia (FTD), the high expressing TMEM106B risk haplotype was shown to increase susceptibility for FTD with TDP-43 inclusions (FTD-TDP) and to modify disease penetrance in progranulin mutation carriers (FTD-GRN). To elucidate the biological function of TMEM106B and determine whether lowering TMEM106B may be a viable therapeutic strategy, we performed brain transcriptomic analyses in 8-month-old animals from our recently developed Tmem106b-/- mouse model.

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Article Synopsis
  • The study focuses on the C9orf72 gene, which is linked to amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), and aims to explore how factors like promoter methylation and RNA expression levels relate to the disease's progression and familial patterns.
  • Researchers analyzed samples from individuals with and without C9orf72 repeat expansions, including a control group, using various molecular techniques to gather data on gene expression and methylation levels.
  • Results indicated that patients with the C9orf72 expansion had significantly higher methylation levels and lower overall transcript levels of the C9orf72 gene compared to non-carriers and control subjects, suggesting a potential link between methylation and gene activity in
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The majority of the clinico-pathological variability observed in patients harboring a repeat expansion in the C9orf72-SMCR8 complex subunit (C9orf72) remains unexplained. This expansion, which represents the most common genetic cause of frontotemporal lobar degeneration (FTLD) and motor neuron disease (MND), results in a loss of C9orf72 expression and the generation of RNA foci and dipeptide repeat (DPR) proteins. The C9orf72 protein itself plays a role in vesicular transport, serving as a guanine nucleotide exchange factor that regulates GTPases.

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Background: Progressive supranuclear palsy (PSP) is a parkinsonian neurodegenerative tauopathy affecting brain regions involved in motor function, including the basal ganglia, diencephalon and brainstem. While PSP is largely considered to be a sporadic disorder, cases with suspected familial inheritance have been identified and the common MAPT H1haplotype is a major genetic risk factor. Due to the relatively low prevalence of PSP, large sample sizes can be difficult to achieve, and this has limited the ability to detect true genetic risk factors at the genome-wide statistical threshold for significance in GWAS data.

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Loss-of-function mutations in progranulin (GRN) and a non-coding (GGGGCC) hexanucleotide repeat expansions in C9ORF72 are the two most common genetic causes of frontotemporal lobar degeneration with aggregates of TAR DNA binding protein 43 (FTLD-TDP). TMEM106B encodes a type II transmembrane protein with unknown function. Genetic variants in TMEM106B associated with reduced TMEM106B levels have been identified as disease modifiers in individuals with GRN mutations and C9ORF72 expansions.

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Article Synopsis
  • Loss-of-function mutations in the GRN gene lead to a specific type of frontotemporal lobar degeneration (FTLD) characterized by TDP-43 pathology, but the age of onset and symptoms vary among patients, prompting research into genetic modifiers.
  • The study involved a multi-phase approach including discovery, replication, and meta-analysis to identify genetic variants that potentially influence disease risk and onset in individuals with GRN mutations.
  • Key findings included statistically significant variants at the GFRA2 locus, with further investigation showing effects on GFRA2 gene expression and interactions between GFRA2 and progranulin, highlighting their potential roles in the disease.
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Article Synopsis
  • - We conducted a genome-wide brain expression study to investigate diseases linked to a specific repeat expansion in chromosome 9 by analyzing brain tissue from expansion carriers, non-carriers, and controls.
  • - Our analysis revealed significant changes in gene expression in the cerebellum, identifying 40 genes, including several homeobox genes crucial for neuronal development, and the neuroprotective protein transthyretin.
  • - These findings highlight potential compensatory mechanisms involving developmental and neuroprotective genes that may influence the occurrence and progression of diseases related to the repeat expansion.
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A growing body of evidence suggests that a loss of chromosome 9 open reading frame 72 (C9ORF72) expression, formation of dipeptide-repeat proteins, and generation of RNA foci contribute to disease pathogenesis in amyotrophic lateral sclerosis and frontotemporal dementia. Although the levels of C9ORF72 transcripts and dipeptide-repeat proteins have already been examined thoroughly, much remains unknown about the role of RNA foci in C9ORF72-linked diseases. As such, we performed a comprehensive RNA foci study in an extensive pathological cohort of C9ORF72 expansion carriers (n = 63).

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Article Synopsis
  • Researchers conducted exome sequencing on 45 early-onset Alzheimer's disease (EOAD) patients to discover new genes linked to the condition, identifying 29 potential candidate genes.
  • Out of these, the gene TYROBP, which has prior associations with Alzheimer's, was selected for further study due to its significance.
  • The study found rare mutations in TYROBP in 9 out of 1110 EOAD patients, indicating these variations may increase EOAD risk, and showed that one specific mutation reduced TREM2 levels, a known Alzheimer's risk factor.
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Mutations in progranulin are a major cause of frontotemporal lobe degeneration (FTLD). Hence, plasma progranulin is an attractive biomarker in FTLD but poorly reflects levels in cerebrospinal fluid (CSF), suggesting tissue-specific regulation of progranulin levels. Sortilin was recently identified as a progranulin scavenger receptor that destines it for lysosomal degradation.

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Progranulin (GRN) loss-of-function mutations leading to progranulin protein (PGRN) haploinsufficiency are prevalent genetic causes of frontotemporal dementia. Reports also indicated PGRN-mediated neuroprotection in models of Alzheimer's and Parkinson's disease; thus, increasing PGRN levels is a promising therapeutic for multiple disorders. To uncover novel PGRN regulators, we linked whole-genome sequence data from 920 individuals with plasma PGRN levels and identified the prosaposin (PSAP) locus as a new locus significantly associated with plasma PGRN levels.

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The loss of chromosome 9 open reading frame 72 (C9ORF72) expression, associated with C9ORF72 repeat expansions, has not been examined systematically. Three C9ORF72 transcript variants have been described thus far; the GGGGCC repeat is located between two non-coding exons (exon 1a and exon 1b) in the promoter region of transcript variant 2 (NM_018325.4) or in the first intron of variant 1 (NM_145005.

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Penttinen syndrome is a distinctive disorder characterized by a prematurely aged appearance with lipoatrophy, epidermal and dermal atrophy along with hypertrophic lesions that resemble scars, thin hair, proptosis, underdeveloped cheekbones, and marked acro-osteolysis. All individuals have been simplex cases. Exome sequencing of an affected individual identified a de novo c.

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Article Synopsis
  • Three genes linked to idiopathic basal ganglia calcification (IBGC) were identified, particularly noting the role of mutations in PDGFRB and PDGFB in abnormal brain calcification.*
  • In a study involving 26 patients with unknown causes of basal ganglia calcification, a mutation in PDGFRB was found, while no mutations in PDGFB were detected.*
  • Functional analysis of three PDGFRB mutations indicated that p.L658P suppresses autophosphorylation, p.R695C causes partial loss of function, and p.R987W is linked to reduced protein levels, supporting the idea that PDGFRB mutations contribute to the disease.*
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Objective: We aimed to investigate the relationship between plasma and CSF progranulin (PGRN) levels.

Methods: Plasma and CSF PGRN were measured in a cohort of 345 subjects from the Mayo Clinic Study of Aging by ELISA. Single nucleotide polymorphism genotyping was performed using TaqMan assays.

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Variants in transmembrane protein 106 B (TMEM106B) modify the disease penetrance of frontotemporal dementia (FTD) in carriers of progranulin (GRN) mutations. We investigated whether TMEM106B is also a genetic modifier of disease in carriers of chromosome 9 open reading frame 72 (C9ORF72) expansions. We assessed the genotype of 325 C9ORF72 expansion carriers (cohort 1), 586 FTD patients lacking C9ORF72 expansions [with or without motor neuron disease (MND); cohort 2], and a total of 1,302 controls for TMEM106B variants (rs3173615 and rs1990622) using MassArray iPLEX and Taqman genotyping assays.

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Background: Hexanucleotide repeat expansions in chromosome 9 open reading frame 72 (C9ORF72) are the most common known genetic cause of frontotemporal dementia (FTD) and motor neuron disease (MND). We assessed whether expansion size is associated with disease severity or phenotype.

Methods: We did a cross-sectional Southern blot characterisation study (Xpansize-72) in a cohort of individuals with FTD, MND, both these diseases, or no clinical phenotype.

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Frontotemporal lobar degeneration (FTLD) is the second leading cause of dementia in individuals under age 65. In many patients, the predominant pathology includes neuronal cytoplasmic or intranuclear inclusions of ubiquitinated TAR DNA binding protein 43 (FTLD-TDP). Recently, a genome-wide association study identified the first FTLD-TDP genetic risk factor, in which variants in and around the TMEM106B gene (top SNP rs1990622) were significantly associated with FTLD-TDP risk.

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