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Electric field-induced destabilization and surface modulation of Aβ42 fibrils in molecular simulations: theoretical implications for direct current stimulation in Alzheimer's disease. 在分子模拟中电场诱导的Aβ42原纤维的不稳定和表面调节:对阿尔茨海默病的直流电刺激的理论意义。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2026-01-19 DOI: 10.1080/13506129.2026.2616753
Fran Bačić Toplek, Natale Vincenzo Maiorana, Matteo Guidetti, Sara Marceglia, Riccardo Capelli, Alberto Priori, Carlo Camilloni

Background: The amyloid-β peptide 42 (Aβ42) forms fibrillar aggregates that are a hallmark of Alzheimer's disease. While recent therapeutic strategies targeting Aβ42 fibrils and oligomers have shown promise, safer and more effective interventions are still needed. Noninvasive brain stimulation (NIBS) techniques such as repetitive transcranial magnetic stimulation (rTMS) and transcranial direct current stimulation (tDCS) have emerged as potential complementary approaches, yet the molecular mechanisms by which electric fields influence amyloid aggregation remain poorly understood.

Methods: We performed atomistic molecular dynamics simulations to investigate the response of Aβ42 fibrils to static electric fields of increasing strength. Simulations were based on an ex vivo fibril structure with reconstructed N-terminal regions, and different structural restraint conditions were used to disentangle surface and core effects.

Results: Electric fields perturb the disordered N-terminal 'fuzzy coat', altering its conformational dynamics and weakening its interactions with the fibril core, thereby modifying the fibril surface properties. Simulations with unrestrained fibril ends further reveal increased fluctuations in core residues, indicating field-induced destabilization that may hinder elongation.

Conclusions: These findings provide molecular-level insight into how static electric fields can modulate amyloid fibril formation and propagation, offering a possible mechanistic basis for the effects of tDCS and related brain stimulation techniques.

背景:淀粉样蛋白-β肽42 (a -β 42)形成纤维聚集体,是阿尔茨海默病的标志。虽然最近针对Aβ42原纤维和低聚物的治疗策略显示出希望,但仍需要更安全、更有效的干预措施。重复经颅磁刺激(rTMS)和经颅直流电刺激(tDCS)等非侵入性脑刺激(NIBS)技术已经成为潜在的补充方法,但电场影响淀粉样蛋白聚集的分子机制仍然知之甚少。方法:采用原子分子动力学模拟方法研究Aβ42原纤维对增强静电场的响应。模拟基于具有重构n端区域的离体纤维结构,并采用不同的结构约束条件来解缠表面和核心效应。结果:电场扰动无序的n端“模糊涂层”,改变其构象动力学,减弱其与纤维核心的相互作用,从而改变纤维表面性质。不受约束的纤维末端的模拟进一步揭示了芯残基的波动增加,表明场诱导的不稳定可能会阻碍延伸。结论:这些发现为了解静电场如何调节淀粉样蛋白纤维的形成和繁殖提供了分子水平的见解,为tDCS和相关脑刺激技术的作用提供了可能的机制基础。
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引用次数: 0
A clinical and ECG based score to predict incident atrial fibrillation in cardiac amyloidosis: the Amy-Lyon AF score. 预测心脏淀粉样变性患者心房颤动的临床和心电图评分:ami - lyon心房颤动评分。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2026-01-18 DOI: 10.1080/13506129.2025.2612567
Tiphaine Bollon, Antoine Jobbe Duval, Simon Leboube, Nathan Mewton, Laurent Sebbag, Kevin Gardey, Eric Bonnefoy-Cudraz, Paul Charles, Mathieu Montoy, Michaël Serraille, Brahim Harbaoui, Pierre Lantelme, Pierre-Yves Courand

Background: Atrial fibrillation (AF) is common and poorly tolerated in cardiac amyloidosis (CA) patients. No current tool assesses AF risk in this population.

Methods: We enrolled patients with light chain (AL) or transthyretin (ATTR) CA, with no prior history of AF at diagnosis between January 2015 and September 2023 across three university hospitals. Clinical, biochemical and electrocardiographic parameters were retrospectively collected and their predictive value for AF was assessed.

Results: A total of 169 patients were included (56.2% wild-type (wt) ATTR, 35.5% AL and 8.3% variant (v) ATTR). Over a median follow-up of 21 months, 55 patients (33%) presented a first episode of AF. Five independent predictors for AF were identified using multivariate logistic regression model: obstructive sleep apnea, hypertension, CA subtype, P wave duration ≥120 ms, 1st degree atrioventricular (AV) block. Based on these variables, the Amy-Lyon AF score (range 0-46) was developed to estimate AF risk (area under the receiver operating characteristic (ROC) curve (AUC) 0.768 [0.685-0.852], p < .001). At two years of follow-up, the incidence of AF reached 82.7% in patients with a score >28. In 80 patients, the AUC of the Amy-Lyon AF score was higher than that of left atrial strain.

Conclusions: Five simple and readily available predictors may stratify the risk of AF in CA.

背景:心房颤动(AF)在心脏淀粉样变性(CA)患者中很常见且耐受性差。目前尚无工具评估这一人群的房颤风险。方法:我们招募了2015年1月至2023年9月在三所大学医院诊断为轻链(AL)或转甲状腺素(ATTR) CA且无AF病史的患者。回顾性收集临床、生化和心电图参数,评估其对房颤的预测价值。结果:共纳入169例患者(56.2%为野生型(wt) ATTR, 35.5%为AL, 8.3%为变异型(v) ATTR)。在21个月的中位随访中,55名患者(33%)首次出现房颤。使用多变量logistic回归模型确定房颤的5个独立预测因素:阻塞性睡眠呼吸暂停、高血压、CA亚型、P波持续时间≥120 ms、1度房室传导阻滞。基于这些变量,制定ami - lyon AF评分(范围0-46)来估计AF风险(受试者工作特征(ROC)曲线下面积(AUC) 0.768 [0.685-0.852], p 28。80例患者ami - lyon AF评分的AUC高于左房应变。结论:5个简单且容易获得的预测指标可以对房颤的风险进行分层。
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引用次数: 0
Significance of aberrant nerve conduction in hereditary transthyretin amyloidosis. 遗传性甲状腺转蛋白淀粉样变神经传导异常的意义。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2026-01-12 DOI: 10.1080/13506129.2026.2613126
Toshihiro Ide, Masaaki Yoshikawa, Kohei Suzuyama, Satoru Yagi, Soma Furukawa, Yuki Fukami, Masahisa Katsuno, Haruki Koike

Background: In hereditary transthyretin (ATTRv) amyloidosis, axonal neuropathy is the main pathologic basis of polyneuropathy. However, whether nerve conduction slowing resembling chronic inflammatory demyelinating polyneuropathy (CIDP), observed in some patients, reflects primary demyelination or secondary changes related to axonal damage remains unclear.

Methods: Electrophysiologic findings were compared between 96 patients with V30M ATTRv amyloidosis from nonendemic areas and 175 patients with nutritional or alcoholic axonal neuropathies. Myelinated fiber density was assessed in sural nerve biopsy specimens from 66 and 133 patients, respectively.

Results: Motor nerve conduction velocity (MCV) was reduced and distal motor latency (DML) was prolonged in both groups compared with normal controls, with more marked changes in ATTRv amyloidosis. Compound muscle action potential (CMAP) amplitude and myelinated fiber density were significantly lower in ATTRv amyloidosis than in nutritional/alcoholic neuropathies (p < 0.001). Conduction slowing fulfilling EAN/PNS CIDP criteria was observed only in patients with severe axonal loss. After adjusting for age, disease duration, and CMAP amplitude, only MCV slowing and DML prolongation in median nerve remained more pronounced in ATTRv amyloidosis.

Conclusions: CIDP-like conduction slowing in ATTRv amyloidosis largely represents secondary changes caused by axonal degeneration, although additional mechanisms may contribute to slowing in the median nerve.

背景:遗传性甲状腺转蛋白淀粉样变中,轴突神经病变是多发神经病变的主要病理基础。然而,在一些患者中观察到的类似慢性炎症性脱髓鞘多神经病变(CIDP)的神经传导减慢是否反映了原发性脱髓鞘或继发性与轴突损伤相关的变化尚不清楚。方法:比较非流行地区96例V30M ATTRv淀粉样变患者与175例营养性或酒精性轴索病变患者的电生理表现。分别在66例和133例患者的腓肠神经活检标本中评估髓鞘纤维密度。结果:与正常对照组相比,两组运动神经传导速度(MCV)降低,远端运动潜伏期(DML)延长,ATTRv淀粉样变变化更为明显。复合肌动作电位(CMAP)振幅和髓鞘纤维密度在ATTRv淀粉样变性中明显低于营养性/酒精性神经病(p结论:ATTRv淀粉样变性中cip样传导减慢主要是轴突变性引起的继发性变化,尽管其他机制可能有助于正中神经的减慢。
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引用次数: 0
The CATCH-ATTR study: CArpal Tunnel ligament amyloid-the Clue for early identification of Hereditary or wildtype systemic ATTR amyloidosis? CATCH-ATTR研究:腕管韧带淀粉样蛋白——早期识别遗传性或野生型系统性ATTR淀粉样变的线索?
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2026-01-07 DOI: 10.1080/13506129.2025.2611255
Fabian Aus dem Siepen, Frank Staub, Florian Andre, Ute Hegenbart, Stefan O Schönland, Norbert Frey, Christoph Röcken, Arnt V Kristen

Aims: We sought to investigate the prevalence of Transthyretin amyloid (ATTR) deposits in the carpal ligament of patients undergoing surgery for carpal tunnel syndrome (CTS) and the frequency of concomitant ATTR-cardiomyopathy (CM) in a prospective study with long-term follow-up.

Methods and results: Our prospective exploratory study enrolled 551 patients treated for CTS. All resection specimens of carpal ligament underwent histopathological evaluation. Patients with confirmed amyloid deposits were referred to cardiac evaluation, including cardiac MRI (CMR) scans, as well as follow-up examinations. Amyloid deposits were found in 52 (9%) specimens (1 light chain amyloid, 51 ATTR). Among patients with positive biopsy ATTR-CM was diagnosed in 4 (8%) patients, 1 patient was diagnosed at initial evaluation, and 3 patients were diagnosed during the follow-up. All patients had ATTRwt at an early stage of disease. Extracellular volume (ECV) measured by CMR was significantly higher in amyloid-positive CTS patients compared to healthy controls (30 ± 2 vs. 24 ± 1%, p < .01).

Conclusion: Histopathological evaluation of resected carpal ligament should be considered in patients at least older than 70 years. Even though absolute numbers were low, cardiac screening of patients with evidence of amyloid deposits in in carpal tunnel tissues might facilitate early diagnosis of ATTR-CM in some patients.

目的:在一项长期随访的前瞻性研究中,我们试图调查接受腕管综合征(CTS)手术的患者腕韧带中转甲状腺蛋白淀粉样蛋白(ATTR)沉积的患病率以及合并ATTR-心肌病(CM)的频率。方法和结果:我们的前瞻性探索性研究纳入了551例接受CTS治疗的患者。所有切除的腕韧带标本均行组织病理学检查。确认淀粉样蛋白沉积的患者进行心脏评估,包括心脏MRI (CMR)扫描以及随访检查。52例(9%)标本中发现淀粉样蛋白沉积(1例轻链淀粉样蛋白,51例ATTR)。活检阳性患者中有4例(8%)诊断为atr - cm,其中1例在初诊时诊断,3例在随访中诊断。所有患者在疾病早期均有attrt。淀粉样蛋白阳性CTS患者CMR测量的细胞外体积(ECV)明显高于健康对照组(30±2比24±1%),p结论:至少70岁以上的患者应考虑切除腕韧带的组织病理学评估。尽管绝对数量较低,但对腕管组织中有淀粉样蛋白沉积证据的患者进行心脏筛查可能有助于某些患者早期诊断atr - cm。
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引用次数: 0
Long-term outcome of acquired transthyretin amyloidosis. 获得性甲状腺转蛋白淀粉样变的长期预后。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2026-01-06 DOI: 10.1080/13506129.2025.2611257
Yohei Misumi, Toshiya Nomura, Shiori Yamakawa, Tomoaki Taguchi, Masayoshi Tasaki, Konen Obayashi, Taro Yamashita, Yukio Ando, Mitsuharu Ueda

Background: Acquired transthyretin (ATTR) amyloidosis is increasingly reported among domino liver transplantation (DLT) recipients who receive livers from patients with hereditary variant TTR (ATTRv) amyloidosis. However, its long-term outcomes and the effects of disease-modifying drugs remain unclear.

Methods: We retrospectively analyzed 30 DLT recipients who received liver grafts from ATTRv amyloidosis patients. Longitudinal evaluations included clinical scores, nerve conduction studies (NCS),123I-metaiodobenzylguanidine scintigraphy, echocardiography, electrocardiography,99mTc-pyrophosphate scintigraphy, and serum biomarkers.

Results: Overall survival at 1, 3, and 10 years after DLT was 86.7%, 76.7%, and 57.7%, respectively. Amyloid deposition occurred in 17 recipients, with a median time from DLT to deposition of 7.7 years (range, 3.1-9.0 years). Among the 12 patients followed for >3 years after amyloid detection, tafamidis clinically stabilized neuropathy in most cases, however, NCSs revealed progressive subclinical axonal degeneration. Two patients experienced clinically significant neuropathy progression during tafamidis treatment, which was stabilized after switching to siRNA therapy. Clinically significant cardiac amyloidosis developed in only one patient.

Conclusions: Acquired ATTR amyloidosis frequently develops in long-term DLT recipients. Although tafamidis stabilizes clinical manifestations in most patients, it may not completely prevent disease progression in some cases. Further long-term evaluation is needed to determine optimal treatment strategies, including siRNA therapy.

背景:获得性转甲状腺素(ATTR)淀粉样变在骨牌肝移植(DLT)受者中越来越多地报道,这些受者接受的肝脏来自遗传变异TTR (ATTRv)淀粉样变患者。然而,其长期结果和疾病改善药物的效果仍不清楚。方法:我们回顾性分析了30例接受ATTRv淀粉样变患者肝移植的DLT受体。纵向评估包括临床评分、神经传导研究(NCS)、123I-metaiodobenzylguanidine闪烁图、超声心动图、心电图、99mtc -焦磷酸盐闪烁图和血清生物标志物。结果:DLT后1年、3年和10年的总生存率分别为86.7%、76.7%和57.7%。17名受者发生淀粉样蛋白沉积,从DLT到沉积的中位时间为7.7年(范围3.1-9.0年)。在淀粉样蛋白检测后随访bbbb3年的12例患者中,大多数患者的神经病变临床稳定,但NCSs显示进行性亚临床轴突变性。两名患者在他非他胺治疗期间出现了临床显著的神经病变进展,改用siRNA治疗后病情稳定。有临床意义的心脏淀粉样变仅发生在1例患者中。结论:获得性ATTR淀粉样变经常发生在长期DLT受体中。虽然他法非底斯稳定了大多数患者的临床表现,但在某些情况下,它可能不能完全预防疾病进展。需要进一步的长期评估来确定最佳的治疗策略,包括siRNA治疗。
{"title":"Long-term outcome of acquired transthyretin amyloidosis.","authors":"Yohei Misumi, Toshiya Nomura, Shiori Yamakawa, Tomoaki Taguchi, Masayoshi Tasaki, Konen Obayashi, Taro Yamashita, Yukio Ando, Mitsuharu Ueda","doi":"10.1080/13506129.2025.2611257","DOIUrl":"https://doi.org/10.1080/13506129.2025.2611257","url":null,"abstract":"<p><strong>Background: </strong>Acquired transthyretin (ATTR) amyloidosis is increasingly reported among domino liver transplantation (DLT) recipients who receive livers from patients with hereditary variant TTR (ATTRv) amyloidosis. However, its long-term outcomes and the effects of disease-modifying drugs remain unclear.</p><p><strong>Methods: </strong>We retrospectively analyzed 30 DLT recipients who received liver grafts from ATTRv amyloidosis patients. Longitudinal evaluations included clinical scores, nerve conduction studies (NCS),<sup>123</sup>I-metaiodobenzylguanidine scintigraphy, echocardiography, electrocardiography,<sup>99m</sup>Tc-pyrophosphate scintigraphy, and serum biomarkers.</p><p><strong>Results: </strong>Overall survival at 1, 3, and 10 years after DLT was 86.7%, 76.7%, and 57.7%, respectively. Amyloid deposition occurred in 17 recipients, with a median time from DLT to deposition of 7.7 years (range, 3.1-9.0 years). Among the 12 patients followed for >3 years after amyloid detection, tafamidis clinically stabilized neuropathy in most cases, however, NCSs revealed progressive subclinical axonal degeneration. Two patients experienced clinically significant neuropathy progression during tafamidis treatment, which was stabilized after switching to siRNA therapy. Clinically significant cardiac amyloidosis developed in only one patient.</p><p><strong>Conclusions: </strong>Acquired ATTR amyloidosis frequently develops in long-term DLT recipients. Although tafamidis stabilizes clinical manifestations in most patients, it may not completely prevent disease progression in some cases. Further long-term evaluation is needed to determine optimal treatment strategies, including siRNA therapy.</p>","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"1-7"},"PeriodicalIF":7.4,"publicationDate":"2026-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145913824","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Detection yield of surrogate tissue biopsies across amyloidosis classes: a large-scale analysis of 4,027 patients. 淀粉样变分类中替代组织活检的检出率:4027例患者的大规模分析。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-12-29 DOI: 10.1080/13506129.2025.2606847
Natasha J Burke, Lisa M Mendelson, Tracy Joshi, Caryn Libbey, Eric J Burks, Tatiana Prokaeva, Brian Spencer, Luke Zheng, Gheorghe Doros, Vaishali Sanchorawala, Andrew Staron

Background: Congo red (CR) staining of surrogate tissues, such as the abdominal fat pad (FP) or bone marrow (BM), provides a minimally invasive approach to diagnosing systemic amyloidosis. This study evaluated the diagnostic yield of surrogate tissue biopsies across amyloidosis classes.

Methods: We retrospectively analyzed 4,027 patients with systemic amyloidosis (1968-2023) who underwent CR staining of FP aspirates (n = 3,873) and/or BM core biopsies (n = 2,598). Detection rates were compared by amyloidosis class and biopsy site.

Results: AL amyloidosis had the highest CR positivity rates (FP: 73%; BM: 53%), whereas ATTRwt amyloidosis had the lowest (FP: 22%; BM: 26%). CR positivity in BM was not exclusive to AL amyloidosis; 74 CR-positive BM biopsies were in non-AL cases. Among 2,213 patients with AL amyloidosis who underwent both FP and BM sampling, combined testing increased detection to 85% (40% positive in both; 32% FP-only; 13% BM-only). Higher CR positivity grades in FP aspirates correlated with shorter survival in AL amyloidosis but not in other amyloidosis classes.

Conclusions: The diagnostic yield of CR-stained surrogate tissue biopsies varies by amyloidosis class and biopsy site. In AL amyloidosis, combining FP and BM sampling enhances detection, and FP CR positivity grade offers prognostic insight.

背景:刚刚红(CR)染色替代组织,如腹部脂肪垫(FP)或骨髓(BM),为诊断系统性淀粉样变性提供了一种微创方法。本研究评估了淀粉样变性不同类别的替代组织活检的诊断率。方法:我们回顾性分析了4027例系统性淀粉样变性患者(1968-2023),这些患者接受了FP吸液CR染色(n = 3873)和/或BM核心活检(n = 2598)。以淀粉样变类型和活检部位比较检出率。结果:AL淀粉样变性的CR阳性率最高(FP: 73%, BM: 53%),而ATTRwt淀粉样变性的CR阳性率最低(FP: 22%, BM: 26%)。BM中CR阳性并非AL淀粉样变所独有;非al病例中cr阳性BM活检74例。在2213例同时接受FP和BM取样的AL淀粉样变性患者中,联合检测将检出率提高到85%(两者均为40%阳性,仅FP为32%,仅BM为13%)。FP抽吸物中CR阳性等级越高,AL淀粉样变性患者的生存期越短,而其他淀粉样变性患者的生存期则越短。结论:cr染色替代组织活检的诊断率因淀粉样变性类型和活检部位而异。在AL淀粉样变中,结合FP和BM取样可以增强检测,FP CR阳性分级可以提供预后信息。
{"title":"Detection yield of surrogate tissue biopsies across amyloidosis classes: a large-scale analysis of 4,027 patients.","authors":"Natasha J Burke, Lisa M Mendelson, Tracy Joshi, Caryn Libbey, Eric J Burks, Tatiana Prokaeva, Brian Spencer, Luke Zheng, Gheorghe Doros, Vaishali Sanchorawala, Andrew Staron","doi":"10.1080/13506129.2025.2606847","DOIUrl":"https://doi.org/10.1080/13506129.2025.2606847","url":null,"abstract":"<p><strong>Background: </strong>Congo red (CR) staining of surrogate tissues, such as the abdominal fat pad (FP) or bone marrow (BM), provides a minimally invasive approach to diagnosing systemic amyloidosis. This study evaluated the diagnostic yield of surrogate tissue biopsies across amyloidosis classes.</p><p><strong>Methods: </strong>We retrospectively analyzed 4,027 patients with systemic amyloidosis (1968-2023) who underwent CR staining of FP aspirates (<i>n</i> = 3,873) and/or BM core biopsies (<i>n</i> = 2,598). Detection rates were compared by amyloidosis class and biopsy site.</p><p><strong>Results: </strong>AL amyloidosis had the highest CR positivity rates (FP: 73%; BM: 53%), whereas ATTRwt amyloidosis had the lowest (FP: 22%; BM: 26%). CR positivity in BM was not exclusive to AL amyloidosis; 74 CR-positive BM biopsies were in non-AL cases. Among 2,213 patients with AL amyloidosis who underwent both FP and BM sampling, combined testing increased detection to 85% (40% positive in both; 32% FP-only; 13% BM-only). Higher CR positivity grades in FP aspirates correlated with shorter survival in AL amyloidosis but not in other amyloidosis classes.</p><p><strong>Conclusions: </strong>The diagnostic yield of CR-stained surrogate tissue biopsies varies by amyloidosis class and biopsy site. In AL amyloidosis, combining FP and BM sampling enhances detection, and FP CR positivity grade offers prognostic insight.</p>","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"1-9"},"PeriodicalIF":7.4,"publicationDate":"2025-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145851428","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
ALyzer3D.AI: a more generalizable deep learning predictor of light chain amyloidogenicity powered by structural and evolutionary Artificial Intelligence. ALyzer3D。人工智能:由结构和进化人工智能驱动的更通用的轻链淀粉样变性深度学习预测器。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-12-25 DOI: 10.1080/13506129.2025.2605534
Peter May, Johannes Jung, Marion Högner, Florian Bassermann

Background: Predicting amyloidogenic risk of immunoglobulin light chains in amyloid light-chain (AL) amyloidosis is a major challenge, and existing computational models fail to generalize to new patient data.

Methods: We developed ALyzer3D.AI, a multi-modal deep learning architecture that integrates evolutionary features from the ESM-2 Protein Language Model, structural metrics from ColabFold and engineered biophysical features. Generalizability was evaluated on published and independent datasets, and model interpretability was assessed using IMGT-aligned SHapley Additive exPlanations (SHAP).

Results: While existing models dropped in performance on new data (accuracy 0.42-0.56), ALyzer3D.AI maintained an accuracy of 0.65 when trained and tested on the same datasets. A final model built on the full combined cohort of 5261 sequences achieved stable performance across repeated splits, with independent test AUC of 0.86 and accuracy of 0.84 at an optimized decision threshold. Performance arose from synergistic integration of PLM, structural and scalar features. PLM attributions were broadly distributed and slightly enriched in framework regions, whereas structural SHAP values were concentrated in CDRs and FR4. The most informative positions had intermediate sequence entropy.

Conclusions: ALyzer3D.AI provides a robust, interpretable tool for predicting light-chain amyloidogenicity that generalizes better to independent datasets than existing methods. It is publicly available via https://colab.research.google.com/github/pcmay/ALyzer3D.AI/blob/main/ALyzer3DAI.ipynb.

背景:预测淀粉样蛋白轻链(AL)淀粉样变性中免疫球蛋白轻链的淀粉样变性风险是一个主要挑战,现有的计算模型无法推广到新的患者数据。方法:开发ALyzer3D。AI是一种多模态深度学习架构,集成了ESM-2蛋白质语言模型的进化特征、ColabFold的结构指标和工程生物物理特征。在已发表的和独立的数据集上评估了通用性,并使用与imgt对齐的SHapley加性解释(SHAP)评估了模型的可解释性。结果:虽然现有模型在新数据上的性能下降(精度0.42-0.56),但ALyzer3D。在相同的数据集上进行训练和测试时,人工智能的准确率保持在0.65。基于5261个序列的完整组合队列构建的最终模型在重复分割中表现稳定,在优化决策阈值下,独立测试AUC为0.86,准确率为0.84。性能源于PLM、结构和标量特征的协同集成。PLM属性在框架区分布广泛且略富集,而结构SHAP值则集中在cdr和FR4。信息量最大的位置具有中间序列熵。结论:ALyzer3D。人工智能为预测轻链淀粉样变性提供了一个强大的、可解释的工具,与现有方法相比,它可以更好地推广到独立的数据集。它可以通过https://colab.research.google.com/github/pcmay/ALyzer3D.AI/blob/main/ALyzer3DAI.ipynb公开获取。
{"title":"ALyzer3D.AI: a more generalizable deep learning predictor of light chain amyloidogenicity powered by structural and evolutionary Artificial Intelligence.","authors":"Peter May, Johannes Jung, Marion Högner, Florian Bassermann","doi":"10.1080/13506129.2025.2605534","DOIUrl":"https://doi.org/10.1080/13506129.2025.2605534","url":null,"abstract":"<p><strong>Background: </strong>Predicting amyloidogenic risk of immunoglobulin light chains in amyloid light-chain (AL) amyloidosis is a major challenge, and existing computational models fail to generalize to new patient data.</p><p><strong>Methods: </strong>We developed ALyzer3D.AI, a multi-modal deep learning architecture that integrates evolutionary features from the ESM-2 Protein Language Model, structural metrics from ColabFold and engineered biophysical features. Generalizability was evaluated on published and independent datasets, and model interpretability was assessed using IMGT-aligned SHapley Additive exPlanations (SHAP).</p><p><strong>Results: </strong>While existing models dropped in performance on new data (accuracy 0.42-0.56), ALyzer3D.AI maintained an accuracy of 0.65 when trained and tested on the same datasets. A final model built on the full combined cohort of 5261 sequences achieved stable performance across repeated splits, with independent test AUC of 0.86 and accuracy of 0.84 at an optimized decision threshold. Performance arose from synergistic integration of PLM, structural and scalar features. PLM attributions were broadly distributed and slightly enriched in framework regions, whereas structural SHAP values were concentrated in CDRs and FR4. The most informative positions had intermediate sequence entropy.</p><p><strong>Conclusions: </strong>ALyzer3D.AI provides a robust, interpretable tool for predicting light-chain amyloidogenicity that generalizes better to independent datasets than existing methods. It is publicly available <i>via</i> https://colab.research.google.com/github/pcmay/ALyzer3D.AI/blob/main/ALyzer3DAI.ipynb.</p>","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"1-13"},"PeriodicalIF":7.4,"publicationDate":"2025-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145835232","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Untwisted amyloid fibrils from a transgenic mouse model of AL amyloidosis. 来自AL淀粉样变性转基因小鼠模型的未扭曲淀粉样原纤维。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-12-21 DOI: 10.1080/13506129.2025.2605332
Luca Broggini, Diane Marie Valérie Bonnet, Karolina W Swiderska, Sebastien Bender, Gilles R Codo, Alessio Lampis, Gemma Martinez-Rivas, Pauline Duchatelet, Aurore Danigo, Antonio Chaves-Sanjuan, Christophe Sirac, Stefano Ricagno
{"title":"Untwisted amyloid fibrils from a transgenic mouse model of AL amyloidosis.","authors":"Luca Broggini, Diane Marie Valérie Bonnet, Karolina W Swiderska, Sebastien Bender, Gilles R Codo, Alessio Lampis, Gemma Martinez-Rivas, Pauline Duchatelet, Aurore Danigo, Antonio Chaves-Sanjuan, Christophe Sirac, Stefano Ricagno","doi":"10.1080/13506129.2025.2605332","DOIUrl":"https://doi.org/10.1080/13506129.2025.2605332","url":null,"abstract":"","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"1-4"},"PeriodicalIF":7.4,"publicationDate":"2025-12-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145806369","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Endothelial glycocalyx disruption and early renal tubular injury in hereditary transthyretin Amyloidosis with dysautonomia. 遗传性甲状腺转蛋白淀粉样变性伴自主神经异常的内皮糖萼破坏和早期肾小管损伤。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-12-18 DOI: 10.1080/13506129.2025.2603258
Lara Albuquerque de Brito, Cleonisio Leite Rodrigues, Alexandre Braga Libório, Raynrich Kevin Assis Lima, Hermany Capistrano Freitas, Fernanda Martins Maia Carvalho
{"title":"Endothelial glycocalyx disruption and early renal tubular injury in hereditary transthyretin Amyloidosis with dysautonomia.","authors":"Lara Albuquerque de Brito, Cleonisio Leite Rodrigues, Alexandre Braga Libório, Raynrich Kevin Assis Lima, Hermany Capistrano Freitas, Fernanda Martins Maia Carvalho","doi":"10.1080/13506129.2025.2603258","DOIUrl":"https://doi.org/10.1080/13506129.2025.2603258","url":null,"abstract":"","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"1-4"},"PeriodicalIF":7.4,"publicationDate":"2025-12-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145783477","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Looking beyond left ventricular wall thickness: the search for cardiac amyloidosis in women. 超越左心室壁厚度:女性心脏淀粉样变性的研究。
IF 7.4 2区 医学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-12-01 Epub Date: 2025-09-26 DOI: 10.1080/13506129.2025.2562864
Carolina Lemos, Ersilia M DeFilippis
{"title":"Looking beyond left ventricular wall thickness: the search for cardiac amyloidosis in women.","authors":"Carolina Lemos, Ersilia M DeFilippis","doi":"10.1080/13506129.2025.2562864","DOIUrl":"10.1080/13506129.2025.2562864","url":null,"abstract":"","PeriodicalId":50964,"journal":{"name":"Amyloid-Journal of Protein Folding Disorders","volume":" ","pages":"309-310"},"PeriodicalIF":7.4,"publicationDate":"2025-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145151606","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
期刊
Amyloid-Journal of Protein Folding Disorders
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