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Articles by Aaron E. Lin
把 Agent 效果从 “感觉” 变成 “可验证”
TLDR：用 A/B 盲测和独立评估，让约束迭代可验证 问题 约束迭代最大的问题，是写了不代表有效。很多时候我们只是觉得 Agent 变好了，但缺少稳定的验证方法 做法 我的流程分为四步： 修改约束文档，形成改后版本 按官方最佳实践 review，先排除明显不合理的写法 派 Subagent 做 A/B 对照测试，比较改前和改后的效果 再由 review 汇总结果，评估这次约束改动是否真的有效 对照方式 准备同一份需求设计，分别交给使用改前约束和改后约束的两个 Subagent，两者都不参考实际代码，只根据需求盲写解决方案 盲写完成后，派独立 Evaluator 进行盲评。Evaluator 可以参考实际代码，但不知道 A/B 分别对应哪版约束 由主 Agent 汇总评估结果，对比两组方案表现，判断约束改进是否有效 注意点 Claude Code 在同一个会话中修改 CLAUDE.md 后，本次会话派发的 Subagent 看不到最新改动。它读取的是主会话启动时的 CLAUDE.md 快照 一个真实案例 Subagent 同时评测同一份需求设计时，改后版本的 Token...
DeepStrataAge: an interpretable deep-learning clock that reveals stage- and sex-divergent DNA methylation aging dynamics
Abstract Aging is the strongest risk factor for chronic diseases such as cardiovascular disease, Alzheimer’s, and cancer. DNA methylation (DNAm) clocks offer a promising measure of biological age, but most rely on linear models that miss non-linear dynamics and CpG interactions. To address this, we developed a deep neural network (DNN)-based DNAm clock trained on 29,167 samples profiled on Illumina EPIC v1.0 and v2.0 arrays.
OMICmAge quantifies biological age by integrating multi-omics with electronic medical records - Nature Aging
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Abstract Biological aging reflects complex cellular and biochemical processes that can be measured across multiple omic layers. Using routine clinical laboratory data from ~31,000 participants in the Mass General Brigham Biobank, we developed EMRAge, a biomarker of mortality risk that can be broadly recapitulated across electronic medical records.
By Qingwen Chen, Varun B. Dwaraka, Natalia Carreras-Gallo, Jenel F. Armstrong, Raghav Sehgal, M. Austin Argentieri, Anne Richmond, Andrea Aparicio, Kevin Mendez, Yulu Chen, Sofina Begum, Priyadarshini Kachroo, Nicole Prince, Tao Guo, Hannah Went, Aaron E. Lin, Logan Turner, Su H Chu, Rachel Kelly, Scott Weiss, Vadim N. Gladyshev, Elizabeth W. Karlson, Craig Wheelock, Ewy Mathé, Amber Dahlin, Michael J. McGeachie, Riccardo E Marioni, Albert T. Higgins-Chen, Ryan Smith, Jessica Lasky-Su, Tavis Mendez, Nicholas J. W. Rattray
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Nature
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一次由 DNS 反解析引发的 SpringBoot 启动卡顿问题
TL;DR 使用 114 DNS 时，反解析内网 IP 无响应，导致 SpringBoot 启动时 Liquibase 初始化阻塞约 30 秒 InetAddress.getLocalHost() 获取到的可能是127.0.0.1，而非实际的内网 IP（如 192.168.x.x） 现象 SpringBoot启动时（HikariPool 初始化后）卡顿 30s 2025-11-09 15:14:33 INFO [main] com.zaxxer.hikari.HikariDataSource - HikariPool-1 - Starting...
Receptor transporter protein 4 (RTP4)-mediated repression of hepatitis C virus replication in mouse cells
Loading metrics Open Access Peer-reviewed Research Article ? This is an uncorrected proof. Citation: Schwoerer MP, Carver S, Lin AE, Liu J, Cafiero TR, Berggren KA, et al. (2025) Receptor transporter protein 4 (RTP4)-mediated repression of hepatitis C virus replication in mouse cells. PLoS Pathog 21(9): e1013412.
Amino acid changes in two viral proteins drive attenuation of the yellow fever 17D vaccine - Nature Microbiology
Abstract The live-attenuated yellow fever 17D vaccine strain differs genetically only minimally from its virulent parent. However, it remains unclear which sequence differences lead to virulence or attenuation. Here we demonstrate, using SHAPE-MaP, that these mutations do not induce global RNA structure changes and show that protein sequence mutations are mostly responsible for the phenotypic differences between 17D and virulent YFV.
Enhancement of Chikungunya virus genome replication in mammalian cells at a sub-physiological temperature
Abstract Chikungunya virus (CHIKV) is an alphavirus transmitted by Aedes mosquitoes, causing fever, rash and arthralgia in mammals. The function of the CHIKV non-structural protein 3 (nsP3) remains enigmatic. Building on previous studies (Gao et al, 2019), we generated a panel of mutants in a conserved and surface-exposed cluster in the nsP3 alphavirus unique domain (AUD) and tested their replication using a sub-genomic replicon (SGR).
永远不要相信用户的输入：从 SQL 注入攻防看输入验证的重要性
学习编程之初就常被告诫：“永远不要相信用户的输入”，但实际编码中，可能因为各种原因而忽略这点，本文尝试以 SQL 注入的角度探寻校验输入的重要性 以下实验均以 SQLI labs 靶场为例 来自：Less-1 这是一个常见的查询页面。http://127.0.0.1/Less-1/?id=1 ，通过 id=1 传递参数。后端常见的 SQL 写法：SELECT * FROM users WHERE id='$id' LIMIT 0,1; 攻击者可以通过构造 id 的参数值，执行任意的 SQL 语句： 其中关键步骤是构造 1' --+： 通过某个具体参数 1 和 单引号 ' 来结束前面的语句：SELECT * FROM users WHERE id='，使其成为合法的 SQL 语句： SELECT * FROM users WHERE id='1' 通过 --+ 来注释后面的 ' LIMIT 0,1"; 基于上面的原理，我们就可以在 1' 和 --+ 之间插入语句了，进行联合注入，具体步骤如下： 通过 order by 测列宽：?id=1' order by 4...
重拾 SSH：从基础到安全加固 - AaronLin - 博客园
安全外壳协议（Secure Shell Protocol，简称SSH）是一种加密的网络传输协议，属于应用层协议。OpenSSH 是最流行的 SSH 实现，它是大量操作系统的默认组件 OpenSSH 套件由以下工具组成： 远程操作使用：ssh, scp 和 sftp 密钥管理：ssh-add, ssh-keysign, ssh-keyscan 和 ssh-keygen 服务端： sshd, sftp-server 和 ssh-agent 使用 SSH 连接服务器 密钥类型选择 ed25519 椭圆曲线，它生成的公私钥都要比 RSA 更短，具有较高的安全性和性能 # - t 类型 # Ubuntu 22.04 默认：RSA 3072；Mac OS 默认：ED25519 256 # - a KDF (Key Derivation Function) 的迭代次数 默认：16 ，防止暴力破解 # - b 创建 key 的 bit，不同类型不同 # - C 备注，可以备注上创建年月，定期更换私钥 ssh-keygen -a 256 -t ed25519 -C...
Joji's Diner Review: Retro American Diner In Serangoon With Mains Under $15
Joji’s Diner is a popular retro American cafe in Serangoon Joji’s Diner, an American-style diner in Serangoon, has been popping up on social media ever since dining-in restrictions were lifted. Being an iconic symbol of American culture, diners are places of comfort, where people go for no-frills, greasy American grub that is fast, cheap and filling. Over at Joji’s Diner, they attempt to replicate this charm with their affordable all-day breakfast.
21 Durian Delivery Services In Singapore
Best durian delivery services in Singapore Staying in a tropical country means that we can indulge in the King of Fruits ASAP, once durian season arrives. If you don’t want to deal with the inconvenience of transporting durians home yourself though, you can check out this list of 21 durian delivery services in Singapore that’ll bring them straight to you in a jiffy. Image credit: 99 Old Trees 99 Old Trees gets their durian straight from Fook Gor Durian Farm in Raub district, West Pahang.
Liver-specific Mettl14 deletion induces nuclear heterotypia and dysregulates RNA export machinery
Abstract Modification of RNA with N6-methyladenosine (m6A) has gained attention in recent years as a general mechanism of gene regulation. In the liver, m6A, along with its associated machinery, has been studied as a potential biomarker of disease and cancer, with impacts on metabolism, cell cycle regulation, and pro-cancer state signaling. However these observational data have yet to be causally examined in vivo.
Traumatic injury characteristics and patient demographics shape the human systemic immune response to injury
The authors have declared no competing interest. This work was funded by the intramural research programs of the National Institute of Biomedical Imaging and Bioengineering, and National Institute of Allergy and Infectious Diseases, National Institutes of Health (NIH). I confirm all relevant ethical guidelines have been followed, and any necessary IRB and/or ethics committee approvals have been obtained.
USMC plans to buy high-power ULTV variant
USMC plans to buy high-power ULTV variant 11 April 2024 by Aaron Lin A marine programs a counter-unmanned aircraft system on a Light Marine Air Defense Integrated System (LMADIS) during a predeployment training exercise at Marine Corps Air Ground Combat Center, Twentynine Palms, California.
Membrane-proximal motifs encode differences in signaling strength between type I and III interferon receptors
Published In Science Signaling Volume 16 | Issue 806 October 2023 Article versions Submission history Received: 16 November 2022 Accepted: 9 September 2023 Permissions Request permissions for this article. Acknowledgments We are grateful to S. Kotenko (Rutgers New Jersey Medical School) for thoughtful discussions throughout the duration of this project, J. Tavernier (Ghent University) for sharing the EPOR-IFNAR1 and EPOR-IFNAR2 expression plasmids, and A.
Membrane-proximal motifs encode differences in signaling strength between type I and III interferon receptors
Published In Science Signaling Volume 16 | Issue 806 October 2023 Article versions Submission history Received: 16 November 2022 Accepted: 9 September 2023 Permissions Request permissions for this article. Acknowledgments We are grateful to S. Kotenko (Rutgers New Jersey Medical School) for thoughtful discussions throughout the duration of this project, J. Tavernier (Ghent University) for sharing the EPOR-IFNAR1 and EPOR-IFNAR2 expression plasmids, and A.
Single-cell massively-parallel multiplexed microbial sequencing (M3-seq) identifies rare bacterial populations and profiles phage infection - Nature Microbiology
Abstract Bacterial populations are highly adaptive. They can respond to stress and survive in shifting environments. How the behaviours of individual bacteria vary during stress, however, is poorly understood. To identify and characterize rare bacterial subpopulations, technologies for single-cell transcriptional profiling have been developed. Existing approaches show some degree of limitation, for example, in terms of number of cells or transcripts that can be profiled.
Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques - Nature Communications
Animal sampling No animal handling was involved in this study. Samples from Rhesus macaques (Macaca Mulatta, 43 samples across 12 tissues) were obtained from ref. 70. Animal handling was performed in accordance with the Guide for the Care and Use of Laboratory Animals of the National Institute of Health, the Office of Animal Welfare, and the US Department of Agriculture.
10 Boat Noodle Places In Singapore You Must Try
Boat noodle in Singapore If you love Thai food, or more specifically, boat noodles, bookmark this list. We have put together the top 10 boat noodle places in Singapore that will bring the BKK vibes to you! 1. Victory Boat Noodle Cafe Image credit: @victoryboatnoodlecafe While Beauty World Centre may be increasingly overshadowed by newer shopping malls, it is the perfect place to nest a hidden gem such as Victory Boat Noodle Cafe.
22 CHIJMES Food Places Including Hakata Ramen
CHIJMES food guide Located in City Hall, CHIJMES derived its iconic status from having an idyllic setting, clocking over 160 years of history, and housing belly-rubbing-worthy restaurants. If you find yourself overwhelmed by the multitude of food options there, here is our guide to 22 CHIJMES food places you can dine at when you’re in the area. 1. Dough Image credit: Â @chiaraang Among the ranks of famous cafes within CHIJMES is the bakery-cafe Dough.
Primer terminal ribonucleotide alters the active site dynamics of DNA Polymerase η and reduce DNA synthesis fidelity
Introduction DNA polymerases catalyze the essential process of DNA synthesis during DNA replication and DNA repair. Although distinct in their sequences and structures and categorized into seven enzymatic families, DNA polymerases contain similar active sites, follow similar kinetic pathways, and employ similar catalytic mechanisms ( 1 Wu W.-J. Yang W. Tsai M.-D. How DNA polymerases catalyse replication and repair with contrasting fidelity.
In vivo single-cell profiling of lncRNAs during Ebola virus infection
New Results View ORCID ProfileLuisa Santus, View ORCID ProfileRaquel García-Pérez, View ORCID ProfileMaria Sopena-Rios, View ORCID ProfileAaron E Lin, Gordon C Adams, View ORCID ProfileKayla G Barnes, View ORCID ProfileKatherine J Siddle, View ORCID ProfileShirlee Wohl, View ORCID ProfileFerran Reverter, View ORCID ProfileJohn L Rinn, View ORCID ProfileRichard S Bennett, View ORCID ProfileLisa E Hensley, View ORCID ProfilePardis C Sabeti, View ORCID ProfileMarta Melé doi:...
SARS-CoV-2 Disrupts Splicing, Translation, and Protein Trafficking to Suppress Host Defenses
Under a Creative Commons license open access Highlights • NSP16 binds mRNA recognition domains of U1/U2 snRNAs and disrupts mRNA splicing • NSP1 binds in the mRNA entry channel of the ribosome to disrupt protein translation • NSP8 and NSP9 bind the signal recognition particle and disrupt protein trafficking • These disruptions of protein production suppress the interferon response to infection Summary Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a recently identified...
Single-Cell Profiling of Ebola Virus Disease In Vivo Reveals Viral and Host Dynamics
Under a Creative Commons license open access Highlights • Interferon response is suppressed in infected cells but activated in bystander cells • EBOV represses antiviral genes and upregulates pro-viral genes in infected cells • Proliferative CD14– CD16– monocyte precursors expand in circulation during EVD • Identification of expression markers of EBOV tropism for circulating cells in vivo Summary Ebola virus (EBOV) causes epidemics with high mortality yet remains understudied due to the...
Single-Cell Profiling of Ebola Virus Disease In Vivo Reveals Viral and Host Dynamics
Highlights • Interferon response is suppressed in infected cells but activated in bystander cells • EBOV represses antiviral genes and upregulates pro-viral genes in infected cells • Proliferative CD14– CD16– monocyte precursors expand in circulation during EVD • Identification of expression markers of EBOV tropism for circulating cells in vivo Summary Ebola virus (EBOV) causes epidemics with high mortality yet remains understudied due to the challenge of experimentation in high-containment...
Viewpoint: China Chipping Away at the West’s Defense Market Share
Viewpoint: China Chipping Away at the West’s Defense Market Share 3/9/2020 By Aaron Lin KF-X fighter rendering Korea Aerospace Industries image For several decades Chinese arms manufacturers produced low-cost weapon systems that could not match the sophistication of the long-dominant Western arms manufacturers in the United States and Europe.
Programmable Inhibition and Detection of RNA Viruses Using Cas13
Highlights • Thousands of potential Cas13 target sites are present in ssRNA viral genomes • Cas13 is a potent antiviral against three diverse ssRNA viruses in cell culture • Optimal Cas13 target sites and design criteria are identified via genome-wide screen • Companion Cas13-based diagnostics can be used to assess the effects of targeting Summary The CRISPR effector Cas13 could be an effective antiviral for single-stranded RNA (ssRNA) viruses because it programmably cleaves RNAs...
72-year-old woman after a left atrial appendage occluder
72-year-old woman after a left atrial appendage occluder Christian Hamilton-Craig1,2,3, Matthew Lambert4, Aaron Lin1 1 Department of Cardiology, The Prince Charles Hospital, Brisbane, Queensland, Australia 2 School of Medicine, Faculty of Health, Griffith University, Sunshine Coast, Queensland, Australia 3 Faculty of Medicine, University of Queensland, Brisbane, Queensland, Australia 4 Echocardiography Laboratory, The Prince Charles Hospital, Brisbane, Queensland, Australia Correspondence to...
72-year-old woman after a left atrial appendage occluder
72-year-old woman after a left atrial appendage occluder Christian Hamilton-Craig1,2,3, Matthew Lambert4, Aaron Lin1 1 Department of Cardiology, The Prince Charles Hospital, Brisbane, Queensland, Australia 2 School of Medicine, Faculty of Health, Griffith University, Sunshine Coast, Queensland, Australia 3 Faculty of Medicine, University of Queensland, Brisbane, Queensland, Australia 4 Echocardiography Laboratory, The Prince Charles Hospital, Brisbane, Queensland, Australia Correspondence to...
The Presentation and Management of Laryngeal Cleft
Objective To review the presentation and associated congenital abnormalities of laryngeal cleft and present guidelines for its evaluation and management. Main Outcome Measures Sex, age, symptoms, other associated abnormalities, method of evaluation, type of laryngeal cleft, method of surgical repair, treatment outcome, complications, and long-term follow-up. Results All 22 patients underwent surgical repair for laryngeal cleft.
North Korean Nuclear Forces and the Threat of Weapons of Mass Destruction in Northeast Asia
By Anthony H. Cordesman with the assistance of Charles Ayers and Aaron Lin The two Koreas differ sharply in their political and military need for missiles and weapons of mass destruction. South Korea is now a global economic power that is fully integrated into the international system. North Korea’s economy is close to that of a failed state, and it needs nuclear weapons and missiles for both political prestige and leverage in negotiating with the United States and its neighbors.
Why Subs? To Send Neighbors a Powerful Message - “Stay Outta My Yard”
Defense spending across Asia has increased substantially during the past 10 years, and looks to continue growing apace into the 2020s. Nowhere is this more apparent than in plans to spend nearly $40 billion on submarines during the next decade, as estimated by Avascent Analytics’ Global Platforms and Systems database. Although China’s naval forces strengthen year by year, the conventional view that this aspiring regional hegemon is the main driver of the region’s undersea arms race is simplistic.
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