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Ali Max Erturk

@erturklab • 90,919 subscribers

CEO of @DeepPiction, director at Helmholtz, LMU Prof. AI-based technologies for health. We’re🇩🇪🇹🇷🇭🇷🇨🇳🇮🇹🇮🇳🇸🇮🇴🇲🇨🇱🇭🇺🇧🇬🇺🇦🇷🇴🇦🇹🇹🇼🏳‍🌈

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Our recent work in nature, MouseMapper uses foundation-model AI, mapping perturbations in mouse body cell-by-cell, revealed unexpected facial nerve damage. Proud to see >75K accesses & >60 news stories in the first week. next come>

Our recent work in nature, MouseMapper uses foundation-model AI, mapping perturbations in mouse body cell-by-cell, revealed unexpected facial nerve damage. Proud to see >75K accesses & >60 news stories in the first week. next come>

31,365 просмотров

We are introducing LipiGo 🤗 A programmable DNA–lipid nanocarrier 🧬 with built-in targeting logic. It de-targets the liver and redirects mRNA delivery into lymphoid organs, enhancing therapies requiring the immune system. by cerenkimna Karoline 1/n

We are introducing LipiGo 🤗 A programmable DNA–lipid nanocarrier 🧬 with built-in targeting logic. It de-targets the liver and redirects mRNA delivery into lymphoid organs, enhancing therapies requiring the immune system. by cerenkimna Karoline 1/n

32,038 просмотров

Using vDISCO tissue clearing, and a new ultrabright chemical labeling strategy, this Neuron paper introduces LINCS, a powerful method for rapid 3D connectivity mapping in large tissue samples, from whole brains to whole bodies. A very nice advance for scalable circuit mapping, especially by combining strong, uniform labeling with sparse single-neuron reconstruction. Outstanding work by the Rui Lin lab. Full paper: #TissueClearing #LightSheetMicroscopy #Neuroscience #BrainMapping #Connectomics #3DImaging

Using vDISCO tissue clearing, and a new ultrabright chemical labeling strategy, this Neuron paper introduces LINCS, a powerful method for rapid 3D connectivity mapping in large tissue samples, from whole brains to whole bodies. A very nice advance for scalable circuit mapping, especially by combining strong, uniform labeling with sparse single-neuron reconstruction. Outstanding work by the Rui Lin lab. Full paper: #TissueClearing #LightSheetMicroscopy #Neuroscience #BrainMapping #Connectomics #3DImaging

13,883 просмотров

We have developed MouseMapper AI, a deep learning ensemble for the analysis of whole-body systems, including the nervous and immune systems, to map disease/drug perturbations tissue by tissue, organ by organ, at the cellular level in 3D. MouseMapper uncovered obesity-induced whole-neuronal changes, most notably, a loss of trigeminal nerve endings linked to impaired whisker sensitivity, as well as tissue-specific macrophage clustering across the body. Kaltenecker, Horvath, Al-Maskari, Kolabas, Chen… Ertürk, bioRxiv (2024)

We have developed MouseMapper AI, a deep learning ensemble for the analysis of whole-body systems, including the nervous and immune systems, to map disease/drug perturbations tissue by tissue, organ by organ, at the cellular level in 3D. MouseMapper uncovered obesity-induced whole-neuronal changes, most notably, a loss of trigeminal nerve endings linked to impaired whisker sensitivity, as well as tissue-specific macrophage clustering across the body. Kaltenecker, Horvath, Al-Maskari, Kolabas, Chen… Ertürk, bioRxiv (2024)

35,553 просмотров

An unbiased study of whole biological systems is key to deciphering complexity. Our new paper describes the steps & applications of vDISCO whole mouse imaging in Nature Protocols work by Ruiyao Marika Cai, Ilgın Kolabas et al. #vDISCO #clearing 🧵👇1/n

An unbiased study of whole biological systems is key to deciphering complexity. Our new paper describes the steps & applications of vDISCO whole mouse imaging in Nature Protocols work by Ruiyao Marika Cai, Ilgın Kolabas et al. #vDISCO #clearing 🧵👇1/n

49,187 просмотров

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Today in nature, we report MouseMapper: foundation-model AI to map disease perturbations across the entire mouse body cell-by-cell. In obesity, it revealed body-wide inflammation & unexpected facial nerve damage. 🧵👇🔉 led by Doris Kaltenecker & Ying Chen

Today in nature, we report MouseMapper: foundation-model AI to map disease perturbations across the entire mouse body cell-by-cell. In obesity, it revealed body-wide inflammation & unexpected facial nerve damage. 🧵👇🔉 led by Doris Kaltenecker & Ying Chen

257,106 просмотров • 16 дней назад

Our new study shows that SARS-CoV-2 spike protein accumulates & persists in the body for years after infection, especially in the skull-meninges-brain axis, potentially driving long COVID. mRNA vaccines help but cannot stop it🔬🧠🦠🧵👇Cell Host & Microbe

Our new study shows that SARS-CoV-2 spike protein accumulates & persists in the body for years after infection, especially in the skull-meninges-brain axis, potentially driving long COVID. mRNA vaccines help but cannot stop it🔬🧠🦠🧵👇Cell Host & Microbe

1,985,965 просмотров • 1 год назад

Single-cell RNA-seq transformed biology, but we still sample <0.001% of an organism. 2D sections lose 3D context. What if we image the whole body first? We Introduce DISCO-seq🤩: full 3D imaging then scRNAseq👇🏻 by Harsharan Bhatia, Laurent Simons et al.

Single-cell RNA-seq transformed biology, but we still sample <0.001% of an organism. 2D sections lose 3D context. What if we image the whole body first? We Introduce DISCO-seq🤩: full 3D imaging then scRNAseq👇🏻 by Harsharan Bhatia, Laurent Simons et al.

23,243 просмотров • 7 дней назад

Türk nörobilimcilerinden dünya çapında ses getiren bir çalışma: Vücutta dolaşan ve kanser gibi hedeflere giden küçük nanorobotlar geliştirdiler.

Türk nörobilimcilerinden dünya çapında ses getiren bir çalışma: Vücutta dolaşan ve kanser gibi hedeflere giden küçük nanorobotlar geliştirdiler.

737,311 просмотров • 2 лет назад

Does brain aging always mean vessel loss? 🧠We found a surprising hypervascularization, driving cognitive decline & blood-brain barrier damage in aging. 👇🧵 Led by Mihail Todorov

Does brain aging always mean vessel loss? 🧠We found a surprising hypervascularization, driving cognitive decline & blood-brain barrier damage in aging. 👇🧵 Led by Mihail Todorov

24,215 просмотров • 21 дней назад

Imagine you could stain whole adult mice with standard IgG antibodies. What you couldn't do! We present wildDISCO technology for this🤗, creating the first whole body vascular, lymphatic, and nerve atlases. By HongchengMAI Jie Luo 🧵👇🏼(turn on the sound)

Imagine you could stain whole adult mice with standard IgG antibodies. What you couldn't do! We present wildDISCO technology for this🤗, creating the first whole body vascular, lymphatic, and nerve atlases. By HongchengMAI Jie Luo 🧵👇🏼(turn on the sound)

393,676 просмотров • 3 лет назад

Want to use deep learning for image analysis but lack the coding skills? We introduce DELiVR, a game-changer in brain-wide cell analysis. No coding required, our Fiji Plug-in does the magic. Hats off to Doris Kaltenecker, Rami, @moritz_negwer! 🧵👇🏼 1/n

Want to use deep learning for image analysis but lack the coding skills? We introduce DELiVR, a game-changer in brain-wide cell analysis. No coding required, our Fiji Plug-in does the magic. Hats off to Doris Kaltenecker, Rami, @moritz_negwer! 🧵👇🏼 1/n

244,418 просмотров • 3 лет назад

Spatial-omics goes 3D🤗! Out at Cell Cell 👉🏼 We developed DISCO-MS with Matthias Mann Lab, a spatial proteomics technology for specimens fully imaged in 3D. DISCO-MS is aided by robotics and enables the study of diseases at their early stages.

Spatial-omics goes 3D🤗! Out at Cell Cell 👉🏼 We developed DISCO-MS with Matthias Mann Lab, a spatial proteomics technology for specimens fully imaged in 3D. DISCO-MS is aided by robotics and enables the study of diseases at their early stages.

217,640 просмотров • 3 лет назад

Imagine seeing a disease's impact on every cell in the body. Now, you can! We introduce MouseMapper, an AI tool to reveal system-wide disease perturbations. MouseMapper showed obesity-induced changes in facial nerves & body-wide inflammation 👉🏼🧵

Imagine seeing a disease's impact on every cell in the body. Now, you can! We introduce MouseMapper, an AI tool to reveal system-wide disease perturbations. MouseMapper showed obesity-induced changes in facial nerves & body-wide inflammation 👉🏼🧵

119,673 просмотров • 1 год назад

Tissue clearing of bones + 3D light-sheet imaging combined with high-dimensional spatial profiling reveals how CML rewires the bone marrow microenvironment in region-specific ways, far beyond simple changes in cell counts. Bettina Weigelin and Christian M. Schürch teams. #DISCO #clearing #3Dimaging #lightsheet #bone

Tissue clearing of bones + 3D light-sheet imaging combined with high-dimensional spatial profiling reveals how CML rewires the bone marrow microenvironment in region-specific ways, far beyond simple changes in cell counts. Bettina Weigelin and Christian M. Schürch teams. #DISCO #clearing #3Dimaging #lightsheet #bone

22,720 просмотров • 4 месяцев назад

We are hiring a Lab Technician/Scientist at Deep Piction At Deep Piction, we work on medically unmet challenges using high-resolution whole-body imaging with AI. To make this possible, we need strong wet-lab execution. 🔗 APPLY HERE: This role will support the team across diverse experimental workflows and help ensure that our work is reliable, reproducible, and scalable. If you enjoy hands-on lab work, structure, and making things run properly, this could be a great fit. 📍 Munich, on-site At Deep Piction, we work on medically unmet challenges, including infectious diseases and cancer. We combine high-resolution whole-body imaging with AI to develop the most targeted and precise therapies. To make this possible, we need strong wet-lab execution. This role will support the team across diverse experimental workflows and help ensure that our work is reliable, reproducible, and scalable. If you enjoy hands-on lab work, structure, and making things run properly, this could be a great fit. 📍 Munich, on-site If someone comes to mind who would be a great fit, I’m sure they would be excited to see this opportunity, please feel free to share. If someone comes to mind who would be a great fit, I’m sure they would be excited to see this opportunity, please feel free to share.

We are hiring a Lab Technician/Scientist at Deep Piction At Deep Piction, we work on medically unmet challenges using high-resolution whole-body imaging with AI. To make this possible, we need strong wet-lab execution. 🔗 APPLY HERE: This role will support the team across diverse experimental workflows and help ensure that our work is reliable, reproducible, and scalable. If you enjoy hands-on lab work, structure, and making things run properly, this could be a great fit. 📍 Munich, on-site At Deep Piction, we work on medically unmet challenges, including infectious diseases and cancer. We combine high-resolution whole-body imaging with AI to develop the most targeted and precise therapies. To make this possible, we need strong wet-lab execution. This role will support the team across diverse experimental workflows and help ensure that our work is reliable, reproducible, and scalable. If you enjoy hands-on lab work, structure, and making things run properly, this could be a great fit. 📍 Munich, on-site If someone comes to mind who would be a great fit, I’m sure they would be excited to see this opportunity, please feel free to share. If someone comes to mind who would be a great fit, I’m sure they would be excited to see this opportunity, please feel free to share.

13,533 просмотров • 2 месяцев назад

Exciting🥳 Our new study in Cell shows that our skull is a gateway for diagnosing & potentially treating brain diseases such as Alzheimer's & stroke. Imagine a future where a portable sensor on the skull can monitor brain health! Cell 🧵👇🏼with🔈

Exciting🥳 Our new study in Cell shows that our skull is a gateway for diagnosing & potentially treating brain diseases such as Alzheimer's & stroke. Imagine a future where a portable sensor on the skull can monitor brain health! Cell 🧵👇🏼with🔈

108,033 просмотров • 2 лет назад

We are introducing LipiGo 🤗 A programmable DNA–lipid nanocarrier 🧬 with built-in targeting logic. It de-targets the liver and redirects mRNA delivery into lymphoid organs, enhancing therapies requiring the immune system. by cerenkimna Karoline 1/n

We are introducing LipiGo 🤗 A programmable DNA–lipid nanocarrier 🧬 with built-in targeting logic. It de-targets the liver and redirects mRNA delivery into lymphoid organs, enhancing therapies requiring the immune system. by cerenkimna Karoline 1/n

32,038 просмотров • 7 месяцев назад

Very excited to share that our DELiVR method is now open access published @NatureMethods. We created a simple, brain-wide cell analysis deep learning tool, no coding needed! Fiji Plugin makes it accessible to all. by Doris Kaltenecker Rami @moritz_negwer

Very excited to share that our DELiVR method is now open access published @NatureMethods. We created a simple, brain-wide cell analysis deep learning tool, no coding needed! Fiji Plugin makes it accessible to all. by Doris Kaltenecker Rami @moritz_negwer

56,834 просмотров • 2 лет назад

From 3D imaging to therapy Using our DISCO tissue clearing and whole organ 3D imaging platform, we revealed skull to meninges microchannels connecting calvarial bone marrow with the brain borders in mice (Cai...Ertürk, Nature Neuroscience,2018, We then extended this biology to humans, discovering distinct skull bone marrow programs and structural skull meninges connections in health and neurological disease (Kolabas...Ertürk, Cell, 2023). Now, a new study reports a first therapeutic application of this route: intracalvariosseous (calvarial) injection of drug loaded albumin nanoparticles to “hijack” calvarial immune cells, which then migrate via skull meninges microchannels to CNS lesions, bypassing the blood brain barrier and improving outcomes in stroke models, with encouraging clinical feasibility data (Gao et al., Cell, 2026) We are proud that DISCO enabled biology that is now turning into concrete therapeutic strategies for devastating neurological diseases. More to come. #DISCO #TissueClearing #Neuroimmunology #Stroke #Nanomedicine #DrugDelivery #BBB #CNS Refs (for linking in comments): Cai et al. Nat Neuroscience, Kolabas et al. Cell 2023, the video from Gao et al. Cell 2026 (online Jan 16, 2026).

From 3D imaging to therapy Using our DISCO tissue clearing and whole organ 3D imaging platform, we revealed skull to meninges microchannels connecting calvarial bone marrow with the brain borders in mice (Cai...Ertürk, Nature Neuroscience,2018, We then extended this biology to humans, discovering distinct skull bone marrow programs and structural skull meninges connections in health and neurological disease (Kolabas...Ertürk, Cell, 2023). Now, a new study reports a first therapeutic application of this route: intracalvariosseous (calvarial) injection of drug loaded albumin nanoparticles to “hijack” calvarial immune cells, which then migrate via skull meninges microchannels to CNS lesions, bypassing the blood brain barrier and improving outcomes in stroke models, with encouraging clinical feasibility data (Gao et al., Cell, 2026) We are proud that DISCO enabled biology that is now turning into concrete therapeutic strategies for devastating neurological diseases. More to come. #DISCO #TissueClearing #Neuroimmunology #Stroke #Nanomedicine #DrugDelivery #BBB #CNS Refs (for linking in comments): Cai et al. Nat Neuroscience, Kolabas et al. Cell 2023, the video from Gao et al. Cell 2026 (online Jan 16, 2026).

15,792 просмотров • 4 месяцев назад

🚀 We’re hiring! Staff Scientist / Postdoc – Tissue Clearing & 3D Image Analysis (m/f/d) (LMU Munich) Are you a great fit, or do you know someone outstanding, please reach out 🔁 If you want to at the frontier of whole-organ / whole-body 3D imaging, and help generate truly beautiful datasets that drive major biological discoveries and therapeutic development, see below ✨ We’re building the next-generation pipeline for tissue clearing + light-sheet microscopy + quantitative 3D analysis in the SyNergy Excellence Cluster (Mesoscale Hub) and we’re looking for someone excited to push this forward with us. 🧠🔬📈 🎥 I’m also attaching a short video showing the kind of high-quality imaging and datasets you’d be working with. What you’ll do 🛠️ 🔹 Lead and evolve tissue clearing + light-sheet workflows across collaborative SyNergy projects 🔹 Turn complex 3D datasets into robust quantitative insights (visualization, atlas registration, readouts) 🔹 Develop new methods and analysis pipelines together with our AI team 🤖 🔹 Maintain and optimize cutting-edge light-sheet systems (optional: support animal license writing) What we’re looking for 🎯 ✅ Strong hands-on experience in tissue clearing and/or fluorescence microscopy ✅ Solid experience with light-sheet microscopy and 3D imaging workflows ✅ Familiarity with 3D tools like Imaris / arivis Vision4D, stitching (e.g., BigStitcher), and quantitative analysis in cleared tissues ✅ Service mindset, great organization, and strong scientific English How to apply 📩 Apply via the LMU Klinikum online application form Please also send your application to: farida.hellal@med.uni-muenchen.de CC: ali.ertuerk@med.uni-muenchen.de 📎 Include one PDF: short cover letter, CV, 2–3 referees, and earliest start date. 📍 Campus Großhadern (Munich) and Helmholtz Munich | 🕒 Full-time | 📅 Start: 01 January 2026 If you love high-quality imaging, cutting-edge biology, and building something that will matter, we’d love to hear from you. 🌍✨ #hiring #StaffScientist #Postdoc #TissueClearing #LightSheetMicroscopy #ImageAnalysis #SpatialBiology #Neuroscience #SyNergy #LMU #Munich

🚀 We’re hiring! Staff Scientist / Postdoc – Tissue Clearing & 3D Image Analysis (m/f/d) (LMU Munich) Are you a great fit, or do you know someone outstanding, please reach out 🔁 If you want to at the frontier of whole-organ / whole-body 3D imaging, and help generate truly beautiful datasets that drive major biological discoveries and therapeutic development, see below ✨ We’re building the next-generation pipeline for tissue clearing + light-sheet microscopy + quantitative 3D analysis in the SyNergy Excellence Cluster (Mesoscale Hub) and we’re looking for someone excited to push this forward with us. 🧠🔬📈 🎥 I’m also attaching a short video showing the kind of high-quality imaging and datasets you’d be working with. What you’ll do 🛠️ 🔹 Lead and evolve tissue clearing + light-sheet workflows across collaborative SyNergy projects 🔹 Turn complex 3D datasets into robust quantitative insights (visualization, atlas registration, readouts) 🔹 Develop new methods and analysis pipelines together with our AI team 🤖 🔹 Maintain and optimize cutting-edge light-sheet systems (optional: support animal license writing) What we’re looking for 🎯 ✅ Strong hands-on experience in tissue clearing and/or fluorescence microscopy ✅ Solid experience with light-sheet microscopy and 3D imaging workflows ✅ Familiarity with 3D tools like Imaris / arivis Vision4D, stitching (e.g., BigStitcher), and quantitative analysis in cleared tissues ✅ Service mindset, great organization, and strong scientific English How to apply 📩 Apply via the LMU Klinikum online application form Please also send your application to: [email protected] CC: [email protected] 📎 Include one PDF: short cover letter, CV, 2–3 referees, and earliest start date. 📍 Campus Großhadern (Munich) and Helmholtz Munich | 🕒 Full-time | 📅 Start: 01 January 2026 If you love high-quality imaging, cutting-edge biology, and building something that will matter, we’d love to hear from you. 🌍✨ #hiring #StaffScientist #Postdoc #TissueClearing #LightSheetMicroscopy #ImageAnalysis #SpatialBiology #Neuroscience #SyNergy #LMU #Munich

14,703 просмотров • 5 месяцев назад

Discover the future of 3D-omics! Our perspective aritcle explores how tissue clearing and AI with single-cell omics could revolutionize understanding of entire organs & organisms. Read the full article:

Discover the future of 3D-omics! Our perspective aritcle explores how tissue clearing and AI with single-cell omics could revolutionize understanding of entire organs & organisms. Read the full article:

38,248 просмотров • 1 год назад

We are thrilled to see that our recent Nature Biotechnology paper just became the most accessed publication in the journal within only three months (>225K accesses 🤩)—a fantastic achievement reflecting the power of teamwork! This paper has 7 first authors: two computer scientists, two biologists, and three chemists working together. It perfectly illustrates something I’ve learned deeply over the past 10 years leading my group: great science is mostly the synergy of diverse minds and skills. Building a successful team is like assembling Lego bricks—each person complements the others, fits precisely, and collectively forms something much greater than any single piece. Over the years, we’ve made mistakes and learned valuable lessons, particularly in finding team members whose values and work styles align with our team culture. Now, we’re more intentional about ensuring a mutual fit, making the collaboration enjoyable, reciprocal, and highly productive. This paper is a perfect example: by combining high-resolution imaging and AI, our interdisciplinary team enabled unprecedented visualization and therapeutic development at the single-cell level throughout entire organisms. Proud of the team effort behind this impactful research and deeply grateful to each member who made it possible! What are your experiences working in a highly collaborative team vs. better focusing on your own project? The latter is totally fine and works perfectly for many academic labs.

We are thrilled to see that our recent Nature Biotechnology paper just became the most accessed publication in the journal within only three months (>225K accesses 🤩)—a fantastic achievement reflecting the power of teamwork! This paper has 7 first authors: two computer scientists, two biologists, and three chemists working together. It perfectly illustrates something I’ve learned deeply over the past 10 years leading my group: great science is mostly the synergy of diverse minds and skills. Building a successful team is like assembling Lego bricks—each person complements the others, fits precisely, and collectively forms something much greater than any single piece. Over the years, we’ve made mistakes and learned valuable lessons, particularly in finding team members whose values and work styles align with our team culture. Now, we’re more intentional about ensuring a mutual fit, making the collaboration enjoyable, reciprocal, and highly productive. This paper is a perfect example: by combining high-resolution imaging and AI, our interdisciplinary team enabled unprecedented visualization and therapeutic development at the single-cell level throughout entire organisms. Proud of the team effort behind this impactful research and deeply grateful to each member who made it possible! What are your experiences working in a highly collaborative team vs. better focusing on your own project? The latter is totally fine and works perfectly for many academic labs.

19,658 просмотров • 1 год назад

wow🤩🤩🤩, our wildDISCO Nature Biotechnology paper presenting whole mouse body atlases has become its most downloaded article in 2023 (50K times) within a short time. Great follow-up studies are on the way, stay tuned 😉

wow🤩🤩🤩, our wildDISCO Nature Biotechnology paper presenting whole mouse body atlases has become its most downloaded article in 2023 (50K times) within a short time. Great follow-up studies are on the way, stay tuned 😉

33,319 просмотров • 2 лет назад

We have developed DELIVR, a user-friendly deep-learning pipeline for automatically detecting and analyzing cells from whole-brain images to map neuronal activity via cFOS. DELIVR uses virtual reality to substantially accelerate the generation of training data and is accessible to biologists without advanced coding skills through a simple Fiji plugin. Kaltenecker, Al-Maskari, Negwer...Ertürk, Nature Methods. (Virtual reality-empowered deep-learning analysis of brain cells. 2024; doi:10.1038/s41592-024-02245-2) Doris Kaltenecker Rami @moritz_negwer #AI #Neuroscience #DeepLearning #VirtualReality #BrainMapping #ImageAnalysis #ComputationalBiology #CancerResearch #cFos #Fiji

We have developed DELIVR, a user-friendly deep-learning pipeline for automatically detecting and analyzing cells from whole-brain images to map neuronal activity via cFOS. DELIVR uses virtual reality to substantially accelerate the generation of training data and is accessible to biologists without advanced coding skills through a simple Fiji plugin. Kaltenecker, Al-Maskari, Negwer...Ertürk, Nature Methods. (Virtual reality-empowered deep-learning analysis of brain cells. 2024; doi:10.1038/s41592-024-02245-2) Doris Kaltenecker Rami @moritz_negwer #AI #Neuroscience #DeepLearning #VirtualReality #BrainMapping #ImageAnalysis #ComputationalBiology #CancerResearch #cFos #Fiji

15,748 просмотров • 10 месяцев назад