TISSUE CLEARING FOR 3D IMAGING
Hydrogel Solution Kit C1310X
Polymerization System C20001
Tissue Clearing System II C30001Electrophoretic
Tissue Clearing Solution C13001
X-CLARITY™ Hydrogel Solution Kit
The X-CLARITY™ Hydrogel Solution Kit is a pre-tested hydrogel solution for uniform and consistent tissue-hydrogel hybridization. The kit is made up of X-CLARITY™ Hydrogel Solution, an acrylamide-based solution used to create polyacrylamide, and X-CLARITY™ Polymerization Initiator, a thermal free radical initiator also known as VA-044.
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X-CLARITY™ Polymerization System C20001The X-CLARITY™ Polymerization System is a standalone, automated system developed to simplify tissue-hydrogel hybridization, a crucial step for optimal tissue clearing. Multiple samples can be placed in multi-well plates or conical tubes for rapid and efficient high-throughput sample processing. Users can control polymerization by adjusting vacuum strength, temperature, and a timer through a simple touchscreen interface.App Note
(up to 768 samples/run)
Compatible with various
Steady vacuum &
Rapid and consistent
X-CLARITY™ Heat Block for 6 x 50 mL tubes
Catalog #: C20002
Quantity : 1 unit
Holds six 50 mL conical tubes
X-CLARITY™ Heat Block for flat-bottom plates
Catalog #: C20003
Quantity : 1 unit
Holds one flat-bottom plate
X-CLARITY™ Tissue Clearing System II C30001The X-CLARITY™ Tissue Clearing System II is an all-in-one, easy-to-use solution for electrophoretic tissue clearing. Its unique design accelerates the removal of lipids from tissues while preserving the structural integrity of the sample. Clear a whole mouse brain in just 6 hours, an astounding 8 times faster than the original technology. Users can set tissue clearing conditions through a simple and intuitive touchscreen interface. In ETC (electrophoretic tissue clearing) mode, platinum-plated electrodes generate an electric field to accelerate the removal of lipids from tissues in a highly efficient manner. A built-in temperature control system actively cools and heats buffer to maintain consistent buffer temperatures during clearing. Buffer is constantly circulated to ensure consistent buffering capacity, temperature control, and elimination of tissue clearing byproducts. This advanced system ensures efficient, rapid, and consistent tissue clearing.APP NOTE SAMPLE HOLDERS
Precise temperature control
Active buffer cooling and
Sensitive and accurate
Uniform electric field
Platinum plated electrodes
Constant current and
constant voltage modes
Compatible with multiple tissue types and sizes
Active and passive clearing
Holders of various sizes
Electrophoretic Tissue Clearing Solution C13001Electrophoretic Tissue Clearing Solution is a premixed SDS-based buffer optimized for use with the X-CLARITY™ Tissue Clearing System II.
PFA-fixed (1 week)
After RI matching
Seoul National University College of Medicine
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LABELING AND IMAGING
Accelerate antibody labeling with the ALL-NEW DeepLabel™ Antibody Labeling Kit.LERN MORE
WHAT DO OUR CUSTOMERS HAVE TO SAY?
Chiara Magliaro, PhD
Research Center E. Piaggio - University of Pisa
The X-CLARITY system is a very easy-to-use and versatile instruments. I started using it for murine brains, and it was quite easy to customize the protocols also for different biological samples (e.g., 3D advanced neural constructs). It allows me to avoid both waste of time and money.
Dongyue Lin, PhD
Sun Yat-Sen University
Great results. The instrument is very convenient, and the tissue clearing effect is very good.
Francesca Longhena, PhD
University of Brescia
Essential for good clarification! This instrument is very useful in order to make the clarification protocol easier and faster!"
San Raffaele Scientific Institute
X-CLARITY is the definitive solution for an effective, robust and highly repeatable clearing. X-CLARITY helps clearing expert users to have more reproducible and standardized data, opening the possibility to have robust quantitative data even from cleared tissue samples, as well as dummies that look out this technique for the first time. In our facility very often people who had never even been done just simple immunofluorescences they were able to get perfect cleared samples for imaging (confocal or two-photon).
Claire Crola Da Silva, PhD
It is essential for our research. Very easy to use. It gives robust and reproducible results and allows us to standardize the methodological chain.
Great results, easy to use! This product was effective at clearing my tissue samples. It cleared whole brains, hearts, stomach, kidneys, livers, etc. The user manual was easy to read and easy to follow. There is little attention and maintenance required while the system in running.
Terika Smith, PhD
University of South Carolina
Great instrument and would highly recommend. This tissue clearing system is very easy to use and is very user friendly. I've used it to clear mouse nerves and spinal cords in approximately 4-6 hours. When the system first arrived, there was an issue with the ETC controller, but customer service handled it very efficiently and quickly. We've been getting great results with this system and I would highly recommend it to anyone interested in tissue clearing.
Alexandre Paccalet, PhD
Confident system and confident company. I work with the X-CLARITY system every day and I can say that this is a very reliable system. The simpler utilization and the ergonomics of the machine is appreciable. The customer service cannot be more efficient, any problems are resolved in a day or two day maximum and communication is based on mutual confidence. I recommend Logos and the X-CLARITY system.
Gabriel Bidaux, PhD
INSERM UMR 1060
For you if you want to accelerate your research! The X-CLARITY system is easy to use, devoted to aqueous-based method for organ clearing. It helps clearing several organs at once and in a short period of time. Works well on a lot of different mouse organs or even pieces of primates and humans organs. Logos Biosystems after-sales are fast and always find a compromise as a solution to our rare issues.
Doug Richardson, PhD
Harvard Center for Biological Imaging
We purchased the X-CLARITY Tissue Clearing System for our facility and have been very satisfied with its easy-to-use design and consistent results. The X-CLARITY Tissue Clearing System has now allowed many more researchers to enter the field of tissue clearing. In my opinion, the X-CLARITY Tissue Clearing System along with the recently introduced X-CLARITY Polymerization System will help expand the availability of this technique to all scientists who hope to add it to their laboratory’s repertoire.
Great product, produces rich data. So far, the X-CLARITY has helped us to get amazing data on astrocyte morphology in the olfactory bulb. Thanks to the clearing, it makes slicing the tissue for microscopy redundant. Therefore we are able to study the more complex networks in their physiological form. Great product!
Uri Manor, PhD
Salk Institute for Biological Studies
The X-CLARITY system is a delight to use and significantly lowers the barrier to tissue clearing imaging applications. With better clearing, and faster turnaround time, we were able to generate many more samples and images than would otherwise have been possible. Highly recommended!
Yoko Yazaki-Sugiyama, PhD
Okinawa Institute of Science and Technology
For quite a while we were using passive immersion method to obtain transparent zebra finch brains, but this was time-consuming and always a pain in the neck. With the X-CLARITY Tissue Clearing System, even a whole brain can be cleared within several hours with excellent consistency as well as better signal-to-noise ratio when acquiring fluorescent images from deep tissue. It has made our lives a lot easier. TIME IS MONEY!
Robert Hunt, PhD
University of California, Irvine
We were not sure what to expect when we tried the X-CLARITY Tissue Clearing System. I've tried other tissue clearing methods with varying levels of success. When Jan, a first-year graduate student, showed me a fully cleared whole mouse brain on his first try, I was really impressed! I think this system will really speed up his work.
Annick Prigent & Benoît Delatour, PhD
The X-CLARITY allows us to perform rapid, efficient, and standardized clearing of mouse and human brain tissues. Access to the X-CLARITY technology will undoubtedly help the ICM research teams to better understand the 3D organization of protein assemblies and organelles in tissues.
Woong Sun, PhD
Korea University Medical School
I tried to design my own DIY ETC chamber for a long time without any success. I tried the X-CLARITY Tissue Clearing System and got a transparent mouse brain on my first try. It works really well and is easy to use. I’ve successfully imaged tissues that contain GFP or that I’ve labeled with fluorescence-tagged antibodies. It makes tissue clearing a stress free process.
Youngshik Choe, PhD
Korea Brain Research Institute
I find the X-CLARITY simplifies the CLARITY procedure and gives consistent transparency of tissues by plug and play steps.
The best of it is the speed that can't be achieved by other methods.
WHERE THE X-CLARITY™ HAS BEEN CITED
Multiplex immunolabeling and imaging of functionally essential kidney structures in X-CLARITY-cleared tissue.
2019. Mochama P, Tyshynsky R, Sanders MA. Microscopy and Microanalysis 25(Supplement S2): 1260-1261.
BigStitcher: Reconstructing high-resolution image datasets of cleared and expanded samples.
2019. Hörl D, Rusak FR, Preusser F, Tillberg P, Rande N, Chhetri RK, Cardona A, Keller PJ, Harz H, Leonhardt H, Treier M, Preibisch S. Nature Methods doi.org/10.1038/s41592-019-0501-0.
Clarity analysis of the Cl/pH sensor expression in the brain of transgenic mice.
2019. Diuba AV, Samigullin DV, Kaszas A, Zonfrillo F, Malkov A, Peukhova E, Casini A, Arosio D, Esclapez M, Gross CT, Bregestovski P. Neuroscience.
Enhanced resolution 3D digital cytology and pathology with dual-view inverted selective plane illumination microscopy.
2019. Hu B, Li G, Brown JQ. Biomedical Optics Express 10(8): 3833-3846.
High-performance acellular tissue scaffold combined with hydrogel polymers for regenerative medicine.
2019. Lee E, Kim HJ, Shaker MR, Ryu JR, Ham MS, Seo SH, Kim DH, Lee K, Jung N, Choe Y, Son GH, Ryu IJ, Kim H, Sun W. ACS Biomaterials Science & Engineering 5(7): 3462-3474.
Presynaptic boutons that contain mitochondria are more stable.
2019. Lees RM, Johnson JD, Ashby MC. bioRxiv 580530.
A HaloTag-TEV genetic cassette for mechanical phenotyping of native proteins.
2019. Rivas-Pardo JA, Li Y, Mártonfalvi Z, Tapia-Rojo R, Unger A, Fernández-Trasancos Á, Herrero-Galán E, Velázquez-Carreras D, Linke WA, Fernández JM, Alegre-Cebollada J. bioRxiv 577445.
Development of sample-adaptable holders for lightsheet microscopy.
2019. Laroche T, Burri O, Dubey LK, Seitz A. Frontiers in Neuroanatomy 13:26.
A transgenic inducible GFP extracellular-vesicle reporter (TIGER) mouse illuminates neonatal cortical astrocytes as a source of immunomodulatory extracellular vesicles.
2019. Neckles VN, Morton MC, Holmberg JC, Sokolov AM, Nottoli T, Liu D, Feliciano DM. Scientific Reports 9(1): 3094.
A novel optical tissue clearing protocol for mouse skeletal muscle to visualize endplates in their tissue context.
2019. Williams MPI, Rigon M, Straka T, Hörner SJ, Thiel M, Gretz N, Hafner M, Reischl M, Rudolf R. Frontiers in Cellular Neuroscience 13: 49.
Bioinspired neuron-like electronics.
2019. Yang X, Zhou T, Zwang TJ, Hong G, Zhao Y, Viveros RD, Fu TM, Gao T, Lieber CM. Nature Materials.
A novel population of long-range inhibitory neurons.
2019. Wick ZC, Tetzlaff MR, Krook-Magnuson E. bioRxiv 554360.
Expansion light sheet microscopy resolves subcellular structures in large portions of the songbird brain.
2019. Düring DN, Rocha MD, Dittrich F, Gahr M, Hahnloser RHR. Frontiers in Neuroanatomy 13:2.
Graphene oxide-quenching-based fluorescence in situ hybridization (G-FISH) to detect RNA in tissue: Simple and fast tissue RNA diagnostics.
2018. Hwang DW, Choi YR, Kim D, Park HY, Kim KW, Kim MY, Park CK, Lee DS. Nanomedicine 16, 162-172.
Aberrant accrual of BIN1 near Alzheimer's disease amyloid deposits in transgenic models.
2018. De Rossi P, Andrew RJ, Musial TF, Buggia-Prevot V, Xu G, Ponnusamy M, Ly H, Krause SV, Rice RC, de l'Estoile V, Valin T, Salem S, Despa F, Borchelt DR, Bindokas VP, Nicholson DA, Thinakaran G. Brain Pathology.
2018. Jerome WG, Fuseler J, Padgett CA, Price RL. ). Basic Confocal Microscopy, 73–97.
Combined structural and functional imaging of the kidney reveals major axial differences in proximal tubule endocytosis.
2018. Schuh CD, Polesel M, Platonova E, Haenni D, Gassama A, Tokonami N, Ghazi S, Bugarski M, Devuyst O, Ziegler U, Hall AM. Journal of the American Society of Nephrology, 29(11): 2696-2712.
Optical tissue clearing in combination with perfusion and immunofluorescence for placental vascular imaging.
2018. Carrillo M, Chuecos M, Gandhi K, Bednov A, Moore DL, Maher J, Ventolini G, Ji G, Schlabritz-Loutsevitch N. Medicine (Baltimore) 97(39), e12392.
Optimizing tissue-clearing conditions based on analysis of the critical factors affecting tissue-clearing procedures.
2018. Kim JH, Jang MJ, Choi J, Lee E, Song KD, Cho J, Kim KT, Cha HJ, Sun W. Scientific Reports, 8(1):12815.
The neuroregenerative capacity of olfactory stem cells is not limitless: Implications for aging.
2018. Child KM, Herrick DB, Schwob JE, Holbrook EH, Jang W. Journal of Neuroscience 38(31), 6806-6824.
SETBP1 induces transcription of a network of development genes by acting as an epigenetic hub.
2018. Piazza R, Magistroni V, Redaelli S, Mauri M, Massimino L, Sessa A, Peronaci M, Lalowski M, Soliymani R, Mezzatesta C, Pirola A, Banfi F, Rubio A, Rea D, Stagno F, Usala E, Martino B, Campiotti L, Merli M, Passamonti F, Onida F, Morotti A, Pavesi F, Bregni M, Broccoli V, Baumann M, Gambacorti-Passerini C. Nature Communications 9, 2192.
PrismPlus: a mouse line expressing distinct fluorophores in four different brain cell types.
2018. Gaire J, Lee HC, Ward R, Currlin S, Woolley AJ, Coleman JE, Williams JC, Otto KJ. Scientific Reports 8, 7182.
Subepithelial telocytes are an important source of Wnts that supports intestinal crypts.
2018. Shoshkes-Carmel M, Wang YJ, Wangensteen KJ, Tóth B, Kondo A, Massassa EE, Itzkovitz S, Kaestner KH. Nature 557, 242–246.
Latrophilin 2 specifies cardiac lineage commitment and heart development.
2018. Lee CS, Cho HJ, Lee JW, Lee J, Kwon YW, Park H, Kim J, Kim HS. SSRN Electronic Journal.
Heart clearing opens new insights in the quantification of injured area after ischemia reperfusion.
2018. Paccalet A, Badawi S, Gouriou Y, Bidaux G, Crola Da Silva C. Archives of Cardiovascular Diseases Supplements 10(2), 254.
Cortico–reticulo–spinal circuit reorganization enables functional recovery after severe spinal cord contusion.
2018. Asboth L, Friedli L, Beauparlant J, Martinez-Gonzalez C, Anil S, Rey E, Baud L, Pidpruzhnykova G, Anderson MA, Shkorbatova P,, Batti L, Pagès S, Kreider J, Schneider BL, Barraud Q, Courtine G. Nature Neuroscience 21, 576-588.
3D imaging in the postmortem human brain with CLARITY and CUBIC.
2018. Ando K, Laborde Q, Brion JP, Duyckaerts C. Handbook of Clinical Neurology 150, 303-317.
Vascular niche IL-6 induces alternative macrophage activation in glioblastoma through HIF-2α.
2018. Wang Q, He Z, Huang M, Liu T, Wang Y, Xu H, Duan H, Ma P, Zhang L, Zamvil SS, Hidalgo J, Zhang Z, O'Rourke DM, Dahmane N, Brem S, Mou Y, Gong Y, Fan Y. Nature Communications 9, 559.
Pitch-tunable pillar arrays for high-throughput culture and immunohistological analysis of tumor spheroids.
2018. Lee DW, Kang J, Hwang HJ, Oh MS, Shin BC, Lee MY, Kuh HJ. RSC Advances 8, 4494-4502.
Inverted formin 2 regulates intracellular trafficking, placentation, and pregnancy outcome.
2018. Lamm KYB, Johnson ML, Phillips JB, Muntifering MB, James JM, Jones HN, Redline RW, Rokas A, Muglia LJ. eLife 7: e31150.
Rapid spheroid clearing on a microfluidic chip.
2018. Santisteban TS, Rabajania O, Kalinina I, Robinson S, Meier M. Lab on a Chip 18, 153-161.
Optical clearing for multi‐scale biological tissues.
2018. Yu T, Qi Y, Gong H, Luo Q, Zhu D. Journal of Biophotonics 11(2), e201700187.
Organism-level analysis of vaccination reveals networks of protection across tissues.
2017. Kadoki M, Patil A, Thaiss CC, Brooks DJ, Pandey S, Deep D, Alvarez D, von Andrian UH, Wagers AJ, Nakai K, Mikkelsen TS, Soumillon M, Chevrier N. Cell 171, 398-413.
Effects of neural stem cell media on hypoxic injury in rat hippocampal slice cultures.
2017. Lee NM, Chae SA, Lee HJ. Brain Research 1677, 20-25.
Optogenetic targeting of cardiac myocytes and non-myocytes: Tools, challenges and utility.
2017. Johnston CM, Rog-Zielinska, EA, Wülfers EM, Houwaart T, Siedlecka U, Naumann A, Nitschke R, Knöpfel T, Kohl P, Shrneider-Warme F. Progress in Biophysics & Molecular Biology 130, 140-149.
Interactions between fibroblastic reticular cells and B cells promote mesenteric lymph node lymphangiogenesis.
2017. Dubey LK, Karempudi P, Luther SA, Ludewig B, Harris NL. Nature Communications 8, 367.
Advances and perspectives in tissue clearing using CLARITY.
2017. Jensen KHR, Berg RW, Journal of Chemical Neuroanatomy 86, 19-34.
Light-sheet microscopy for slide-free non-destructive pathology of large clinical specimens.
2017. Glaser AK, Reder NP, Chen Y, McCarty EF, Yin C, Wei L, Wang Y, True LD, Liu JTC. Nature Biomedical Engineering 1, 0084.
ACT-PRESTO: Rapid and consistent tissue clearing and labeling method for 3-dimensional (3D) imaging.
2016. Lee E, Choi J, Jo Y, Kim JY, Jang YJ, Lee HM, Kim SY, Lee HJ, Cho K, Jung N, Hur EM, Jeong SJ, Moon C, Choe Y, Rhyu IJ, Kim H, Sun W. Scientific Reports 6, 618631.
Basic Principles of Clearing and Imaging Biological Tissues2019-01-30
Single-neuron segmentation of 3D confocal images of clarified tissues2018-02-14
DataBrain: Using deep imaging techniques to develop a high-fidelity map of the brain2018-02-14
Multiscale analysis of ischemia-reperfusion syndrome.2018-02-11
Studying molecular mechanisms of ischemia-reperfusion.2017-12-18
The new X-CLARITY™ sample holders2017-01-15
Innovations in Spinal Treatment using Electrophoretic Tissue Clearing2017-01-04
Spinal Treatment Techniques in the Lab2017-01-04
How the CLARITY Method Supports Spinal Cord Research2017-01-04
A journey through the brain2016-10-09
Whole mouse brain cleared2016-02-25
Biocompare explains CLARITY2015-11-15
Mouse brain slice cleared2015-06-29
Mouse brain | X-CLARITY™
Mouse brain | X-CLARITY™
Mouse brain hemisphere | X-CLARITY™
Mouse brain - 2 mm slices | X-CLARITY™Mouse brain - 1,2,3 mm slices | X-CLARITY™Mouse brain slice | X-CLARITY™
Courtesy of Youngshik Choe, PhD | Korea Brain Research InstituteMouse VTA and SNpc | X-CLARITY™
Courtesy of Woong Sun, PhD | Korea University Medical SchoolMouse brain | X-CLARITY™
Courtesy of Woong Sun, PhD | Korea University Medical SchoolMouse brain | X-CLARITY™Mouse brain | X-CLARITY™Mouse brain | X-CLARITY™
Labeled with anti-Collagen IVMouse cerebellum | X-CLARITY™
Labeled with anti-Calbindin
Courtesy of Woong Sun, PhD | Korea University Medical SchoolThy1-YFP transgenic mouse brain | X-CLARITY™Thy1-YFP transgenic mouse brain | X-CLARITY™Zebra finch brain | X-CLARITY™
Courtesy of Makoto Araki, PhD and Yuichi Morohashi, PhD | Okinawa Institute of Science and TechnologyBrain organoids | X-CLARITY™
Courtesy of Min-Joon Han, PhD | St. Jude Children's Research HospitalMouse femur | X-CLARITY™Mouse outer ear | X-CLARITY™Mouse embryo | X-CLARITY™Mouse embryo (E 21.5) | X-CLARITY™
Courtesy of Michal Shoshkes-Carmel, PhD and Andrea Stout, PhD | University of PennsylvaniaMouse heart | X-CLARITY™Mouse left atrial appendage (LAA) | X-CLARITY™Mouse coronary artery | X-CLARITY™Mouse kidney | X-CLARITY™Mouse kidney | X-CLARITY™Mouse kidney | X-CLARITY™Mouse liver | X-CLARITY™Mouse lungs and trachea | X-CLARITY™Mouse embryo lungs | X-CLARITY™Mouse hindlimb muscle | X-CLARITY™Mouse pancreas | X-CLARITY™Mouse salivary gland | X-CLARITY™
Courtesy of Elaine Emmerson, PhD and Bertrand Vernay, PhD | University of EdinburghMouse spinal cord | X-CLARITY™Col1α1-GFP transgenic mouse spinal cord | X-CLARITY™
Courtesy of Jae Lee, PhD | University of MiamiMouse spleen | X-CLARITY™Mouse thymus | X-CLARITY™Human mammary gland tumors | X-CLARITY™
Courtesy of Yun Kyoung Kang, PhD | Baylor College of MedicineArabidopsis thaliana | X-CLARITY™
|C20001||X-CLARITY™ Polymerization System||1 unit|
|C20002||X-CLARITY™ Heat Block for 6 x 50 mL tubes||1 unit|
|C20003||X-CLARITY™ Heat Block for flat-bottom plates||1 unit|
|C1310X||X-CLARITY™ Hydrogel Solution Kit||1 kit|
|C30001||X-CLARITY™ Tissue Clearing System II||1 unit|
|C12010||Holder for 36 Mouse Brain Slices (1.5 Φ)||1 set|
|C12020||Holder for 36 Mouse Brain Slices (0.6 Φ)||1 set|
|C12011||Holder for 6 Slices (1.5 Φ)||1 set|
|C12021||Holder for 6 Slices (0.6 Φ)||1 set|
|C12012||Holder for 1 Sample (1.5 Φ)||1 set|
|C12022||Holder for 1 Sample (0.6 Φ)||1 set|
|C12013||Holder for 6 Mouse Brains (1.5 Φ)||1 set|
|C12023||Holder for 6 Mouse Brains (0.6 Φ)||1 set|
|C12014||Holder for 48 Samples (1.5 Φ)||1 set|
|C12024||Holder for 48 Samples (0.6 Φ)||1 set|
|C12015||Holder for 192 Samples (1.5 Φ)||1 set|
|C12025||Holder for 192 Samples (0.6 Φ)||1 set|
|C12001||Tissue Container (20 units)||1 box|
|C12002||Container Holder for 1 Tissue Container||1 unit|
|C12004||Mouse Brain Slice Holder||1 unit|
|C12007||Whole Rat Brain Holder||1 unit|
|C13001||Electrophoretic Tissue Clearing Solution||12 x 1 L|
|C13101||X-CLARITY™ Mounting Solution||1 x 25 mL|
|C13102||X-CLARITY™ Mounting Solution Value Pack||10 x 25 mL|
|C13107||X-CLARITY™ Mounting Solution Bulk Pack||20 x 25 mL|
|C33001||DeepLabel™ Antibody Staining Kit||1 kit|