2011-06-08.log

--- Log opened Wed Jun 08 00:00:07 2011
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kanzurehttp://blog.makezine.com/archive/2011/06/bre-pettis-on-colbert-report-tomorrow-night-wed.html05:44
kanzuresome people on om are going to ask me to ban paul05:48
kanzurecomments appreciated05:48
kanzure"our recent publication entitled "Combined optical tweezers and laser dissector for controlled ablation of functional connections in neural networks", which appeared in the Journal of Biomedical Optics 16(5): 051306-051309, DOI: 10.1117/1.3560268. .."05:50
kanzure"We present the design and exemplary applications of a versatile setup that allows the simultaneous stimulation and manipulation of a neural network while acquiring its activity by MEA electrophysiology and calcium imaging."05:50
kanzure"By means of plain or functionalized beads, manipulated in 3D by IR optical tweezers (OTs), the activity of individual neurons can be modulated non-invasively and reversibly. Microsurgery on entire cells, neural connections or subcellular organelles can be performed with a UV laser microdissector (LMD)."05:50
kanzure"Cell-substrate interactions and tensile strengths of connections can be quantified by OT force spectroscopy. Morphological changes can be monitored by bright-field and fluorescence microscopy."05:51
kanzureafter all that svn-integration work, adam only comes up with this? http://wiki.bildr.org/index.php/Category:Module06:05
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kanzurelolz ru sirius is doing yet-another crummy blog called acceler8or06:31
kanzuregotta killfile that crap06:36
kanzure"If I've got nothing to hide, then you have no reason to look."06:53
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kanzuregah Tyrant is still pitching his mass spec project around08:36
kanzurehe got the money.. he should have ordered his parts and built one by now08:36
kanzurehey who are my EFF buddies? a few of my friends are probably actively involved but i don't know which ones08:39
kanzureaha, jon lebkowsky. EFF-Austin. close enough08:42
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kanzurei am bored don't judge me09:53
kanzureGoss, S.A., Johnston, R.L., and Dunn, F. (1978). Comprehensive compilation of empirical ultrasonic properties of mammalian tissues. J. Acoust. Soc. Am. 62, 423-45509:53
kanzureVelling, V.A., and Shklyaruk, S.P. (1988). Modulation of the functional state of the brain with the aid of focused ultrasonic action. Neurosci. Behav. Physiol. 18, 369-375.09:54
kanzureWhite, P.J., Clement, G.T., and Hynynen, K. (2006). Local frequency dependence in transcranial ultrasound transmission. Phys. Med. Biol. 51; 2293-2305.09:55
kanzureYoung, R.R., and Henneman, E. (1961). Functional effects of focused ultrasound on mammalian nerves. Science 134, 1521-1522.09:56
kanzureZhang, S., Yin, L., and Fang, N. (2009). Focusing ultrasound with an acoustic metamaterial network. Phys. Rev. Lett. 102, 194301-194304.09:56
kanzureMartin, E., Jeanmonod, D., Morel, A., Zadicario, E., and Werner, B. (2009). High-intensity focused ultrasound for noninvasive functional neurosurgery. Ann. Neuroi. 66, 858-861.09:57
kanzureLudwig, G.D. (1950). The velocity of sound through tissues and the acoustic impedance of tissues. J. Acoust. Soc. Am. 22, 862-866.09:58
kanzureLele, P.P. (1963). Effects of focused ultrasound radiation on peripheral nerve, with observations on local heating. Experimental Neurology 8, 47-83.09:58
kanzureHynynen, K., McDannold, N., Clement, G., Jolesz, F.A., Zadicario, E., Killiany, R., Moore, T., and Rosen, D. (2006). Pre-clinical testing of a phased array ultrasound system for MRI-guided noninvasive surgery of the brain - a primate study. Eur. J. Radiol. 59, 149-156.09:59
kanzureHynynen, K., Clement, G.T., MacDannold, N., Vykhodtseva, N., King, R., White, P.J., Vitek, S., and Jolesz, F.A. (2004). 500-element ultrasound phased array system for noninvasive focal surgery of the brain: a preliminary rabbit study with ex vivo human skulls. Magn. Reson. Med. 52, 100-107.10:02
kanzureHynynen, K., and Clement, G. (2007). Clinical applications of focused ultrasound-the brain. Int. J. Hyperthermia 23, 193-202.10:03
kanzureHayner, M., and Hynynen, K. (2001). Numerical analysis of ultrasonic transmission and absorption of oblique plane waves through the human skull. J. Acoust. Soc. Am. 110, 3319-3330.10:04
kanzureHarvey, E.N. (1929). The effect of high frequency sound waves on heart muscle and other irritable tissues. Am. J. Physiol. 91, 284-290.10:04
kanzureGavrilov, L.R., Gersuni, G.V., Illyinsky, O.B., Sirotyuk, M.G., Tsirulnikov, E.M., and Shchekanov, E.E. (1976). The effect of focused ultrasound on the skin and deep nerve structures of man and animal. Prog. Brain Res. 43, 279-292.10:05
kanzureFry, F.J., Ades, H.W., and Fry, W.J. (1958). Production of reversible changes in the central nervous system by ultrasound. Science 127, 83-84.10:06
kanzureFoster, K.R., and Wiederhold, M.L. (1978). Auditory responses in house cats produced by ceiling-mounted pulsed ultrasound. J. Acoust. Soc. Am. 63, 1199-1205.10:06
kanzureBachtold, M.R., Rinaldi, P.C., Jones, J.P., Reines, F., and Price, L.R. (1998). Focused ultrasound modifications of neural circuit activity in a mammalian brain. Ultrasound Med. Biol. 24, 557-565.10:08
kanzureYusuf Tufail, Alexei Matyushov, Nathan Baldwin, Monica L. Tauchmann, Joseph Georges, Anna Yoshihiro, Stephen I. Helms Tillery, and Willaim J. Tyler. Transcranial pulsed ultrasound stimulates intact brain circuits. Neuron 66, 681-694.10:09
kanzureY. Tufail, W. Tyler; Design and initial implementation for a wearable ultrasonic neurostimulation device and demonstration of direct involuntary motor control. 2009.10:11
kanzure"We have used the isolated retina to characterize the effects of ultrasound on an intact neural circuit. In the isolated salamander retina, we recorded the spiking responses of ganglion cells to ultrasound and light using an array of 60 electrodes. 40 MHz was delivered from a piezoelectric transducer in saline at a working distance of 4mm. Pulse trains lasting 3-30 microseconds continued for one second, and were presented at a frequency of 0.5 Hz.T10:13
kanzure"Ultrasound responses were stable for 300s, contained ON and OFF transients of different types, and showed sustained activity [...] This indicates that ultrasound stimuli activated some cells downstream of photoreceptors."10:14
kanzure"The effects decayed to half maximal over 300 microns, considerably larger than the ultrasound stimulus focal spot. This laterla spread is within the spatial scale of lateral connections, including those from horizontal and amacrine cells. Ultrasound is thus likely stimulating interneurons within the circuit."10:14
kanzure^retina work was M. D. Menz, O. Oralkan, E. Guleyupoglu, P. Khuri-yakub, S. Baccus at stanford10:15
kanzureHynynen K., Jolesz F.A. (1998). Demonstration of potential noninvasive ultrasound brain therapy through an intact skull. Ultrasound Med. Biol. 24, 275-283.10:19
kanzureClement G.T., Hynynen K. (2002). A non-invasive method for focusing ultrasound through the human skull. Phys. Med. Biol. 47, 1219-1236.10:21
kanzureGavrilov L.R., Tsirulnikov E.M., Davies I.A. (1996). Application of focused ultrasound for the stimulation of neural structures. Ultrasound Med. Biol. 22, 179-192.10:22
kanzureTsui P.H, Wang S.H., Huang C.C. (2005). In vitro effects of ultrasound with different energies on the conduction properties of neural tissue. Ultrasonics 43, 560-565.10:23
kanzureRinaldi P.C., Jones J.P., Reines F., Price L.R. (1991). Modification by focused ultrasound pulses of electrically evoked responses from an in vitro hippocampal preparation. Brain Res. 558, 36-42.10:24
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kanzureClement G.T., Sun J., Giesecke T., Hynynen K., A hemisphere array for non-invasive ultrasound brain therapy and surgery. Phys. Med. Biol. 2000;45:3707-3719.10:47
kanzurehttp://clinicaltrials.gov/show/NCT00147056 "MRI-Guided Focused Ultrasound Feasibility Study for Brain Tumors"10:52
kanzurethe device has a wikipedia article? http://en.wikipedia.org/wiki/ExAblate10:53
kanzure"The current FDA approved ExAblate model is the version 2000 (hardware) running software version 4.2. This device is utilized in the US for treating uterine fibroids and around the world for treating uterine fibroids, pain palliation of bone metastases and is being investigated in breast cancer, prostate cancer and neuro programs"10:54
kanzurehttp://insightec.com/10:55
kanzurehttp://www.insightec.com/ExAblate-Neuro.html "Caution - Investigational Device - Limited by United States Law to Investigational Use." oops i guess that means everyone should go home right now10:55
kanzure"Secondly, the skull has a variable thickness and density which results in the ultrasound beam being defocused. CT images are used to reconstruct the skull, and this data is used to configure the ultrasound beams coming from the phased array transducer to be properly focused at the targeted lesion."10:56
kanzureit's business hours.. i should just call them 1-214-630-200010:58
kanzureor we can all go to mexico: http://www.exablate.mx/eng/e_ExAblate_1.html11:01
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kanzureDr. Manuel Martinez Lopez, Dra. Cecilia Romero Trejo, Dra. Yeni Fernandez De Lara11:01
kanzureTel: (52)5666-1765, 5666-1625, 5665-0530, 5666-186911:01
kanzureirmmedicos@medicasur.org.mx , irmadmon@medicasur.org.mx11:01
kanzurewhitepaper: http://www.insightec.com/contentManagment/uploadedFiles/fileGallery/transcranial_mrgfus_white_paper_1.pdf11:03
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kanzurethe whitepaper claims 1mm resolution11:04
kanzure"A feasibility clinical study for elucidating the effectiveness of tcMRgFUS for glioblastoma multiforme patients is currently ongoing, and 4 of the 10 recruited patients have been treated (McDannold et al., 2010)."11:06
kanzure"A feasibility study for treatment of neuropathic pain has been completed at Zurich University & Kinderspital.  The objective of the study was to replace the established minimally invasive procedure of Central Lateral Thalamotomy (RF-ablation) with MR guided focused ultrasound non-invasive procedure. Results so far: 10 patients were treated."11:07
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kanzureabout the neuropathy study: http://www.insightec.com/18360.html11:12
kanzureabout their device:11:32
kanzurehttp://diyhpl.us/~bryan/papers2/neuro/ultrasound/A%20hemisphere%20array%20for%20non-invasive%20ultrasound%20brain%20therapy%20and%20surgery.pdf11:32
kanzurehttp://diyhpl.us/~bryan/papers2/neuro/ultrasound/Investigation%20of%20a%20large-area%20phased%20array%20for%20focused%20ultrasound%20surgery%20through%20the%20skull.pdf11:32
kanzure"Mechanical translation to a new position is performed by physically shifting the skull over a distance of 15mm."11:40
kanzureum, yeah..11:40
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kanzurehuh, i didn't know the infrared nerve stimulation stuff was actually built12:49
kanzurehttp://www.accessdata.fda.gov/scripts/cdrh/cfdocs/cfRes/res.cfm?ID=9631012:49
kanzurecalled 'aculight capella'12:49
kanzurepdf:http://pdf.directindustry.com/pdf/aculight-corporation/capella-infrared-nerve-stimulator/29436-44564.html12:50
kanzure"not for use on humans" heh12:52
kanzure`"I was at a neural interface conference last year where a Parkinson's patient with an electrical deep-brain stimulator stood up in front of the audience," he recalled`12:53
kanzure`"The patient could turn up the stimulator so that it completely stopped their tremors, but at this level they were then unable to speak." This side-effect is a symptom of electrical crosstalk. "The current is hitting the cells that it is supposed to, but it's also hitting those that it shouldn't," explained Bendett.`12:53
kanzurestalk: mark.bendett@aculight.com12:54
mjryay12:55
mjrI saw video of one of those implants in action in some documentary12:55
mjrit was rather eerie the way it tuned the shaking up and down12:55
kanzurethe depth penetration for infrared is abysmal as i recall12:55
mjrin that case the patient could speak also, and no major side effects were mentioned12:56
mjrcool tech, though still primitive12:56
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fennkanzure: matt goodman is staying at langton? it's news to me13:12
kanzureas of today, apparently13:13
kanzurelike he'll be physically showing up?13:13
fennoh, and staying all summer. huh.13:13
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kanzureso yeah, ultrasonic brain melting13:14
fennwhy do you want to ablate neural tissue...13:19
kanzurei don't :p13:19
kanzurethey are using it for neurosurgery (tumors)13:20
kanzurebut clearly if you reduce the W/mm delivered it will just be stimulation13:20
fenni'd rather have something that was physically limited in power output below the damage threshold13:21
fennthere's 10-30x difference in the power required13:21
fennheh we have two matt G's staying at langton Real Soon Now(tm)13:22
kanzureom flamewar starting up soon.. everyone is asking me to put paul on moderation13:23
kanzureso it turns out that on google groups, a moderator can moderate his own messages even if he is ticked as being under moderation13:23
kanzureso i removed him from being moderator, so that i can successfully place him in moderation13:24
kanzureobviously he is not amused by this.13:24
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kanzurefenn: their device is described over here:13:34
kanzurehttp://diyhpl.us/~bryan/papers2/neuro/ultrasound/500-element%20ultrasound%20phased%20array%20system%20for%20noninvasive%20focal%20surgery%20of%20the%20brain%20-%20A%20preliminary%20rabbit%20study%20with%20ex%20vivo%20human%20skulls.pdf13:34
kanzurepage 2.13:34
kanzureapparently ultrasound work used to require skull ports/windows13:35
kanzure"In addition, MRI can detect the location of the focal temperature elevation below the threshold for thermal damage (15), so the beam can be precisely aimed and functionally critical structures can be spared."13:37
uniqanomalykanzure: screw it, better write some code13:39
kanzure?13:39
uniqanomalyjust sayin'13:39
kanzurei've been doing iOS memory management all day :) this is my break man13:39
uniqanomaly;)13:39
fennwhy is paul starting a flame war?13:40
kanzurei guess flamewar is incorrect13:40
fennis he writing a novel again?13:40
fenn(figuratively)13:40
kanzuresome people going back-and-forth with him about how "dude, none of those 4,000 words have anything to do with what i said, please stop"13:41
kanzureand then him replying with 8,000 words13:41
fennthe internet is now a human right, lulz13:41
fennhttp://www.wired.com/threatlevel/2011/06/internet-a-human-right/13:41
kanzurealso he was posting about some free energy stuff that they didn't like13:41
uniqanomalynot in where frog eaters live13:42
uniqanomalyhaha13:42
uniqanomalyfenn, *13:43
kanzurefenn: so i'm looking over this and it seems like their '500-element ultrasound phase array' is really just a giant piezoelectric disk13:43
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kanzure"The piezoelectric material was covered wth electrodes on both surfaces. The black electrode was divided into 500 equal area elements (element area 2.8 cm^2). The piezo-composite material was then formed to a hemispherical shape (diameter 30cm). The front electrode was connected to ground and the back electrodes to individual coxial cables. Mounted in fibgerglass. Front electrode covered by an acoustic matching layer that also acted as an electrica13:45
kanzureoh "This material includes small piezo-ceramic pillars embedded in a polymer matrix (22)."13:46
kanzure22: Chapelon J.Y., Cathignol D., Cain C., Ebbini E., Kluiwstra J.U., Sapozhnikov O.A., Fleury G., Berriet R., Chupin L., Guey J.L. New piezoelectric transducers for therapeutic ultrasound. Ultrasound Med. Biol. 2000;26:153-159.13:47
fennhow does it couple to the skull?13:47
kanzurewater?13:48
kanzureskull attached to polycarbonate frame13:49
kanzurearray attached to an acrylic tank submerged in water13:49
kanzure(skull was touching the water)13:49
kanzureoops "in contact" gotta sound professional13:50
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fennlooking at the figure, the part labeled "skull" doesn't make sense13:51
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fennoh, "using ex-vivo human skulls and an animal model"13:52
fennthat is silly13:52
kanzureieee array driver article: http://diyhpl.us/~bryan/papers2/neuro/ultrasound/Design%20and%20evaluation%20of%20a%20feedback%20based%20phased%20array%20system%20for%20ultrasound%20surgery.pdf13:52
kanzure1.2-1.8 MHz is a bit too high for our interests13:53
fennshould work for lower frequencies with some fudging13:53
kanzureok let's do it strap in13:54
fenni think 1.2 is fine anyway13:54
kanzureyeah that's something that should be experimentally verified first13:54
kanzurefrom what i've seen for non-ablation you should target <1 MHz13:54
fennwhat's the difference?13:55
kanzuremelting brain vs. stimulating neurons13:55
fennno i mean you're targeting a specific locus in either case13:55
fennthe only difference is power, which shouldn't affect the scattering at all13:55
fennhence why you're reading these papers in the first place, right?13:56
kanzureI KNOW NOTHING13:56
fenni'm on to you13:56
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kanzurei was a little disappointed by this paper:13:57
kanzurehttp://diyhpl.us/~bryan/papers2/neuro/ultrasound/Transcranial%20pulsed%20ultrasound%20stimulates%20intact%20brain%20circuits%20-%202010.pdf13:57
kanzurethey did stimulation of some mice in vivo13:57
kanzureum, but apparently they didn't test if they could cause real-time twitching13:58
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kanzurethey just tested a slice of motor cortex instead13:58
kanzurebut did about 50,000+ tests of ultrasound stimulation sessions on mice13:58
kanzureoh wait maybe i misread and they did do it13:59
kanzure"The muscle activity triggered by US stimulation of motor cortex produced EMG responses similar to those acquired during spontaneous muscle twitches (fig. 3A)."13:59
kanzure"When using transducers directly coupled to the skin of mice, bilateral stimulation with transcranial US produced the near-simultaneous activation of several muscle gruops, indicated by tail, forepaw, and whisker movements (Movie S2)."14:00
kanzure"By.. making small 2mm adjjustments to the position of transducers or collimators over motor cortex within a subject, we could differentially evoke the activity of isolated muscle groups (Movie S2)."14:01
kanzure"Despite these intriguing observations, we found it difficult to reliably generate fine maps of mouse motor cortex using US for brain stimulation."14:01
kanzuretail twitches: pulsed US at 0.50 MHz, 100 cycles per pulse, 1.5 kHz, 80 pulses (not sure what PRF means)14:03
kanzure64.53 mW/cm^2 hmm14:03
kanzurehuh wait.. figure 1 does not show an array but rather a simple ultrasound setup.14:04
kanzureer, i mean a collimator14:07
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kanzuredon't keep yer private shit on google sites14:18
kanzurehttp://www.tylerlab.com/system/app/pages/sitemap/hierarchy14:18
kanzurehttp://www.youtube.com/watch?v=RGEP6iWLsvQ14:18
kanzurehttp://www.youtube.com/watch?v=OKrGUA3pAOE14:21
kanzurewhat the fuck? ultrasound-induced seizure http://www.youtube.com/watch?v=yfYp9H7fP0g14:22
kanzureinfluence of shock wave on lipid bilayer http://www.youtube.com/watch?v=0msVw1dewYQ14:23
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fenni love these G-CaMP movies http://bit.ly/lqkTUX14:41
kanzurewhat has anselm said?14:42
fennwhat what?14:44
kanzurehe still lives with you right?14:44
fennyes, we are in different time zones at the moment though14:44
kanzurewell that's useless14:44
fennany specific questions?14:45
fennactually, tristan ursell is the one doing lots of studies of mechanical stress on lipid bound proteins (such as sodium ion channels)14:45
fennthough lately he's gone off on this crusade to solve the protein folding problem14:46
kanzureevery time i see mechanosensativity studies on neurons i think 'so if i punch hard enough i can knock some sense into people?'14:46
fennmillions of tiny punches14:46
kanzurethe way of a million flying minifists14:47
kanzurewhat's bruce lee's thing? the way of the flying fist?14:48
fennthe two inch punch?14:48
fennone inch punch, sorry14:49
kanzureoh man i can't find this now14:50
kanzurei swear there was someone who studies a martial art technique known as "way of the flying fist"14:50
* fenn mumbles something about a martial arts move generator14:50
kanzurehwarang-do.. the way of flowering man hood14:51
kanzureoh. taekwondo "the way of foot and fist"14:52
kanzurei guess that's close enough14:52
kanzureaha14:56
kanzurejeet kwon do14:56
kanzure'way of the intercepting fist'14:56
kanzureso it was bruce lee: http://www.youtube.com/watch?v=2qvYa5t-JUc14:57
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kanzurehttp://en.wikipedia.org/wiki/Jeet_Kune_Do14:58
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kanzurefenn: dunno if i told you about 'Google Street View Fighter'15:11
kanzureelevenarms suggested we make a game and that's what popped into my head..15:12
jebbameh, leaving GJ out of this debate :(  (was in first one, wont be in CNN's, will be in one after that):  http://www.kerrywelsh.com/SadDayJohnsonAdhyper.pdf15:13
kanzurehttp://futurelabcamp.com/2011/biohackturing15:36
kanzurecarrot ecology?15:36
kanzurewell at least they have links15:37
kanzureand a "wiki"15:37
kanzurehttps://docs.google.com/document/d/1Lc9Hf6uQMGy7gfI2BypQE1aX31ggVlTeS5hSunnDnk4/edit?hl=en&authkey=CM2a1agB15:37
kanzure'3D-printed peristaltic pump mechanism' http://peristalsis.tentacleriot.eu/15:38
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kanzure"Every day half of all the bacteria in the oceans are killed by phages."17:19
QuantumGwon't someone please think of the bacteria?17:19
kanzureRight now, a bacteria needs you. Your $0.50/mo donation or more will help feed hundreds of trillions of orphaned cells all around the globe.17:20
kanzurei should do a bacterial adoption agency17:20
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kanzurehah http://arthemis92.deviantart.com/art/BLAME-14622814519:11
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kanzurewelp, thingiverse.com has crashed21:27
kanzureunder the load of colbert21:27
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fennsupposedly someone is making a BLAME live action movie23:02
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--- Log closed Thu Jun 09 00:00:07 2011

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