{"id":12130,"date":"2021-01-13T09:30:00","date_gmt":"2021-01-13T11:30:00","guid":{"rendered":"https:\/\/mindthegraph.com\/blog\/?p=12130"},"modified":"2022-10-18T08:09:26","modified_gmt":"2022-10-18T11:09:26","slug":"pyscratch-spatial-and-temporal-information-from-scratch-assays","status":"publish","type":"post","link":"https:\/\/mindthegraph.com\/blog\/et\/pyscratch-spatial-and-temporal-information-from-scratch-assays\/","title":{"rendered":"PyScratch: Scratch Assays: Uus vahend ruumilise ja ajalise teabe t\u00f6\u00f6tlemiseks"},"content":{"rendered":"

PyScratch on uus avatud l\u00e4htekoodiga tarkvara, mis on rakendatud Pythonis migratsiooniandmete anal\u00fc\u00fcsiks, mille kasutajas\u00f5bralik kasutajaliides v\u00f5imaldab seda kasutada v\u00e4heste v\u00f5i \u00fcldse mitte programmeerimisoskustega teadlastel. <\/p>\n\n\n\n

Tarkvara t\u00f6\u00f6tati v\u00e4lja kolme Brasiilia teadlase koost\u00f6\u00f6s Campinase \u00fclikooli NanoCell Interactions laboris 2017. aastal. <\/p>\n\n\n\n

See s\u00fcndis nende teadlaste vajadusest ning t\u00e4nap\u00e4eval on tarkvara eesm\u00e4rk h\u00f5lbustada teadlaste igap\u00e4evast praktikat, v\u00e4listada k\u00e4sitsi tehtav anal\u00fc\u00fcs, suurendada reprodutseeritavust ja minimeerida inimlikke vigu.<\/p>\n\n\n\n

\"\"<\/a><\/figure><\/div>\n\n\n\n

Pildianal\u00fc\u00fcs on olnud \u00fcks olulisemaid viise, mida teadlased kasutavad tulemuste anal\u00fc\u00fcsimiseks erinevates metoodikates. <\/p>\n\n\n\n

Viimastel aastatel on suurenenud mitte ainult automatiseeritud mikroskoopide kasutamine, vaid ka kogutud andmete keerukus. <\/p>\n\n\n\n

Osa teadlase t\u00f6\u00f6st on avastada, kuidas k\u00e4sitleda uut liiki teavet, lisaks anal\u00fc\u00fcsida ja t\u00f6\u00f6delda andmeid. <\/p>\n\n\n\n

Selleks on teadlastel vaja h\u00e4id ja spetsialiseeritud vahendeid, et k\u00f5iki andmeid \u00f5igesti v\u00e4lja v\u00f5tta ja t\u00f5lgendada.<\/p>\n\n\n\n

PyScratch loodi esmalt selleks, et aidata bioloogioloogi Fernanda Garcia-Fossa'l anal\u00fc\u00fcsida tohutut hulka andmeid tema migratsiooniuuringutest. <\/p>\n\n\n\n

\"Ma tegin v\u00e4hirakkude nullistamist ja inkubeerisin seadmes 48 tundi, tehes iga 15 minuti tagant pilte, ja ainult \u00fche katse l\u00f5puks oli mul umbes tuhat pilti, mida vaadata ja anal\u00fc\u00fcsida! <\/p>\n\n\n\n

K\u00e4sitsi oli seda v\u00f5imatu teha,\" \u00fctleb Garcia-Fossa. Selle probleemi lahendamiseks p\u00f6\u00f6rdus Garcia-Fossa oma partneri, f\u00fc\u00fcsik Vladimir Gaali poole, kes sel ajal \u00f5ppis Pythonit, mis oli suurep\u00e4rane v\u00f5imalus neid teadmisi praktikas rakendada.<\/p>\n\n\n\n

Niisiis, m\u00f5lemad t\u00f6\u00f6tasid lahenduses l\u00e4bi Pythoni rutiini, mis tuvastas kriimustatud alad ja eksportis csv-faili. <\/p>\n\n\n\n

\"Mis aeg, tundsime vajadust arendada kasutajaliides, mis teeb veelgi lihtsam kasutada, sel viisil v\u00f5iksime avaldada tarkvara iga teadlane, et vaja kasutada ka\", \u00fctleb Garcia-Fossa umbes tarkvara artikkel, et saate vaadata seda v\u00e4lja kl\u00f5psates siin<\/a>.<\/p>\n\n\n\n

Garcia-Fossa r\u00e4\u00e4gib ka, et neil v\u00f5ttis aega r\u00e4ndepiirkonna \u00e4ratundmine ja m\u00e4\u00e4ratlemine piltide p\u00f5hjal, sest pildid v\u00f5ivad valguse, fookuse ja kontrasti t\u00f5ttu olla \u00fcksteisest v\u00e4ga erinevad, ja t\u00e4na kasutatav versioon suudab juba p\u00e4ris h\u00e4sti anal\u00fc\u00fcsida. <\/p>\n\n\n\n

Sellegipoolest t\u00f6\u00f6tavad nad endiselt tarkvara kallal, tuues turule uusi ja paremaid versioone, kuna avaldatud artikkel on kasutajate n\u00f5udluse t\u00f5ttu esile toonud m\u00f5ningaid parendusvajadusi.<\/p>\n\n\n\n

Tarkvara j\u00f5udluse valideerimiseks kasutatav katse, migratsioonikatse v\u00f5i kriimustuskatse v\u00f5i haavade paranemise katse, on bioloogias tavaliselt kasutatav katse, sest see v\u00f5imaldab anal\u00fc\u00fcsida f\u00fcsioloogiliste ja patoloogiliste rakus\u00fcndmuste aluseks olevaid mehhanisme. <\/p>\n\n\n\n

Haava paranemise uurimine on oluline viis arengu ja kudede modelleerimise m\u00f5istmiseks, lisaks angiogeneesile ja kasvajate arengule. <\/p>\n\n\n\n

Kui test viiakse l\u00e4bi kahes m\u00f5\u00f5tmes, on v\u00f5imalik m\u00f5\u00f5ta, kui kiiresti rakud reageerivad haavale, mis katab m\u00e4\u00e4ratletud ala.<\/p>\n\n\n\n

Teisis\u00f5nu, eksperiment p\u00f5him\u00f5tteliselt on, luua l\u00f5he monokihi konfluentsuse rakkude plaat. <\/p>\n\n\n\n

Aja jooksul hakkavad rakud t\u00fchimiku t\u00e4itmiseks r\u00e4ndama ja rakkude r\u00e4nde kiirust saab m\u00f5\u00f5ta. <\/p>\n\n\n\n

Seej\u00e4rel peavad nad rakkude migratsioonikiiruse m\u00f5\u00f5tmiseks hankima pilte, hulganisti, mis omakorda on anal\u00fc\u00fcsi problemaatiline etapp, sest see n\u00f5uab k\u00e4sitsi m\u00f5\u00f5tmist. <\/p>\n\n\n\n

\u00d5nneks on t\u00e4nap\u00e4eval meie k\u00e4sutuses palju tehnoloogiat, mis v\u00f5imaldab parandada ja ajakohastada meie anal\u00fc\u00fcsitorustikku, v\u00f5imaldades teadlastel v\u00f5tta kasutusele paremaid ja personaalsemaid viise tulemuste saamiseks. <\/p>\n\n\n\n

Nagu Garcia-Fossa ja Gaal seda tegid.<\/p>\n\n\n\n

T\u00e4nap\u00e4eval on v\u00f5imalik leida muid kaubanduslikke ja mittekaubanduslikke vahendeid haavapinna t\u00f6\u00f6tlemiseks. <\/p>\n\n\n\n

Kuid need ei ole nii lihtsad kui PyScratch ja n\u00f5uavad kasutajalt teatud tasemel programmeerimist ning n\u00f5uavad kasutajalt ka t\u00e4iskohaga t\u00e4helepanu, mis muudab anal\u00fc\u00fcsi inimlikele vigadele vastuv\u00f5tlikumaks, lisaks v\u00f5tab uurija aega k\u00f5igi piltide ja andmete anal\u00fc\u00fcsimiseks.<\/p>\n\n\n\n

Artiklis selgitavad autorid, kuidas tarkvara t\u00f6\u00f6tab. K\u00f5ikidest eksperimendi k\u00e4igus tehtud piltidest saab kasutaja komadega eraldatud v\u00e4\u00e4rtuste (.cvs) faili, v\u00e4ljundit, mis salvestab tabeliandmed lihtsas tekstis. <\/p>\n\n\n\n

Seej\u00e4rel saab kasutaja andmeid t\u00f6\u00f6delda oma tavap\u00e4rase rutiiniga. Garcia-Fossa \u00fctleb, et programm oli tema magistrit\u00f6\u00f6 jaoks h\u00e4davajalik: \"Tarkvara muudab sisendandmed bioloogiliselt m\u00f5istlikuks v\u00e4\u00e4rtuseks, n\u00e4iteks rakkude r\u00e4nde kiiruseks. <\/p>\n\n\n\n

T\u00e4nu PyScratchile suutsin paremini anal\u00fc\u00fcsida oma nanoosakeste m\u00f5ju eesn\u00e4\u00e4rmev\u00e4hirakkudele ja m\u00f5\u00f5ta rakkude migratsioonikiirust ning t\u00e4pset aega hea sulgemise saavutamiseks.\"<\/p>\n\n\n\n

\"\"<\/a><\/figure><\/div>\n\n\n\n

Kui soovite PyScratchi oma uurimist\u00f6\u00f6ks proovida, on tarkvara vabalt k\u00e4ttesaadav ja k\u00f5ik teadusringkonnad v\u00f5ivad seda kasutada, aidates Garcia-Fossal ja Gaalil programmi t\u00e4iustada ja parandada.<\/p>\n\n\n\n

 ____<\/p>\n\n\n\n

Kuidas on teie Mind the Graph kogemus seni kulgenud? Aita meil parandada meie platvormi sinu ja paljude teiste teadlaste jaoks, kui sa saadad Mind the Graph kommentaari. R\u00e4\u00e4kige meile oma kogemusest, lihtsalt kl\u00f5psake siin<\/a>. <\/p>","protected":false},"excerpt":{"rendered":"

PyScratch on uus avatud l\u00e4htekoodiga tarkvara, mis on rakendatud Pythonis migratsiooniandmete anal\u00fc\u00fcsiks, mille kasutajas\u00f5bralik kasutajaliides v\u00f5imaldab seda kasutada v\u00e4heste v\u00f5i \u00fcldse mitte programmeerimisoskustega teadlastel. Tarkvara loodi 2017. aastal Campinase \u00fclikooli NanoCell Interactions labori kolme Brasiilia teadlase koost\u00f6\u00f6s. See oli [...]<\/p>","protected":false},"author":4,"featured_media":12133,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":[],"categories":[959,28],"tags":[817,554,964],"yoast_head":"\nA new tool for processing spatial and temporal information<\/title>\n<meta name=\"description\" content=\"Read this blog to know what PyScratch is and how that new tool processes spatial and temporal information from scratch assays.\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/mindthegraph.com\/blog\/et\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/\" \/>\n<meta property=\"og:locale\" content=\"et_EE\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"A new tool for processing spatial and temporal information\" \/>\n<meta property=\"og:description\" content=\"Read this blog to know what PyScratch is and how that new tool processes spatial and temporal information from scratch assays.\" \/>\n<meta property=\"og:url\" content=\"https:\/\/mindthegraph.com\/blog\/et\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/\" \/>\n<meta property=\"og:site_name\" content=\"Mind the Graph Blog\" \/>\n<meta property=\"article:published_time\" content=\"2021-01-13T11:30:00+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2022-10-18T11:09:26+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/mindthegraph.com\/blog\/wp-content\/uploads\/2021\/01\/pyscratch-a-new-tool-to-process-spatial-and-temporal-information-from-scratch-assays.png\" \/>\n\t<meta property=\"og:image:width\" content=\"1123\" \/>\n\t<meta property=\"og:image:height\" content=\"612\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"author\" content=\"Fabricio Pamplona\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Fabricio Pamplona\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"5 minutes\" \/>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"A new tool for processing spatial and temporal information","description":"Read this blog to know what PyScratch is and how that new tool processes spatial and temporal information from scratch assays.","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"https:\/\/mindthegraph.com\/blog\/et\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/","og_locale":"et_EE","og_type":"article","og_title":"A new tool for processing spatial and temporal information","og_description":"Read this blog to know what PyScratch is and how that new tool processes spatial and temporal information from scratch assays.","og_url":"https:\/\/mindthegraph.com\/blog\/et\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/","og_site_name":"Mind the Graph Blog","article_published_time":"2021-01-13T11:30:00+00:00","article_modified_time":"2022-10-18T11:09:26+00:00","og_image":[{"width":1123,"height":612,"url":"https:\/\/mindthegraph.com\/blog\/wp-content\/uploads\/2021\/01\/pyscratch-a-new-tool-to-process-spatial-and-temporal-information-from-scratch-assays.png","type":"image\/png"}],"author":"Fabricio Pamplona","twitter_card":"summary_large_image","twitter_misc":{"Written by":"Fabricio Pamplona","Est. reading time":"5 minutes"},"schema":{"@context":"https:\/\/schema.org","@graph":[{"@type":"WebPage","@id":"https:\/\/mindthegraph.com\/blog\/it\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/","url":"https:\/\/mindthegraph.com\/blog\/it\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/","name":"A new tool for processing spatial and temporal information","isPartOf":{"@id":"https:\/\/mindthegraph.com\/blog\/#website"},"datePublished":"2021-01-13T11:30:00+00:00","dateModified":"2022-10-18T11:09:26+00:00","author":{"@id":"https:\/\/mindthegraph.com\/blog\/#\/schema\/person\/c8eaee6d8007ac319523c3ddc98cedd3"},"description":"Read this blog to know what PyScratch is and how that new tool processes spatial and temporal information from scratch assays.","breadcrumb":{"@id":"https:\/\/mindthegraph.com\/blog\/it\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/#breadcrumb"},"inLanguage":"et","potentialAction":[{"@type":"ReadAction","target":["https:\/\/mindthegraph.com\/blog\/it\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/"]}]},{"@type":"BreadcrumbList","@id":"https:\/\/mindthegraph.com\/blog\/it\/saggi-pyscratch-spatial-and-temporal-information-from-scratch\/#breadcrumb","itemListElement":[{"@type":"ListItem","position":1,"name":"Home","item":"https:\/\/mindthegraph.com\/blog\/"},{"@type":"ListItem","position":2,"name":"PyScratch: A New Tool to Process Spatial and Temporal Information from Scratch Assays"}]},{"@type":"WebSite","@id":"https:\/\/mindthegraph.com\/blog\/#website","url":"https:\/\/mindthegraph.com\/blog\/","name":"Mind the Graph Blog","description":"Your science can be beautiful!","potentialAction":[{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"https:\/\/mindthegraph.com\/blog\/?s={search_term_string}"},"query-input":"required name=search_term_string"}],"inLanguage":"et"},{"@type":"Person","@id":"https:\/\/mindthegraph.com\/blog\/#\/schema\/person\/c8eaee6d8007ac319523c3ddc98cedd3","name":"Fabricio Pamplona","image":{"@type":"ImageObject","inLanguage":"et","@id":"https:\/\/mindthegraph.com\/blog\/#\/schema\/person\/image\/","url":"https:\/\/secure.gravatar.com\/avatar\/da6985d9f20ecb24f3238df103a638ac?s=96&d=mm&r=g","contentUrl":"https:\/\/secure.gravatar.com\/avatar\/da6985d9f20ecb24f3238df103a638ac?s=96&d=mm&r=g","caption":"Fabricio Pamplona"},"description":"Fabricio Pamplona is the founder of Mind the Graph - a tool used by over 400K users in 60 countries. He has a Ph.D. and solid scientific background in Psychopharmacology and experience as a Guest Researcher at the Max Planck Institute of Psychiatry (Germany) and Researcher in D'Or Institute for Research and Education (IDOR, Brazil). Fabricio holds over 2500 citations in Google Scholar. He has 10 years of experience in small innovative businesses, with relevant experience in product design and innovation management. Connect with him on LinkedIn - Fabricio Pamplona.","sameAs":["http:\/\/mindthegraph.com","https:\/\/www.linkedin.com\/in\/fabriciopamplona"],"url":"https:\/\/mindthegraph.com\/blog\/et\/author\/fabricio\/"}]}},"_links":{"self":[{"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/posts\/12130"}],"collection":[{"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/comments?post=12130"}],"version-history":[{"count":1,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/posts\/12130\/revisions"}],"predecessor-version":[{"id":12134,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/posts\/12130\/revisions\/12134"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/media\/12133"}],"wp:attachment":[{"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/media?parent=12130"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/categories?post=12130"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/mindthegraph.com\/blog\/et\/wp-json\/wp\/v2\/tags?post=12130"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}