diff --git a/code/bibtex.bib b/code/bibtex.bib index a3a5f33b35df1045c2c8bad1d26986d3966903f7..13134bbeeff33c7ea5d06a9322891d0733803b86 100644 --- a/code/bibtex.bib +++ b/code/bibtex.bib @@ -1,79 +1,27 @@ -@article{[1], +@article{ZIMMERMANN2022137, -title = {Prime editing functionally corrects cystic fibrosis-causing CFTR mutations in human organoids and airway epithelial cells}, +title = {Spray drying siRNA-lipid nanoparticles for dry powder pulmonary delivery}, -journal = {Cell Reports Medicine}, +journal = {Journal of Controlled Release}, -volume = {5}, +volume = {351}, -number = {5}, +pages = {137-150}, -pages = {101544}, +year = {2022}, -year = {2024}, +issn = {0168-3659}, -issn = {2666-3791}, +doi = {https://doi.org/10.1016/j.jconrel.2022.09.021}, -doi = {https://doi.org/10.1016/j.xcrm.2024.101544}, +url = {https://www.sciencedirect.com/science/article/pii/S0168365922006137}, -url = {https://www.sciencedirect.com/science/article/pii/S2666379124002349}, +author = {Christoph M. Zimmermann and Domizia Baldassi and Karen Chan and Nathan B.P. Adams and Alina Neumann and Diana Leidy Porras-Gonzalez and Xin Wei and Nikolaus Kneidinger and Mircea Gabriel Stoleriu and Gerald Burgstaller and Dominik Witzigmann and Paola Luciani and Olivia M. Merkel}, -author = {Mattijs Bulcaen and Phéline Kortleven and Ronald B. Liu and Giulia Maule and Elise Dreano and Mairead Kelly and Marjolein M. Ensinck and Sam Thierie and Maxime Smits and Matteo Ciciani and Aurelie Hatton and Benoit Chevalier and Anabela S. Ramalho and Xavier {Casadevall i Solvas} and Zeger Debyser and François Vermeulen and Rik Gijsbers and Isabelle Sermet-Gaudelus and Anna Cereseto and Marianne S. Carlon},} +keywords = {Lipid nanoparticles, LNP, Onpattro®, RNA therapeutics, siRNA delivery, Spray drying, Pulmonary delivery, Respiratory diseases, Human precision-cut lung slices, Formulation screening}, -@article{2, - -author = {Teeratakulpisarn, Jamaree and Kosuwon, Pensri and Srinakarin, Jiraporn and Panthongviriyakul, Charnchai and Sutra, Sumitr}, - -year = {2006}, - -month = {11}, - -pages = {1756-61}, - -title = {Cystic fibrosis in three northeast Thai infants is CF really a rare disease in the Thai population?}, - -volume = {89}, - -journal = {Journal of the Medical Association of Thailand = Chotmaihet thangphaet} +abstract = {While all the siRNA drugs on the market target the liver, the lungs offer a variety of currently undruggable targets which could potentially be treated with RNA therapeutics. Hence, local, pulmonary delivery of RNA nanoparticles could finally enable delivery beyond the liver. The administration of RNA drugs via dry powder inhalers offers many advantages related to physical, chemical and microbial stability of RNA and nanosuspensions. The present study was therefore designed to test the feasibility of engineering spray dried lipid nanoparticle (LNP) powders. Spray drying was performed using 5% lactose solution (m/V), and the targets were set to obtain nanoparticle sizes after redispersion of spray-dried powders around 150 nm, a residual moisture level below 5%, and RNA loss below 15% at maintained RNA bioactivity. The LNPs consisted of an ionizable cationic lipid which is a sulfur-containing analog of DLin-MC3-DMA, a helper lipid, cholesterol, and PEG-DMG encapsulating siRNA. Prior to the spray drying, the latter process was simulated with a novel dual emission fluorescence spectroscopy method to preselect the highest possible drying temperature and excipient solution maintaining LNP integrity and stability. Through characterization of physicochemical and aerodynamic properties of the spray dried powders, administration criteria for delivery to the lower respiratory tract were fulfilled. Spray dried LNPs penetrated the lung mucus layer and maintained bioactivity for >90% protein downregulation with a confirmed safety profile in a lung adenocarcinoma cell line. Additionally, the spray dried LNPs successfully achieved up to 50% gene silencing of the house keeping gene GAPDH in ex vivo human precision-cut lung slices at without increasing cytokine levels. This study verifies the successful spray drying procedure of LNP-siRNA systems maintaining their integrity and mediating strong gene silencing efficiency on mRNA and protein levels both in vitro and ex vivo. The successful spray drying procedure of LNP-siRNA formulations in 5% lactose solution creates a novel siRNA-based therapy option to target respiratory diseases such as lung cancer, asthma, COPD, cystic fibrosis and viral infections.} } -@article{3, - -author = {Ahmed, Shakil and Cheok, Gary and Goh, AnneE and Han, Aye and Hong, SJ and Indawati, Wahyuni and Kabir, AR and Kabra, Sushil and Kamalaporn, Harutai and Kim, HyungYoung and Kunling, Shen and Lochindarat, Sorasak and Moslehi, MohammadAshkan and Nathan, AnnaMarie and Ng, Daniel and Phung, NguyenNg and Singh, V and Takase, Masato and Triasih, Rina and Dai, Zen-Kong}, - -year = {2020}, - -month = {01}, - -pages = {8}, - -title = {Cystic fibrosis in asia}, - -volume = {4}, - -journal = {Pediatric Respirology and Critical Care Medicine}, - -doi = {10.4103/prcm.prcm_5_20} - -} - -@article{4, - -author = {Bobbo, Khadijatabubakar and Ahmad, Umar and Chau, De-Ming and Nordin, Norshariza and Abdullah, Syahril}, - -year = {2023}, - -month = {05}, - -pages = {103685}, - -title = {A comprehensive review of Cystic Fibrosis in Africa and Asia}, - -volume = {30}, - -journal = {Saudi Journal of Biological Sciences}, - -doi = {10.1016/j.sjbs.2023.103685} - -} \ No newline at end of file + \ No newline at end of file diff --git a/code/output.txt b/code/output.txt index 28d6c5e582021be9a837b2768eb2c1f5a6e691ae..831834c99c75c6d1bb43fbd3aa928ae1beec2b8c 100644 --- a/code/output.txt +++ b/code/output.txt @@ -1,97 +1,25 @@ {/*<!-- Citation num 1--> */} <li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-1"> <span property="schema:author" typeof="schema:Person"> - <span property="schema:Name"> Bulcaen, M.</span>; - <span property="schema:Name"> Kortleven, P.</span>; - <span property="schema:Name"> Liu, R.B.</span>; - <span property="schema:Name"> Maule, G.</span>; - <span property="schema:Name"> Dreano, E.</span>; - <span property="schema:Name"> Kelly, M.</span>; - <span property="schema:Name"> Ensinck, M.M.</span>; - <span property="schema:Name"> Thierie, S.</span>; - <span property="schema:Name"> Smits, M.</span>; - <span property="schema:Name"> Ciciani, M.</span>; - <span property="schema:Name"> Hatton, A.</span>; - <span property="schema:Name"> Chevalier, B.</span>; - <span property="schema:Name"> Ramalho, A.S.</span>; - <span property="schema:Name"> Solvas, X.</span>; - <span property="schema:Name"> Debyser, Z.</span>; - <span property="schema:Name"> Vermeulen, F.</span>; - <span property="schema:Name"> Gijsbers, R.</span>; - <span property="schema:Name"> Sermet-Gaudelus, I.</span>; - <span property="schema:Name"> Cereseto, A.</span>; - <span property="schema:Name"> Carlon, M.S.</span> + <span property="schema:Name"> Zimmermann, C.M.</span>; + <span property="schema:Name"> Baldassi, D.</span>; + <span property="schema:Name"> Chan, K.</span>; + <span property="schema:Name"> Adams, N.B.</span>; + <span property="schema:Name"> Neumann, A.</span>; + <span property="schema:Name"> Porras-Gonzalez, D.L.</span>; + <span property="schema:Name"> Wei, X.</span>; + <span property="schema:Name"> Kneidinger, N.</span>; + <span property="schema:Name"> Stoleriu, M.G.</span>; + <span property="schema:Name"> Burgstaller, G.</span>; + <span property="schema:Name"> Witzigmann, D.</span>; + <span property="schema:Name"> Luciani, P.</span>; + <span property="schema:Name"> Merkel, O.M.</span> </span> - <span property="schema:name"> Prime editing functionally corrects cystic fibrosis-causing CFTR mutations in human organoids and airway epithelial cells. </span> - <i property="schema:publisher" typeof="schema:Organization"> Cell Reports Medicine</i> - <b property="issueNumber" typeof="PublicationIssue"> 5</b>, - <span property="schema:pageBegin">101544</span> - (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2024">2024</time>). - <a className="doi" href="https://doi.org/https://doi.org/10.1016/j.xcrm.2024.101544"> doi: https://doi.org/10.1016/j.xcrm.2024.101544</a> -</li> - -{/*<!-- Citation num 2--> */} -<li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-2"> - <span property="schema:author" typeof="schema:Person"> - <span property="schema:Name"> Teeratakulpisarn, J.</span>; - <span property="schema:Name"> Kosuwon, P.</span>; - <span property="schema:Name"> Srinakarin, J.</span>; - <span property="schema:Name"> Panthongviriyakul, C.</span>; - <span property="schema:Name"> Sutra, S.</span> - </span> - <span property="schema:name"> Cystic fibrosis in three northeast Thai infants is CF really a rare disease in the Thai population?. </span> - <i property="schema:publisher" typeof="schema:Organization"> Journal of the Medical Association of Thailand = Chotmaihet thangphaet</i> - <b property="issueNumber" typeof="PublicationIssue"> 89</b>, - <span property="schema:pageBegin"> 1756</span>-<span property="schema:pageEnd">61</span> - (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2006">2006</time>). -</li> - -{/*<!-- Citation num 3--> */} -<li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-3"> - <span property="schema:author" typeof="schema:Person"> - <span property="schema:Name"> Ahmed, S.</span>; - <span property="schema:Name"> Cheok, G.</span>; - <span property="schema:Name"> Goh, A.</span>; - <span property="schema:Name"> Han, A.</span>; - <span property="schema:Name"> Hong, S.</span>; - <span property="schema:Name"> Indawati, W.</span>; - <span property="schema:Name"> Kabir, A.</span>; - <span property="schema:Name"> Kabra, S.</span>; - <span property="schema:Name"> Kamalaporn, H.</span>; - <span property="schema:Name"> Kim, H.</span>; - <span property="schema:Name"> Kunling, S.</span>; - <span property="schema:Name"> Lochindarat, S.</span>; - <span property="schema:Name"> Moslehi, M.</span>; - <span property="schema:Name"> Nathan, A.</span>; - <span property="schema:Name"> Ng, D.</span>; - <span property="schema:Name"> Phung, N.</span>; - <span property="schema:Name"> Singh, V.</span>; - <span property="schema:Name"> Takase, M.</span>; - <span property="schema:Name"> Triasih, R.</span>; - <span property="schema:Name"> Dai, Z.</span> - </span> - <span property="schema:name"> Cystic fibrosis in asia. </span> - <i property="schema:publisher" typeof="schema:Organization"> Pediatric Respirology and Critical Care Medicine</i> - <b property="issueNumber" typeof="PublicationIssue"> 4</b>, - <span property="schema:pageBegin">8</span> - (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2020">2020</time>). - <a className="doi" href="https://doi.org/10.4103/prcm.prcm_5_20"> doi: 10.4103/prcm.prcm_5_20</a> -</li> - -{/*<!-- Citation num 4--> */} -<li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-4"> - <span property="schema:author" typeof="schema:Person"> - <span property="schema:Name"> Bobbo, K.</span>; - <span property="schema:Name"> Ahmad, U.</span>; - <span property="schema:Name"> Chau, D.</span>; - <span property="schema:Name"> Nordin, N.</span>; - <span property="schema:Name"> Abdullah, S.</span> - </span> - <span property="schema:name"> A comprehensive review of Cystic Fibrosis in Africa and Asia. </span> - <i property="schema:publisher" typeof="schema:Organization"> Saudi Journal of Biological Sciences</i> - <b property="issueNumber" typeof="PublicationIssue"> 30</b>, - <span property="schema:pageBegin">103685</span> - (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2023">2023</time>). - <a className="doi" href="https://doi.org/10.1016/j.sjbs.2023.103685"> doi: 10.1016/j.sjbs.2023.103685</a> + <span property="schema:name"> Spray drying siRNA-lipid nanoparticles for dry powder pulmonary delivery. </span> + <i property="schema:publisher" typeof="schema:Organization"> Journal of Controlled Release</i> + <b property="issueNumber" typeof="PublicationIssue"> 351</b>, + <span property="schema:pageBegin"> 137</span>-<span property="schema:pageEnd">150</span> + (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2022">2022</time>). + <a className="doi" href="https://doi.org/https://doi.org/10.1016/j.jconrel.2022.09.021"> doi: https://doi.org/10.1016/j.jconrel.2022.09.021</a> </li> diff --git a/src/data/hptimelinedata.tsx b/src/data/hptimelinedata.tsx index d04e599966f516bf77d851487dd37e5dcb518502..b54d8da1697c5061fafa1a842915fcc1f5f161bc 100644 --- a/src/data/hptimelinedata.tsx +++ b/src/data/hptimelinedata.tsx @@ -597,9 +597,33 @@ export const timelinedata: Array<TimelineDatenpunkt> = [ cardtext: "", language: "en", quote: "We’ve had to sit by and watch people die, knowing that better treatment exists but is inaccessible. ", - aimofcontact: "We contacted the organization CF vests worldwide [Link] with the aim to hear more diverse perspectives beyond Germany. After the founder Rod connected us with Joshua, Joshua was so kind to conduct an interview with us not only about the perspectives and stories he heard but also about his personal experiences with his daughter and living in a country where CF care is very hard to get. Joshua (from the USA) and his family live in Thailand where he and his wife run a children’s home. Their daughter is the only child with CF.", + aimofcontact: [<p>We contacted the organization <a href="https://www.cfvww.org/">CF vests worldwide</a> with the aim to hear more diverse perspectives beyond Germany. + After the founder Rod connected us with Joshua, Joshua was so kind to conduct an interview with us not only about the perspectives and + stories he heard but also about his personal experiences with his daughter and living in a country where CF care is very hard to get. Joshua + (from the USA) and his family live in Thailand where he and his wife run a children’s home. Their daughter is the only child with CF.</p>, + <p>It is possible to learn more about Joshua and his family though the <a href="https://thebonnellfoundation.org/cf-vests-worldwide/"> + podcast of the Bonnel foundation</a>.</p>], insights: "Joshua showed us just how dire the situation is for CF patients is in some regions. It was shocking to hear there is only one doctor knowledgeable about CF in Thailand and that many doctors dismiss the possibility of CF due to racial bias and misinformation. Additionally, we confirmed how much the accessibility of care depends on the healthcare system, as we already touched on during the interview with Nicole Friedlein [link]. On the parenting level, Joshua brought in many perspectives contrary to what we previously heard. In the interview with Max [Link], we learned he vehemently avoids ponding water while Joshua’s daughter is allowed to roam around with no such restrictions. Neither have chronic infections. ", - implementation: "The interview with Josh made us realize we too needed to look at the reason why we chose F508del. Did we, too, fall for bias? Despite a change of target not being feasible anymore, we looked into it and traced back our steps that led to our decision. We did not find as much information about other mutations when first researching cystic fibrosis, especially in the context of prime editing. Mattijs Bulceans's paper on targeting the mutations L227R and N1303K [1] was one of few papers. After explicitly searching for cystic fibrosis records for specific countries and regions, we uncovered a moderate number of papers examining CF in Asia and other regions we previously did not know much about. The very first article supported Joshua's hypotheses and painted a sad picture: Among other things, it describes the case of a four-month-old boy who was diagnosed with cystic fibrosis. Nothing unusual in itself, but the circumstances are depressing. Two of the three siblings born before him died within months of birth and had previously presented with symptoms of cystic fibrosis. He was the first to be diagnosed. A sweat test aimed at cystic fibrosis was not available at the hospital, so one was improvised. Later on, a genetic test revealed the presence of 508del. [2] We found ourselves and our lack of knowledge in good company as we found papers as new as from 2020 (14 years after the previously mentioned paper) containing statements such as “recent reports suggest that CF does occur in Asia†[3]. Fortunately, there is a rising number of cystic fibrosis experts for Asia and other previously overlooked regions such as Africa. [4] We chose to not only look at the scientific data but also into anecdotal evidence. To find the latter, we searched official and private websites and chatrooms for information and experiences of patients. In the end, we found narratives from most ethnic backgrounds about being dismissed and often misdiagnosed. Of course, this is not an occurrence unique to cystic fibrosis. Our conclusion is that yes, we did fall for bias. But regardless of ethnicity, 508del occurs and is overall the most prevalent mutation as was confirmed in our interview with CF expert Sriram .... This experience was uncomfortable as we felt the pressure to be thorough and deliver a perfect project. What would have been more devastating than realizing we made a wrong choice at the very core? We made the conscious decision to invest our resources into figuring out if we indeed made a mistake and we want to encourage other teams to do the same. iGem stands for innovation – but also for growth. Especially in the context of Integrated Human Practices, it is important to examine both the positive and the negative to create a project with a future. ", + implementation: [<p>The interview with Josh made us realize we too needed to look at the reason why we chose F508del. Did we, too, fall for bias? + Despite a change of target not being feasible anymore, we looked into it and traced back our steps that led to our decision. We did not find as much + information about other mutations when first researching cystic fibrosis, especially in the context of prime editing. Mattijs Bulceans's paper on + targeting the mutations L227R and N1303K <TabScrollLink tab="joshua" scrollId="desc-1" num="1" /> was one of few papers. After explicitly searching for cystic fibrosis records for specific countries and + regions, we uncovered a moderate number of papers examining CF in Asia and other regions we previously did not know much about. The very first article + supported Joshua's hypotheses and painted a sad picture: Among other things, it describes the case of a four-month-old boy who was diagnosed with cystic + fibrosis. Nothing unusual in itself, but the circumstances are depressing. Two of the three siblings born before him died within months of birth and had + previously presented with symptoms of cystic fibrosis. He was the first to be diagnosed. A sweat test aimed at cystic fibrosis was not available at the + hospital, so one was improvised. Later on, a genetic test revealed the presence of 508del. <TabScrollLink tab="joshua" scrollId="desc-2" num="2" /> We found ourselves and our lack of knowledge in good + company as we found papers as new as from 2020 (14 years after the previously mentioned paper) containing statements such as “recent reports suggest + that CF does occur in Asia†<TabScrollLink tab="joshua" scrollId="desc-3" num="3" />. Fortunately, there is a rising number of cystic fibrosis experts for Asia and other previously overlooked regions + such as Africa. <TabScrollLink tab="joshua" scrollId="desc-4" num="4" /> We chose to not only look at the scientific data but also into anecdotal evidence. To find the latter, we searched official + and private websites and chatrooms for information and experiences of patients. In the end, we found narratives from most ethnic backgrounds + about being dismissed and often misdiagnosed. Of course, this is not an occurrence unique to cystic fibrosis. Our conclusion is that yes, + we did fall for bias. But regardless of ethnicity, 508del occurs and is overall the most prevalent mutation as was confirmed in our interview + with CF expert Sriram .... This experience was uncomfortable as we felt the pressure to be thorough and deliver a perfect project. What would + have been more devastating than realizing we made a wrong choice at the very core? We made the conscious decision to invest our resources into + figuring out if we indeed made a mistake and we want to encourage other teams to do the same. iGem stands for innovation – but also for growth. + Especially in the context of Integrated Human Practices, it is important to examine both the positive and the negative to create a project with a + future. </p>], pictureurl_interview: "", references: [<ol>{/*<!-- Citation num 1--> */} <li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-1"> @@ -923,9 +947,9 @@ export const timelinedata: Array<TimelineDatenpunkt> = [ this suggests a promising shelf-life for mRNA formulations under similar conditions. The spray drying process itself involves mixing an ethanol phase containing lipids with an aqueous phase containing RNA. This mixture is then spray-dried, forming LNPs as tiny spherical particles. Key parameters for this process include maintaining an internal drying temperature of around 100 °C and using excipients like lactose to - preserve the nanoparticles' structure and function​ [1]. </p>, + preserve the nanoparticles' structure and function​ <TabScrollLink tab="rnhale" scrollId="desc-1" num="1" />. </p>, <p>Ensuring the integrity and efficiency of the LNPs involves various methods, including gel electrophoresis, blotting, and functional readouts through transfection assays. - After drying, the nanoparticles retain their spherical structure, which resembles that of "golf balls" under scanning electron microscopy (SEM)[1]. + After drying, the nanoparticles retain their spherical structure, which resembles that of "golf balls" under scanning electron microscopy (SEM)<TabScrollLink tab="rnhale" scrollId="desc-1" num="1" />. Moreover, RNhale employs artificial intelligence to optimize LNP formulations and predict the best drying conditions, reducing the need for extensive wet lab work. This AI-driven approach enhances efficiency and reliability in developing therapeutic nanoparticles. </p>], implementation: [ @@ -936,7 +960,32 @@ export const timelinedata: Array<TimelineDatenpunkt> = [ pictureurl_aim: "https://static.igem.wiki/teams/5247/photos/hp/hp-rnhale-zoom.png", pictureurl_interview: "https://static.igem.wiki/teams/5247/photos/for-wiki-texts/del-interview-rnhale/paper-overview.jpg", pictureurl_implementation: "https://static.igem.wiki/teams/5247/photos/for-wiki-texts/del-interview-rnhale/paper-sem.jpg", - references: [<div>noch einfügen</div>] + references: [<ol>{/*<!-- Citation num 1--> */} + <li typeof="schema:ScolarlyArticle" role="doc-biblioentry" property="schema:citation" id="desc-1"> + <span property="schema:author" typeof="schema:Person"> + <span property="schema:Name"> Zimmermann, C.M.</span>; + <span property="schema:Name"> Baldassi, D.</span>; + <span property="schema:Name"> Chan, K.</span>; + <span property="schema:Name"> Adams, N.B.</span>; + <span property="schema:Name"> Neumann, A.</span>; + <span property="schema:Name"> Porras-Gonzalez, D.L.</span>; + <span property="schema:Name"> Wei, X.</span>; + <span property="schema:Name"> Kneidinger, N.</span>; + <span property="schema:Name"> Stoleriu, M.G.</span>; + <span property="schema:Name"> Burgstaller, G.</span>; + <span property="schema:Name"> Witzigmann, D.</span>; + <span property="schema:Name"> Luciani, P.</span>; + <span property="schema:Name"> Merkel, O.M.</span> + </span> + <span property="schema:name"> Spray drying siRNA-lipid nanoparticles for dry powder pulmonary delivery. </span> + <i property="schema:publisher" typeof="schema:Organization"> Journal of Controlled Release</i> + <b property="issueNumber" typeof="PublicationIssue"> 351</b>, + <span property="schema:pageBegin"> 137</span>-<span property="schema:pageEnd">150</span> + (<time property="schema:datePublished" datatype="xsd:gYear" dateTime=" 2022">2022</time>). + <a className="doi" href="https://doi.org/https://doi.org/10.1016/j.jconrel.2022.09.021"> doi: https://doi.org/10.1016/j.jconrel.2022.09.021</a> + </li> + + </ol>] }, { title: "XXX",