97 Matching Annotations
  1. Last 7 days
  2. May 2021
  3. Mar 2021
    1. Antoine R , Valadão Ana Luiza C , Marine T  et al.   PREPRINT: SARS-CoV-2 replication triggers an MDA-5-dependent interferon production which is unable to efficiently control replication. bioRxiv  2020:2020.10.28.358945. doi:10.1101/2020.10.28.358945.

      Rebendenne A, Valadão ALC, Tauziet M, Maarifi G, Bonaventure B, McKellar J, Planès R, Nisole S, Arnaud-Arnould M, Moncorgé O, Goujon C. SARS-CoV-2 triggers an MDA-5-dependent interferon response which is unable to control replication in lung epithelial cells. J Virol. 2021 Jan 29:JVI.02415-20 https://doi.org/10.1128/JVI.02415-20

    2. Bayati A , Kumar R , Francis V  et al.   PREPRINT: SARS-CoV-2 uses clathrin-mediated endocytosis to gain access into cells. bioRxiv  2020:2020.07.13.201509. doi:10.1101/2020.07.13.201509.

      Bayati A, Kumar R, Francis V, McPherson PS. SARS-CoV-2 infects cells following viral entry via clathrin-mediated endocytosis. J Biol Chem. 2021 Jan 18;296:100306 https://doi.org/10.1016/j.jbc.2021.100306

    3. Zhou Q , Wei X-S , Xiang X  et al.   PREPRINT: Interferon-a2b treatment for COVID-19. medRxiv  2020:2020.04.06.20042580. doi:10.1101/2020.04.06.20042580.

      Zhou, Q., Chen, V., Shannon, C. P., Wei, X.-S., Xiang, X., Wang, X., Wang, Z.-H., Tebbutt, S. J., Kollmann, T. R., & Fish, E. N. (2020). Interferon-α2b Treatment for COVID-19. Front Immunol, 11(1061) https://doi.org/10.3389/fimmu.2020.01061

    4. Baker SA , Kowk S , Berry GJ  et al.   PREPRINT: Angiotensin-converting enzyme 2 (ACE2) expression increases with age in patients requiring mechanical ventilation. medRxiv  2020:2020.07.05.20140467. doi:10.1101/2020.07.05.20140467.

      Baker SA, Kwok S, Berry GJ, Montine TJ. Angiotensin-converting enzyme 2 (ACE2) expression increases with age in patients requiring mechanical ventilation. PLoS One. 2021 Feb 16;16(2):e0247060 https://doi.org/10.1371/journal.pone.0247060

    5. Wang K , Chen W , Zhou Y-S  et al.   PREPRINT: SARS-CoV-2 invades host cells via a novel route: CD147-spike protein. bioRxiv  2020:2020.03.14.988345. doi:10.1101/2020.03.14.988345.

      Wang, K., Chen, W., Zhang, Z. et al. CD147-spike protein is a novel route for SARS-CoV-2 infection to host cells. Sig Transduct Target Ther 5, 283 (2020). https://doi.org/10.1038/s41392-020-00426-x

    6. Zhang L , Jackson CB , Mou H  et al.   PREPRINT: The D614G mutation in the SARS-CoV-2 spike protein reduces S1 shedding and increases infectivity. bioRxiv  2020:2020.06.12.148726. doi:10.1101/2020.06.12.148726.

      Zhang, L., Jackson, C.B., Mou, H. et al. SARS-CoV-2 spike-protein D614G mutation increases virion spike density and infectivity. Nat Commun 11, 6013 (2020). https://doi.org/10.1038/s41467-020-19808-4

    7. Lee IT , Nakayama T , Wu C-T  et al.   PREPRINT: Robust ACE2 protein expression localizes to the motile cilia of the respiratory tract epithelia and is not increased by ACE inhibitors or angiotensin receptor blockers. medRxiv  2020:2020.05.08.20092866. doi:10.1101/2020.05.08.20092866.

      Lee, I.T., Nakayama, T., Wu, CT. et al. ACE2 localizes to the respiratory cilia and is not increased by ACE inhibitors or ARBs. Nat Commun 11, 5453 (2020). https://doi.org/10.1038/s41467-020-19145-6

    1. Cerda P , Ribas J , Iriarte A , et al. ; PREPRINT: D-dimer dynamics in hospitalized COVID-19 patients: potential utility for diagnosis of pulmonary embolism. medRxiv  2020:2020.09.21.20193953. doi: 10.1101/2020.09.21.20193953.

      Cerdà P, Ribas J, Iriarte A, Mora-Luján JM, Torres R, Del Río B, Jofre HI, Ruiz Y, Huguet M, Fuset MP, Martínez-Yélamos S, Santos S, Llecha N, Corbella X, Riera-Mestre A. Blood test dynamics in hospitalized COVID-19 patients: Potential utility of D-dimer for pulmonary embolism diagnosis. PLoS One. 2020 Dec 28;15(12):e0243533. https://doi.org/10.1371/journal.pone.0243533

    2. Meizlish ML , Pine AB , Bishai JD  et al.   PREPRINT: a neutrophil activation signature predicts critical illness and mortality in COVID-19. medRxiv  2020. doi:10.1101/2020.09.01.20183897.

      Meizlish ML, Pine AB, Bishai JD, Goshua G, Nadelmann ER, Simonov M, Chang CH, Zhang H, Shallow M, Bahel P, Owusu K, Yamamoto Y, Arora T, Atri DS, Patel A, Gbyli R, Kwan J, Won CH, Dela Cruz C, Price C, Koff J, King BA, Rinder HM, Wilson FP, Hwa J, Halene S, Damsky W, van Dijk D, Lee AI, Chun HJ. A neutrophil activation signature predicts critical illness and mortality in COVID-19. Blood Adv. 2021 Mar 9;5(5):1164-1177. https://doi.org/10.1182/bloodadvances.2020003568

    3. Aschenbrenner AC , Mouktaroudi M , Kraemer B  et al.   PREPRINT: disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients. medRxiv  2020. doi:10.1101/2020.07.07.20148395.

      Aschenbrenner AC, Mouktaroudi M, Krämer B, Oestreich M, Antonakos N, Nuesch-Germano M, Gkizeli K, Bonaguro L, Reusch N, Baßler K, Saridaki M, Knoll R, Pecht T, Kapellos TS, Doulou S, Kröger C, Herbert M, Holsten L, Horne A, Gemünd ID, Rovina N, Agrawal S, Dahm K, van Uelft M, Drews A, Lenkeit L, Bruse N, Gerretsen J, Gierlich J, Becker M, Händler K, Kraut M, Theis H, Mengiste S, De Domenico E, Schulte-Schrepping J, Seep L, Raabe J, Hoffmeister C, ToVinh M, Keitel V, Rieke G, Talevi V, Skowasch D, Aziz NA, Pickkers P, van de Veerdonk FL, Netea MG, Schultze JL, Kox M, Breteler MMB, Nattermann J, Koutsoukou A, Giamarellos-Bourboulis EJ, Ulas T; German COVID-19 Omics Initiative (DeCOI). Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients. Genome Med. 2021 Jan 13;13(1):7. https://doi.org/10.1186/s13073-020-00823-5.

    4. Falck-Jones S , Vangeti S , Yu M  et al.   PREPRINT: functional myeloid-derived suppressor cells expand in blood but not airways of COVID-19 patients and predict disease severity. medRxiv  2020. doi:10.1101/2020.09.08.20190272.

      Falck-Jones S, Vangeti S, Yu M, Falck-Jones R, Cagigi A, Badolati I, Österberg B, Lautenbach MJ, Ahlberg E, Lin A, Lepzien R, Szurgot I, Lenart K, Hellgren F, Maecker HT, Sälde J, Albert J, Johansson N, Bell M, Lore K, Färnert A, Smed-Sörensen A. Functional monocytic myeloid-derived suppressor cells increase in blood but not airways and predict COVID-19 severity. J Clin Invest. 2021 Jan 25:144734. https://doi.org/10.1172/JCI144734

    5. Lombardi A , Trombetta E , Cattaneo A  et al.   PREPRINT: early phases of COVID-19 are characterized by a reduction of lymphocyte populations and the presence of atypical monocytes. medRxiv  2020. doi:10.1101/2020.05.01.20087080.

      Lombardi A, Trombetta E, Cattaneo A, Castelli V, Palomba E, Tirone M, Mangioni D, Lamorte G, Manunta M, Prati D, Ceriotti F, Gualtierotti R, Costantino G, Aliberti S, Scaravilli V, Grasselli G, Gori A, Porretti L and Bandera A (2020) Early Phases of COVID-19 Are Characterized by a Reduction in Lymphocyte Populations and the Presence of Atypical Monocytes . Front. Immunol. 11:560330. https://doi.org/10.3389/fimmu.2020.560330

    6. Vietzen H , Zoufaly A , Traugott M  et al.   PREPRINT: NK cell receptor NKG2C deletion and HLA-E variants are risk factors for severe COVID-19. Res Square  2020. doi:10.21203/rs.3.rs-34505/v1.

      Vietzen H, Zoufaly A, Traugott M, Aberle J, Aberle SW, Puchhammer-Stöckl E. Deletion of the NKG2C receptor encoding KLRC2 gene and HLA-E variants are risk factors for severe COVID-19. Genet Med. 2021 Jan 26:1–5. https://doi.org/10.1038/s41436-020-01077-7

    7. Zhou Q , Wei X-S , Xiang X  et al.   PREPRINT: Interferon-a2b treatment for COVID-19. medRxiv  2020:2020.04.06.20042580.

      Zhou Q, Chen V, Shannon CP, Wei X-S, Xiang X, Wang X, Wang Z-H, Tebbutt SJ, Kollmann TR and Fish EN (2020) Interferon-α2b Treatment for COVID-19. Front. Immunol. 11:1061. https://doi.org/10.3389/fimmu.2020.01061

    8. Simadibrata DM , Calvin J , Wijaya AD  et al.   PREPRINT: neutrophil-to-lymphocyte ratio on admission to predict the severity and mortality of COVID-19 patients: a meta-analysis. medRxiv  2020. doi:10.1101/2020.09.14.20191098.

      Simadibrata DM, Calvin J, Wijaya AD, Ibrahim NAA. Neutrophil-to-lymphocyte ratio on admission to predict the severity and mortality of COVID-19 patients: A meta-analysis. The American Journal of Emergency Medicine. 2021; 42: 60– 69. https://doi.org/10.1016/j.ajem.2021.01.006.

    9. Zhang D , Guo R , Lei L  et al.   PREPRINT: COVID-19 infection induces readily detectable morphological and inflammation-related phenotypic changes in peripheral blood monocytes, the severity of which correlate with patient outcome. medRxiv  2020. doi:10.1101/2020.03.24.20042655.

      Zhang, D, Guo, R, Lei, L, et al. COVID‐19 infection induces readily detectable morphological and inflammation‐related phenotypic changes in peripheral blood monocytes. J Leukoc Biol. 2021; 109: 13– 22. https://doi.org/10.1002/JLB.4HI0720-470R

  4. Feb 2021
  5. Nov 2020
    1. Significance: "Consistent with observations in glioblastoma tumors, RebL1 depletion suppressed DNA repair protein Rad51 in Tetrahymena, thus underscoring the evolutionarily conserved functions of RBBP4/7 proteins. Our results suggest the essentiality of RebL1 functions in multiple epigenetic regulatory complexes in which it impacts transcription regulation and cellular viability."

      Conserved; Collaborative bioRxiv logo

  6. Oct 2020
  7. Sep 2020
  8. Aug 2020
  9. Jul 2020
  10. Jun 2020
  11. May 2020
  12. Apr 2020
    1. Preprints? What? Also sometimes referred to as e-prints, they are digitally shared, non-peer-reviewed scholarly articles that typically precede publication in a peer-reviewed journal [3]. They have been a part of science since at least the 1960s [4].

      Definisi preprint

      Preprint adalah makalah yang belum menjalani peninjauan sejawat yang versi digitalnya dibagikan secara daring. Preprint biasanya dibagikan sebelum dikirimkan ke jurnal.

      Preprint bukan barang baru

      Preprint telah dikenal sejak tahun 1960an (bidang biologi/ilmu hayati). Preprint merupakan salah satu produk turunan dari www yang diciptakan pada tahun 1990 oleh Tim Berners-Lee.

    1. Preprints? What?Alsosometimesreferred to ase-prints, they are digitally-shared,non-peer-reviewed scholarly articles that typically precede publication in a peer-reviewed journal [3]. They have been a part of science since at least the 1960s [4]. In 1990, Tim Berners-Lee created the World Wide Web to help researchers share knowledge easily.

      Definisi preprint

      Preprint adalah makalah yang belum menjalani peninjauan sejawat yang versi digitalnya dibagikan secara daring. Preprint biasanya dibagikan sebelum dikirimkan ke jurnal.

      Preprint bukan barang baru

      Preprint telah dikenal sejak tahun 1960an (bidang biologi/ilmu hayati). Preprint merupakan salah satu produk turunan dari www yang diciptakan pada tahun 1990 oleh Tim Berners-Lee.

  13. Mar 2020
  14. Feb 2020
    1. which they estimate to be $230,000 per year.

      There is some good discussion on HN about the realistic nature of this estimated expense and how it is not likely out-of-line with what it should be and may actually be quite reasonable.

      https://news.ycombinator.com/item?id=22317244

  15. Dec 2019
    1. Please add some tutorial regarding how to setup a preprint server

  16. Sep 2019
    1. Transparent Review in Preprints will allow journals and peer review services to show peer reviews next to the version of the manuscript that was submitted and reviewed.

      A subtle but important point here is that when the manuscript is a preprint then there are two public-facing documents that are being tied together-- the "published" article and the preprint. The review-as-annotation becomes the cross-member in that document association.

  17. Jun 2019
    1. Data for bioRxiv preprints from start to November 2018 (covering metadata and traction on social media)

      Continues to be updated, viewable from rxivist.org and associated Zenodo data records (see link from rxivist)

      Preprint available at https://www.biorxiv.org/content/10.1101/515643v2

  18. Mar 2019
    1. Why did some practices not implement new antibiotic prescribing guidelines on urinary tract infection? A cohort study and survey in NHS England primary care

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/355289

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. Neuronal Origin of the Temporal Dynamics of Spontaneous BOLD Activity Correlation

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/169698

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. Refresh my memory: Episodic memory reinstatements intrude on working memory maintenance

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/170720

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. Working Memory Load Modulates Neuronal Coupling

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/192336

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. A 2.8-Angstrom-Resolution Cryo-Electron Microscopy Structure of Human Parechovirus 3 in Complex with Fab from a Neutralizing Antibody

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/410217

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. A neurodevelopmental disorder caused by mutations in the VPS51 subunit of the GARP and EARP complexes

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/409441

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. Why Are CD8 T Cell Epitopes of Human Influenza A Virus Conserved?

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/408880

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

    1. Hemagglutinin Stalk-Reactive Antibodies Interfere with Influenza Virus Neuraminidase Activity by Steric Hindrance

      An earlier version of this work is available as a preprint on bioRxiv: https://doi.org/10.1101/400036

      Disclosure: I work for ASAPbio, a non-profit organisation working to improve transparency in science, including through the productive use of preprinting in the life sciences.

  19. Jan 2019
    1. Para dosen kerap mengatakan bahwa terbatasnya akses terhadap publikasi yang sudah terbit merupakan salah satu faktor penyebab dari ketiadaan ide baru. Kementerian Ristekdikti telah mencoba mengatasi masalah ini sejak 2015 dengan berlangganan jurnal-jurnal ilmiah internasional.

      Ini memang masalah lain. Banyak yang tidak tahu bahwa jumlah makalah akses terbuka terus meningkat setiap tahun. Bahkan untuk makalah yang berbayar, sudah ada kesadaran yang makin meningkat dari penulis untuk mengunggah pula versi pracetak (atau pra peninjauan) ke media-media repositori yang terbuka. Dari sisi penulis, saya juga menghimbau dengan sangat kesadaran mengenai hak cipta dan hak intelektual lainnya yang mereka miliki. Hak yang harus mereka manfaatkan untuk kepentingan masyarakat, bukan hanya diserahkan seluruhnya kepada penerbit, terutama penerbit komersial.

  20. Feb 2018
    1. Artikel ini sangat menarik karena memberikan solusi kepada masalah sehari-hari. Siapa yang tidak ingin aman saat menggunakan kompor gas. Pasti semua orang bukan.

  21. Jan 2018
    1. a country-level preprint repository

      There are many repositories built by universities across Indonesia. However, the usage is fairly minimum without a good promotion, internally to the academic community as well as externally to the stakeholders. we don't know exactly what's the problem, but strangely, when we introduced INArxiv in mid August 2017, the public responses had been so overwhelming. Had the existing repository been lacked of scholarly communication strategies, or simply less knowledge about managing a repository, but this preprinting movement finds its way inside the mind of many Indonesian scientists.

    1. Twenty-two journals among the 23 journals participating in the survey allowed authors to cite non-English materials in their papers.

      Ini bukti bahwa jurnal LN juga membolehkan penulis menyitat sumber yang tidak berbahasa Inggris. Jadi kalau Anda ingin menggunakan Bahasa Inggris dan sedang menulis makalah untuk dikirim ke jurnal LN, maka tidak ada halangan bagi anda untuk menyitat dokumen yang ditulis oleh rekan-rekan penulis dari DN. INArxiv bisa jadi salah satu media yang tepat untuk kebutuhan itu.

  22. Sep 2017
  23. Jun 2017
    1. protected platform whereby many expert reviewers could read and comment on submissions, as well as on fellow reviewers’ comments

      Conduct prepeer review during the manuscript development on a web platform. That is what is happening in Therapoid.net.

    2. intelligent crowd reviewing

      Crowdsourcing review? Prepeer review as precursor to preprint server.

  24. Aug 2016
    1. Clarity on what qualifies as a respected preprint

      Why should we respect a preprint? I'm not sure that we should respect anonymously peer reviewed journal articles as much as we do. It's important to remain critical, and I worry that trying to put a veneer of 'respectability' over preprints is not as helpful as expecting people to read them to judge content.

  25. Jun 2016
    1. I have chosen not to hide behind the cloak of anonymity, orbypass the rigors of peer review by posting a version of thispaper on my Web site;

      "chosen not to hide behind the cloak of anonymity, or bypass the rigors of peer review by posting a version of this paper to my Web site.

  26. May 2016
    1. the median review time at journals has grown from 85 days to >150 days during the past decade (5)

      This statement is a misunderstanding of Powell 2016, which states:

      At Nature, the median review time has grown from 85 days to just above 150 days over the past decade, according to Himmelstein's analysis.

      However,

      the median review time — the time between submission and acceptance of a paper — has hovered at around 100 days for more than 30 years.

      So while the median review time at Nature has gone from 85 to 150 days, this is not the case for all journals. See also the related Tweet.