Research output per year
Research output per year
Research output
- 1 - 50 out of 58 results
Search results
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2025
Enhancing the Prediction of Lymph Node Metastasis in Early Breast Cancer Using Deep Learning on Routine Full-Breast Mammograms
Zhang, D., Dihge, L., Bendahl, P.-O., Arvidsson, I., Dustler, M., Ellbrant, J., Gulis, K., Hjärtström, M., Ohlsson, M., Rejmer, C., Schmidt, D., Zackrisson, S., Edén, P. & Ryden, L., 2025 Jan 6, (Submitted) Research Square, (Breast Cancer Research).Research output: Working paper/Preprint › Preprint (in preprint archive)
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2024
Multiplex genome editing eliminates the Warburg Effect without impacting growth rate in mammalian cells
Hefzi, H., Martínez-Monge, I., Marin de Mas, I., Cowie, N. L., Toledo, A. G., Noh, S. M., Karottki, K. J. L. C., Decker, M., Arnsdorf, J., Camacho-Zaragoza, J. M., Kol, S., Schoffelen, S., Pristovšek, N., Hansen, A. H., Miguez, A. A., Bjorn, S. P., Brøndum, K. K., Javidi, E. M., Jensen, K. L. & Stangl, L. & 15 others, , 2024 Aug 6, bioRxiv, (bioRxiv : the preprint server for biology).Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
An annotated high-content fluorescence microscopy dataset with 2 EGFP-Galectin-3-stained cells and manually labelled outlines
Kazemi Rashed, S., Arvidsson, M., Ahmed, R. & Aits, S., 2024 Jun 24, Zenodo.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Medial temporal lobe atrophy patterns in early- versus late-onset amnestic Alzheimer's disease
Wuestefeld, A., Binette, A. P., van Westen, D., Strandberg, O., Stomrud, E., Mattsson-Carlgren, N., Janelidze, S., Smith, R., Palmqvist, S., Baumeister, H., Berron, D., Yushkevich, P. A., Hansson, O., Spotorno, N. & Wisse, L. E., 2024 May 21, 32 p. (bioRxiv : the preprint server for biology).Research output: Working paper/Preprint › Preprint (in preprint archive)
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The Cell Death Census 2024
Miari, M., Regnell, E. & Aits, S., 2024 Apr 8, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Altered empathy processing in frontotemporal dementia: A task-based fMRI study
Lindberg, O., Li, T.-Q., Lind, C., Vestberg, S., Almkvist, O., Stiernstedt, M., Ericson, A., Bogdanovic, N., Hansson, O., Harper, L., Westman, E., Graff, C., Tsevis, T., Mannfolk, P., Fischer, H., Nilsonne, G., Petrovic, P., Nyberg, L., Wahlund, L.-O. & Santillo, A. F. & 1 others, , 2024 Mar 26, bioRxiv, 58 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Bactogram: Spatial Analysis of Bacterial Colonization in Epidermal Wounds
Wallblom, K., Forsberg, F., Lundgren, S., Fisher, J., Cardoso, J., Petruk, G., Strömdahl, A.-C., Saleh, K., Puthia, M. & Schmidtchen, A., 2024 Jan 1, medRxiv, 33 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Population scale proteomics enables adaptive digital twin modelling in sepsis
Scott, A. M., Mellhammar, L., Malmström, E., Gustafsson, A. G., Bakochi, A., Isaksson, M., Mohanty, T., Thelaus, L., Kahn, F., Malmström, L., Malmström, J. & Linder, A., 2024 Jan 1, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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2023
Analysis of bacteria, inflammation, and exudation in epidermal suction blister wounds reveals dynamic changes during wound healing
Lundgren, S., Petruk, G., Wallblom, K., Cardoso, J. F., Strömdahl, A.-C., Forsberg, F., Luo, C., Nilson, B., Hartman, E., Fisher, J., Puthia, M., Saleh, K. & Schmidtchen, A., 2023 Dec 9, medRxiv, 32 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Acoustic enrichment of heterogenous circulating tumor cells and clusters from patients with metastatic prostate cancer
Magnusson, C., Augustsson, P., Undvall Anand, E., Lenshof, A., Josefsson, A., Welén, K., Bjartell, A., Ceder, Y., Lilja, H. & Laurell, T., 2023 Dec 4, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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The Influence of Narrative Specificity and Voice Quality when Listening to Audio Descriptions: a Comparison of the Sighted and the Blind
Lyberg Åhlander, V., Holsanova, J. & Johansson, R., 2023 Nov 5, PsyArXiv, 37 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Genome-wide association study of prostate-specific antigen levels in 392,522 men identifies new loci and improves cross-ancestry prediction
Hoffmann, T. J., Graff, R. E., Madduri, R. K., Rodriguez, A. A., Cario, C. L., Feng, K., Jiang, Y., Wang, A., Klein, R. J., Pierce, B. L., Eggener, S., Tong, L., Blot, W., Long, J., Rebbeck, T., Lachance, J., Andrews, C., Adebiyi, A. O., Adusei, B. & Aisuodionoe-Shadrach, O. I. & 25 others, , 2023 Oct 30, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Event boundary perception among the visually impaired in audio described films
Johansson, R., Rastegar, T., Lyberg Åhlander, V. & Holsanova, J., 2023 Oct 24, (E-pub ahead of print) PsyArXiv, 33 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
File95 Downloads (Pure) -
Variants in the DDX6-CXCR5 autoimmune disease risk locus influence the regulatory network in immune cells and salivary gland
Wiley, M. M., Khatri, B., Joachims, M. L., Tessneer, K. L., Stolarczyk, A. M., Rasmussen, A., Anaya, J.-M., Aqrawi, L. A., Bae, S.-C., Baecklund, E., Björk, A., Brun, J. G., Bucher, S. M., Dand, N., Eloranta, M.-L., Engelke, F., Forsblad-d'Elia, H., Fugmann, C., Glenn, S. B. & Gong, C. & 31 others, , 2023 Oct 6, bioRxiv, p. 1-48, (bioRxiv : the preprint server for biology).Research output: Working paper/Preprint › Preprint (in preprint archive)
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Protective non-neutralizing mAbs Ab94 and Ab81 retain high-affinity and potent Fc-mediated function against SARS-CoV-2 variants from Omicron to XBB1.5
Izadi, A., Godzwon, M., Ohlin, M. & Nordenfelt, P., 2023 Sept 29, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Structural basis of Cfr-mediated antimicrobial resistance and mechanisms for its evasion
Aleksandrova, E. V., Wu, K. J. Y., Tresco, B. I. C., Syroegin, E. A., Killeavy, E. E., Balasanyants, S. M., Svetlov, M. S., Gregory, S. T., Atkinson, G. C., Myers, A. G. & Polikanov, Y. S., 2023 Sept 28, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Comparison of histological delineations of medial temporal lobe cortices by four independent neuroanatomy laboratories
Wuestefeld, A., Baumeister, H., Adams, J. N., de Flores, R., Hodgetts, C., Mazloum-Farzaghi, N., Olsen, R. K., Puliyadi, V., Tran, T. T., Bakker, A., Canada, K. L., Dalton, M. A., Daugherty, A. M., Joie, R. L., Wang, L., Bedard, M., Buendia, E., Denning, A., Irwin, D. J. & Ittyerah, R. & 15 others, , 2023 May 24, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Deep learning for rapid and reproducible histology scoring of lung injury in a porcine model
Augusto Silva, I., Kazemi Rashed, S., Hedlund, L., Lidfeldt, A., Gvazava, N., Stegmayr, J., Skoryk, V., Aits, S. & Wagner, D., 2023 May 14, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
EasyNER: A Customizable Easy-to-Use Pipeline for Deep Learning- and Dictionary-based Named Entity Recognition from Medical Text
Ahmed, R., Berntsson, P., Skafte, A., Kazemi Rashed, S., Klang, M., Barvesten, A., Olde, O., Lindholm, W., Lamarca Arrizabalaga, A., Nugues, P. & Aits, S., 2023 Apr 16, arXiv.org.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Cortical changes during the learning of sequences of simultaneous finger presses
Garzon, B., Helms, G., Olsson, H., Brozzoli, C., Ullén, F., Diedrichsen, J. & Lövdén, M., 2023 Mar 13, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Mutant huntingtin expression in the hypothalamus promotes ventral striatal neuropathology
Soylu Kucharz, R., Adlesic, N., Davidsson, M., Björklund, T., Björkqvist, M. & Petersén, Å., 2023 Mar 4, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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OpenChart-SE: A corpus of artificial Swedish electronic health records for imagined emergency care patients written by physicians in a crowd-sourcing project
Berg, J., Aasa, C., Appelgren Thorell, B. & Aits, S., 2023 Jan 5, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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IRF1 regulates self-renewal and stress-responsiveness to support hematopoietic stem cell maintenance
Nilsson, A. R., Xian, H., Shalapour, S., Cammenga, J. & Karin, M., 2023 Jan 1, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Precision Prognostics for Cardiovascular Disease in Type 2 Diabetes: A Systematic Review and Meta-analysis
Ahmad, A., Lim, L.-L., Morieri, M. L., Tam, C.H.-T., Cheng, F., Chikowore, T., Dudenhöffer-Pfeifer, M., Fitipaldi, H., Huang, C., Kanbour, S., Sarkar, S., Koivula, R. W., Motala, A. A., Tye, S. C., Yu, G., Zhang, Y., Provenzano, M., Sherifali, D., de Souza, R. & Tobias, D. K. & 3 others, , 2023, medRxiv, p. 1-73.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Transcriptome-Wide Association Analysis Identifies Novel Candidate Susceptibility Genes for Prostate-Specific Antigen Levels in Men Without Prostate Cancer
Chen, D. M., Dong, R., Kachuri, L., Hoffmann, T., Jiang, Y., Berndt, S. I., Shelley, J. P., Schaffer, K. R., Machiela, M. J., Freedman, N. D., Huang, W.-Y., Li, S. A., Lilja, H., Van Den Eeden, S. K., Chanock, S., Haiman, C. A., Conti, D. V., Klein, R. J., Mosley, J. D. & Witte, J. S. & 1 others, , 2023, medRxiv, p. 1-36.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
2022
Single-cell analysis of myeloid cells in HPV+ tonsillar cancer
Gomez Jimenez, D., Altunbulakli, C., Swoboda, S., Sobti, A., Askmyr, D., Ali, A., Greiff, L. & Lindstedt, M., 2022 Oct 7, (BioRxiv).Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Data-driven microscopy allows for automated targeted acquisition of relevant data with higher fidelity
André, O., Kumra Ahnlide, J., Norlin, N., Swaminathan, V. & Nordenfelt, P., 2022 Jun 10, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Molecular and Serologic Diagnostic Technologies for SARS-CoV-2
Rando, H. M., Brueffer, C., Lordan, R., Dattoli, A. A., Manheim, D., Meyer, J. G., Mundo, A. I., Perrin, D., Mai, D., Wellhausen, N., COVID-19 Review Consortium, Gitter, A. & Greene, C. S., 2022 Apr 26, arXiv.org, (arXiv.org).Research output: Working paper/Preprint › Preprint (in preprint archive)
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COVID-19 vaccine effectiveness against severe disease from the Omicron BA.1 and BA.2 subvariants: surveillance results from southern Sweden, December 2021 to March 2022
Bjork, J., Bonander, C., Moghaddassi, M., Rasmussen, M., Malmqvist, U., Inghammar, M. & Kahn, F., 2022 Apr 14, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Microarray profiling of hypothalamic gene expression changes in Huntington’s disease mouse models
Dickson, E., Sai Dwijesha, A., Andersson, N., Hult Lundh, S., Björkqvist, M., Petersén, Å. & Soylu Kucharz, R., 2022 Mar 17, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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The structure of insulin granule core determines secretory capacity being reduced in type-2 diabetes
Barghouth, M., Jiang, X., Nagao, M., Chen, N., Yang, D., Ye, Y., Luan, C., Gomez, M. F., Blom, A. M., Wollheim, C. B., Eliasson, L., Renström, E. & Zhang, E., 2022 Feb 23, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Aβ/APP-induced hyperexcitability and dysregulation of homeostatic synaptic plasticity in models of Alzheimer’s disease
Martinsson, I., Quintino, L., Garcia, M., Konings, S., Torres-Garcia, L., Svanbergsson, A., Stange, O., England, R., Deierborg, T., Li, J.-Y., Lundberg, C. & Gouras, G., 2022 Jan 25, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Skeletal muscle regeneration is altered in the R6/2 mouse model of Huntington’s disease
Hoque, S., Sjögren, M., Allamand, V., Gawlik, K., Franke, N., Durbeej, M., Björkqvist, M. & Soylu Kucharz, R., 2022, bioRxiv, p. 1-23.Research output: Working paper/Preprint › Preprint (in preprint archive)
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2021
Mapping genetic determinants of 184 circulating proteins in 26,494 individuals to connect proteins and diseases
Macdonald-Dunlop, E., Klaric, L., Folkersen, L., Timmers, P. R. H. J., Gustafsson, S., Hua Zhao, J., Eriksson, N., Richmond, A., Enroth, S., Mattsson-Carlgren, N., Zhernakova, D. V., Magnusson, M., Smith, J. G. & Hansson, O., 2021 Aug 5, medRxiv, 27 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Genetic variation at RAB3GAP2 and its role in exercise-related adaptation and recovery
Ström, K., Oskolkov, N., Karaderi, T., Kalamajski, S., Ekström, O., Miyamoto-Mikami, E., Ladenvall, C., Kakulidis, E., Reid, S., Dutius Andersson, A.-M., Kryvokhyzha, D., Zhang, E., Fadista, J., Iemitsu, M., Mahajan, A., Ahlqvist, E., Prasad, R., Pruefer, K., Sabater-Lleal, M. & Smith, N. L. & 20 others, , 2021 Jul 16, Research Square, p. 1-16.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Correction of FLASH-based MT saturation in human brain for residual bias of B1-inhomogeneity at 3T
Helms, G., Weiskopf, N. & Lutti, A., 2021 May 3, arXiv.org, 15 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Bias field correction of MPRAGE by an external reference - The poor man's MP2RAGE
Olsson, H., Andersen, M. & Helms, G., 2021 Apr 30, arXiv.org, 23 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
File38 Downloads (Pure) -
Effectiveness of the BNT162b2 vaccine in preventing COVID-19 in the working age population – first results from a cohort study in Southern Sweden
Björk, J., Inghammar, M., Moghaddassi, M., Rasmussen, M., Malmqvist, U. & Kahn, F., 2021 Apr 21, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Mendelian randomisation identifies alternative splicing of the FAS death receptor as a mediator of severe COVID-19
Klaric, L., Gisby, J. S., Papadaki, A., Muckian, M. D., Macdonald-Dunlop, E., Zhao, J. H., Tokolyi, A., Persyn, E., Pairo-Castineira, E., Morris, A. P., Kalnapenkis, A., Richmond, A., Landini, A., Hedman, Å. K., Prins, B., Zanetti, D., Wheeler, E., Kooperberg, C., Yao, C. & Petrie, J. R. & 48 others, , 2021 Apr 7, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Genome-wide association study on 13,167 individuals identifies regulators of hematopoietic stem and progenitor cell levels in human blood
Lopez de Lapuente Portilla, A., Ekdahl, L., Cafaro, C., Ali, Z., Miharada, N., Thorleifsson, G., Zemaitis, K., Lamarca Arrizabalaga, A., Thodberg, M., Pertesi, M., Dhapola, P., Bao, E. L., Niroula, A., Bali, D., Norddahl, G. L., Ugidos Damboriena, N., Sankaran, V. G., Karlsson, G., Thorsteinsdottir, U. & Larsson, J. & 2 others, , 2021 Apr 3, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Identification and Development of Therapeutics for COVID-19
Brueffer, C. & COVID-19 Review Consortium, 2021 Mar 3, (arXiv.org).Research output: Working paper/Preprint › Preprint (in preprint archive)
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Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through analysis of Viral Genomics and Structure
Rando, H. M., MacLean, A. L., Lee, A. J., Ray, S., Bansal, V., Skelly, A. N., Sell, E., Dziak, J. J., Shinholster, L., McGowan, L. D., Guebila, M. B., Wellhausen, N., Knyazev, S., Boca, S. M., Capone, S., Qi, Y., Park, Y., Sun, Y., Mai, D. & Brueffer, C. & 12 others, , 2021 Feb 1, arXiv.org.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Aspirin and NSAID use and the risk of COVID-19
Drew, D. A., Guo, C.-G., Lee, K. A., Nguyen, L. H., Joshi, A. D., Lo, C.-H., Ma, W., Mehta, R. S., Kwon, S., Astley, C. M., Song, M., Davies, R., Capdevila, J., Lochlainn, M. N., Sudre, C. H., Graham, M. S., Varsavsky, T., Gomez, M. F., Kennedy, B. & Fitipaldi, H. & 5 others, , 2021 Jan 1, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
Open Access -
Environment-wide association study (EWAS) on cardiometabolic traits: A systematic assessment of the association of lifestyle variables on a longitudinal setting
Poveda, A., Chen, Y., Pomares-Millan, H., Kurbasic, A., Patel, C. J., Renström, F., Hallmans, G., Johansson, I. & Franks, P. W., 2021, medRxiv, p. 1-4.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Inferring causal pathways between metabolic processes and liver fat accumulation: an IMI DIRECT study
Atabaki-Pasdar, N., Pomares-Millan, H., Koivula, R. W., Tura, A., Brown, A., Viñuela, A., Agudelo, L., Coral, D., van Oort, S., Allin, K., Chabanova, E., Cederberg, H., De Masi, F., Elders, P., Tajes, J. F., Forgie, I. M., Hansen, T. H., Heggie, A., Jones, A. & Kokkola, T. & 30 others, , 2021, medRxiv, (medRxiv).Research output: Working paper/Preprint › Preprint (in preprint archive)
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Metabolic resilience is encoded in genome plasticity
Agudelo, L. Z., Tuyeres, R., Llinares, C., Morcuende, A., Park, Y., Sun, N., Linna-Kuosmanen, S., Atabaki-Pasdar, N., Ho, L.-L., Galani, K., Franks, P. W., Kutlu, B., Grove, K., Femenia, T. & Kellis, M., 2021, 26 p.Research output: Working paper/Preprint › Preprint (in preprint archive)
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Predicting sensitivity and resilience to modifiable risk factors for cardiometabolic morbidity and mortality
Pomares-Millan, H., Atabaki Pasdar, N., Johansson, I., Poveda, A. & Franks, P. W., 2021, medRxiv, p. 1-28.Research output: Working paper/Preprint › Preprint (in preprint archive)
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The Maternal Group B Streptococcus Alpha-Like Protein Subunit Vaccine GBS-NN Targets Homotypic and Heterotypic Strains, Confers Opsonophagocytic Killing and Prevents in vitro Invasion of Human Epithelial Cells
Pawlowski, A., Lannergård, J., Gonzalez-miro, M., Cao, D., Larsson, S., Persson, J. J., Kitsson, G., Darsley, M., Rom, A. L., Hedegaard, M., Fischer, P. & Johansson Lindbom, B., 2021, (Submitted) SSRN Sneak Peek, p. 1-58.Research output: Working paper/Preprint › Preprint (in preprint archive)
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2020
precisionFDA Truth Challenge V2: Calling variants from short- and long-reads in difficult-to-map regions
Olson, N. D., Wagner, J., McDaniel, J., Stephens, S. H., Westreich, S. T., Prasanna, A. G., Johanson, E., Maier, E. J., Boja, E., Serang, O., Jáspez, D., Lorenzo-Salazar, J. M., Muñoz-Barrera, A., Rubio-Rodríguez, L. A., Flores, C., Kyriakidis, K., Malousi, A., Shafin, K., Pesout, T. & Jain, M. & 53 others, , 2020 Nov 15, bioRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)
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SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology
Molteni, E., Astley, C. M., Ma, W., Sudre, C. H., Magee, L. A., Murray, B., Fall, T., Gomez, M. F., Tsereteli, N., Franks, P. W., Brownstein, J. S., Davies, R., Wolf, J., Spector, T., Ourselin, S., Steves, C., Chan, A. T. & Modat, M., 2020 Aug 19, medRxiv.Research output: Working paper/Preprint › Preprint (in preprint archive)