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1. Kupffer cells dictate hepatic responses to the atherogenic dyslipidemic insult

Author

Di Nunzio, Giada, Hellberg, Sanna, Zhang, Yuyang, Ahmed, Osman, Wang, Jiawen, Zhang, Xueming, Björck, Hanna M., Chizh, Veronika, Schipper, Ruby, Aulin, Hanna, Francis, Roy, Fagerberg, Linn, Gisterå, Anton, Metso, Jari, Manfé, Valentina, Franco-Cereceda, Anders, Eriksson, Per, Jauhiainen, Matti, Hagberg, Carolina E., Olofsson, Peder S., and Malin, Stephen G.

Published
2024
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5. Next generation pan-cancer blood proteome profiling using proximity extension assay

Author

Álvez, María Bueno, Edfors, Fredrik, von Feilitzen, Kalle, Zwahlen, Martin, Mardinoglu, Adil, Edqvist, Per-Henrik, Sjöblom, Tobias, Lundin, Emma, Rameika, Natallia, Enblad, Gunilla, Lindman, Henrik, Höglund, Martin, Hesselager, Göran, Stålberg, Karin, Enblad, Malin, Simonson, Oscar E., Häggman, Michael, Axelsson, Tomas, Åberg, Mikael, Nordlund, Jessica, Zhong, Wen, Karlsson, Max, Gyllensten, Ulf, Ponten, Fredrik, Fagerberg, Linn, and Uhlén, Mathias

Published
2023
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8. Author Correction: Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level

Author

Wang, Fei, Ding, Peiwen, Liang, Xue, Ding, Xiangning, Brandt, Camilla Blunk, Sjöstedt, Evelina, Zhu, Jiacheng, Bolund, Saga, Zhang, Lijing, de Rooij, Laura P. M. H., Luo, Lihua, Wei, Yanan, Zhao, Wandong, Lv, Zhiyuan, Haskó, János, Li, Runchu, Qin, Qiuyu, Jia, Yi, Wu, Wendi, Yuan, Yuting, Pu, Mingyi, Wang, Haoyu, Wu, Aiping, Xie, Lin, Liu, Ping, Chen, Fang, Herold, Jacqueline, Kalucka, Joanna, Karlsson, Max, Zhang, Xiuqing, Helmig, Rikke Bek, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Uhlen, Mathias, Bolund, Lars, Jessen, Niels, Jiang, Hui, Xu, Xun, Yang, Huanming, Carmeliet, Peter, Mulder, Jan, Chen, Dongsheng, Lin, Lin, and Luo, Yonglun

Published
2022
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9. Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level

Author

Wang, Fei, Ding, Peiwen, Liang, Xue, Ding, Xiangning, Brandt, Camilla Blunk, Sjöstedt, Evelina, Zhu, Jiacheng, Bolund, Saga, Zhang, Lijing, de Rooij, Laura P. M. H., Luo, Lihua, Wei, Yanan, Zhao, Wandong, Lv, Zhiyuan, Haskó, János, Li, Runchu, Qin, Qiuyu, Jia, Yi, Wu, Wendi, Yuan, Yuting, Pu, Mingyi, Wang, Haoyu, Wu, Aiping, Xie, Lin, Liu, Ping, Chen, Fang, Herold, Jacqueline, Kalucka, Joanna, Karlsson, Max, Zhang, Xiuqing, Helmig, Rikke Bek, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Uhlen, Mathias, Bolund, Lars, Jessen, Niels, Jiang, Hui, Xu, Xun, Yang, Huanming, Carmeliet, Peter, Mulder, Jan, Chen, Dongsheng, Lin, Lin, and Luo, Yonglun

Published
2022
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10. Genome-wide annotation of protein-coding genes in pig

Author

Karlsson, Max, Sjöstedt, Evelina, Oksvold, Per, Sivertsson, Åsa, Huang, Jinrong, Álvez, María Bueno, Arif, Muhammad, Li, Xiangyu, Lin, Lin, Yu, Jiaying, Ma, Tao, Xu, Fengping, Han, Peng, Jiang, Hui, Mardinoglu, Adil, Zhang, Cheng, von Feilitzen, Kalle, Xu, Xun, Wang, Jian, Yang, Huanming, Bolund, Lars, Zhong, Wen, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Mulder, Jan, Luo, Yonglun, and Uhlen, Mathias

Published
2022
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17. The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling

Author

Lindskog, Cecilia, Linné, Jerker, Fagerberg, Linn, Hallström, Björn M, Sundberg, Carl Johan, Lindholm, Malene, Huss, Mikael, Kampf, Caroline, Choi, Howard, Liem, David A, Ping, Peipei, Väremo, Leif, Mardinoglu, Adil, Nielsen, Jens, Larsson, Erik, Pontén, Fredrik, and Uhlén, Mathias

Subjects
Heart Disease, Cardiovascular, Biotechnology, Genetics, Aetiology, Underpinning research, 2.1 Biological and endogenous factors, 1.1 Normal biological development and functioning, Musculoskeletal, Antibodies, Gene Expression Profiling, Humans, Muscle, Skeletal, Myocardium, Proteome, Transcriptome, Cardiac and skeletal muscle, Biological Sciences, Information and Computing Sciences, Medical and Health Sciences, Bioinformatics
Abstract

BackgroundTo understand cardiac and skeletal muscle function, it is important to define and explore their molecular constituents and also to identify similarities and differences in the gene expression in these two different striated muscle tissues. Here, we have investigated the genes and proteins with elevated expression in cardiac and skeletal muscle in relation to all other major human tissues and organs using a global transcriptomics analysis complemented with antibody-based profiling to localize the corresponding proteins on a single cell level.ResultsOur study identified a comprehensive list of genes expressed in cardiac and skeletal muscle. The genes with elevated expression were further stratified according to their global expression pattern across the human body as well as their precise localization in the muscle tissues. The functions of the proteins encoded by the elevated genes are well in line with the physiological functions of cardiac and skeletal muscle, such as contraction, ion transport, regulation of membrane potential and actomyosin structure organization. A large fraction of the transcripts in both cardiac and skeletal muscle correspond to mitochondrial proteins involved in energy metabolism, which demonstrates the extreme specialization of these muscle tissues to provide energy for contraction.ConclusionsOur results provide a comprehensive list of genes and proteins elevated in striated muscles. A number of proteins not previously characterized in cardiac and skeletal muscle were identified and localized to specific cellular subcompartments. These proteins represent an interesting starting point for further functional analysis of their role in muscle biology and disease.

Published
2015

19. Longitudinal Exposomics in a Multiomic Wellness Cohort Reveals Distinctive and Dynamic Environmental Chemical Mixtures in Blood

Author

Sdougkou, Kalliroi, Papazian, Stefano, Bonnefille, Bénilde, Xie, Hongyu, Edfors, Fredrik, Fagerberg, Linn, Uhlén, Mathias, Bergström, Göran, Martin, Leah J., and Martin, Jonathan W.

Abstract

Chemical exposomes can now be comprehensively measured in human blood, but knowledge of their variability and longitudinal stability is required for robust application in cohort studies. Here, we applied high-resolution chemical exposomics to plasma of 46 adults, each sampled 6 times over 2 years in a multiomic cohort, resulting in 276 individual exposomes. In addition to quantitative analysis of 83 priority target analytes, we discovered and semiquantified substances that have rarely or never been reported in humans, including personal care products, pesticide transformation products, and polymer additives. Hierarchical cluster analysis for 519 confidently annotated substances revealed unique and distinctive coexposures, including clustered pesticides, poly(ethylene glycols), chlorinated phenols, or natural substances from tea and coffee; interactive heatmaps were publicly deposited to support open exploration of the complex (meta)data. Intraclass correlation coefficients (ICC) for all annotated substances demonstrated the relatively low stability of the exposome compared to that of proteome, microbiome, and endogenous small molecules. Implications are that the chemical exposome must be measured more frequently than other omics in longitudinal studies and four longitudinal exposure types are defined that can be considered in study design. In this small cohort, mixed-effect models nevertheless revealed significant associations between testosterone and perfluoroalkyl substances, demonstrating great potential for longitudinal exposomics in precision health research.

Published
2024
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20. A pathology atlas of the human cancer transcriptome

Author

Uhlen, Mathias, Zhang, Cheng, Lee, Sunjae, Sjöstedt, Evelina, Fagerberg, Linn, Bidkhori, Gholamreza, Benfeitas, Rui, Arif, Muhammad, Liu, Zhengtao, Edfors, Fredrik, Sanli, Kemal, von Feilitzen, Kalle, Oksvold, Per, Lundberg, Emma, Hober, Sophia, Nilsson, Peter, Mattsson, Johanna, Schwenk, Jochen M., Brunnström, Hans, Glimelius, Bengt, Sjöblom, Tobias, Edqvist, Per-Henrik, Djureinovic, Dijana, Micke, Patrick, Lindskog, Cecilia, Mardinoglu, Adil, and Ponten, Fredrik

Published
2017

21. A subcellular map of the human proteome

Author

Thul, Peter J., Åkesson, Lovisa, Wiking, Mikaela, Mahdessian, Diana, Geladaki, Aikaterini, Blal, Hammou Ait, Alm, Tove, Asplund, Anna, Björk, Lars, Breckels, Lisa M., Bäckström, Anna, Danielsson, Frida, Fagerberg, Linn, Fall, Jenny, Gatto, Laurent, Gnann, Christian, Hober, Sophia, Hjelmare, Martin, Johansson, Fredric, Lee, Sunjae, Lindskog, Cecilia, Mulder, Jan, Mulvey, Claire M., Nilsson, Peter, Oksvold, Per, Rockberg, Johan, Schutten, Rutger, Schwenk, Jochen M., Sivertsson, Åsa, Sjöstedt, Evelina, Skogs, Marie, Stadler, Charlotte, Sullivan, Devin P., Tegel, Hanna, Winsnes, Casper, Zhang, Cheng, Zwahlen, Martin, Mardinoglu, Adil, Pontén, Fredrik, von Feilitzen, Kalle, Lilley, Kathryn S., Uhlén, Mathias, and Lundberg, Emma

Published
2017

23. Integration of molecular profiles in a longitudinal wellness profiling cohort

Author

Tebani, Abdellah, Gummesson, Anders, Zhong, Wen, Koistinen, Ina Schuppe, Lakshmikanth, Tadepally, Olsson, Lisa M., Boulund, Fredrik, Neiman, Maja, Stenlund, Hans, Hellström, Cecilia, Karlsson, Max J., Arif, Muhammad, Dodig-Crnković, Tea, Mardinoglu, Adil, Lee, Sunjae, Zhang, Cheng, Chen, Yang, Olin, Axel, Mikes, Jaromir, Danielsson, Hanna, von Feilitzen, Kalle, Jansson, Per-Anders, Angerås, Oskar, Huss, Mikael, Kjellqvist, Sanela, Odeberg, Jacob, Edfors, Fredrik, Tremaroli, Valentina, Forsström, Björn, Schwenk, Jochen M., Nilsson, Peter, Moritz, Thomas, Bäckhed, Fredrik, Engstrand, Lars, Brodin, Petter, Bergström, Göran, Uhlen, Mathias, and Fagerberg, Linn

Published
2020
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25. Absolute Quantification of Pan-Cancer Plasma Proteomes Reveals Unique Signature in Multiple Myeloma

Author

Kotol, David, Woessmann, Jakob, Hober, Andreas, Alvez, Maria Bueno, Minh, Khue Hua Tran, Pontén, Fredrik, Fagerberg, Linn, Uhlen, Mathias, Edfors, Fredrik, Kotol, David, Woessmann, Jakob, Hober, Andreas, Alvez, Maria Bueno, Minh, Khue Hua Tran, Pontén, Fredrik, Fagerberg, Linn, Uhlen, Mathias, and Edfors, Fredrik

Abstract

Simple Summary: A precise mass spectrometry-based method was utilized to study proteins in the blood samples of over a thousand cancer patients. By accurately identifying and measuring protein levels using mass spectrometry, we focused on multiple myeloma and found potential markers for diagnosing the disease. These markers, including the complement C1 complex, JCHAIN, and CD5L, were combined in a prediction model with high accuracy for identifying multiple myeloma patients. Our findings could significantly impact cancer research by improving diagnostic tools. Mass spectrometry based on data-independent acquisition (DIA) has developed into a powerful quantitative tool with a variety of implications, including precision medicine. Combined with stable isotope recombinant protein standards, this strategy provides confident protein identification and precise quantification on an absolute scale. Here, we describe a comprehensive targeted proteomics approach to profile a pan-cancer cohort consisting of 1800 blood plasma samples representing 15 different cancer types. We successfully performed an absolute quantification of 253 proteins in multiplex. The assay had low intra-assay variability with a coefficient of variation below 20% (CV = 17.2%) for a total of 1013 peptides quantified across almost two thousand injections. This study identified a potential biomarker panel of seven protein targets for the diagnosis of multiple myeloma patients using differential expression analysis and machine learning. The combination of markers, including the complement C1 complex, JCHAIN, and CD5L, resulted in a prediction model with an AUC of 0.96 for the identification of multiple myeloma patients across various cancer patients. All these proteins are known to interact with immunoglobulins.

Published
2023
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27. The development of blood protein profiles in extremely preterm infants follows a stereotypic evolution pattern

Author

Zhong, Wen, primary, Danielsson, Hanna, additional, Brusselaers, Nele, additional, Wackernagel, Dirk, additional, Sjöbom, Ulrika, additional, Sävman, Karin, additional, Pupp, Ingrid, additional, Ley, David, additional, Nilsson, Anders, additional, Fagerberg, Linn, additional, Uhlen, Mathias, additional, and Hellström, Ann, additional

Published
2023
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28. Tissue-based map of the human proteome

Author

Uhlén, Mathias, Fagerberg, Linn, Hallström, Björn M., Lindskog, Cecilia, Oksvold, Per, Mardinoglu, Adil, Sivertsson, Åsa, Kampf, Caroline, Sjöstedt, Evelina, Asplund, Anna, Olsson, IngMarie, Edlund, Karolina, Lundberg, Emma, Navani, Sanjay, Szigyarto, Cristina Al-Khalili, Odeberg, Jacob, Djureinovic, Dijana, Takanen, Jenny Ottosson, Hober, Sophia, Alm, Tove, Edqvist, Per-Henrik, Berling, Holger, Tegel, Hanna, Mulder, Jan, Rockberg, Johan, Nilsson, Peter, Schwenk, Jochen M., Hamsten, Marica, von Feilitzen, Kalle, Forsberg, Mattias, Persson, Lukas, Johansson, Fredric, Zwahlen, Martin, von Heijne, Gunnar, Nielsen, Jens, and Pontén, Fredrik

Published
2015

29. Author Correction:Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level (Nature Communications, (2022), 13, 1, (3620), 10.1038/s41467-022-31388-z)

Author

Wang, Fei, Ding, Peiwen, Liang, Xue, Ding, Xiangning, Brandt, Camilla Blunk, Sjöstedt, Evelina, Zhu, Jiacheng, Bolund, Saga, Zhang, Lijing, de Rooij, Laura P.M.H., Luo, Lihua, Wei, Yanan, Zhao, Wandong, Lv, Zhiyuan, Haskó, János, Li, Runchu, Qin, Qiuyu, Jia, Yi, Wu, Wendi, Yuan, Yuting, Pu, Mingyi, Wang, Haoyu, Wu, Aiping, Xie, Lin, Liu, Ping, Chen, Fang, Herold, Jacqueline, Kalucka, Joanna, Karlsson, Max, Zhang, Xiuqing, Helmig, Rikke Bek, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Uhlen, Mathias, Bolund, Lars, Jessen, Niels, Jiang, Hui, Xu, Xun, Yang, Huanming, Carmeliet, Peter, Mulder, Jan, Chen, Dongsheng, Lin, Lin, and Luo, Yonglun

Published
2022
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30. Next generation pan-cancer blood proteome profiling using proximity extension assay

Author

Uhlen, Mathias, primary, Álvez, María Bueno, additional, Edfors, Fredrik, additional, von Feilitzen, Kalle, additional, Zwahlen, Martin, additional, mardinoglu, adil, additional, Edqvist, Per-Henrik, additional, Sjöblom, Tobias, additional, Lundin, Emma, additional, Rameika, Natallia, additional, Axelsson, Tomas, additional, Åberg, Mikael, additional, Nordlund, Jessica, additional, Zhong, Wen, additional, Karlsson, Max, additional, Gyllensten, Ulf, additional, Pontén, Fredrik, additional, and Fagerberg, Linn, additional

Published
2022
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31. Kupffer cells dictate hepatic responses to the atherogenic dyslipidemic insult

Author

Hellberg, Sanna, primary, Ahmed, Osman, additional, Zhang, Yuyang, additional, Di Nunzio, Giada, additional, Björck, Hanna M, additional, Francis, Roy, additional, Fagerberg, Linn, additional, Gisterå, Anton, additional, Zhang, Xueming, additional, Metso, Jari, additional, Manfé, Valentina, additional, Soto, Yosdel, additional, Franco-Cereceda, Anders, additional, Eriksson, Per, additional, Jauhiainen, Matti, additional, Olofsson, Peder S., additional, and Malin, Stephen G., additional

Published
2022
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32. Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

Author

Fagerberg, Linn, Hallström, Björn M., Oksvold, Per, Kampf, Caroline, Djureinovic, Dijana, Odeberg, Jacob, Habuka, Masato, Tahmasebpoor, Simin, Danielsson, Angelika, Edlund, Karolina, Asplund, Anna, Sjöstedt, Evelina, Lundberg, Emma, Szigyarto, Cristina Al-Khalili, Skogs, Marie, Takanen, Jenny Ottosson, Berling, Holger, Tegel, Hanna, Mulder, Jan, Nilsson, Peter, Schwenk, Jochen M., Lindskog, Cecilia, Danielsson, Frida, Mardinoglu, Adil, Sivertsson, Åsa, von Feilitzen, Kalle, Forsberg, Mattias, Zwahlen, Martin, Olsson, IngMarie, Navani, Sanjay, Huss, Mikael, Nielsen, Jens, Ponten, Fredrik, and Uhlén, Mathias

Published
2014
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33. Enhanced validation of antibodies for research applications

Author

Edfors, Fredrik, Hober, Andreas, Linderbäck, Klas, Maddalo, Gianluca, Azimi, Alireza, Sivertsson, Åsa, Tegel, Hanna, Hober, Sophia, Szigyarto, Cristina Al-Khalili, Fagerberg, Linn, von Feilitzen, Kalle, Oksvold, Per, Lindskog, Cecilia, Forsström, Björn, and Uhlen, Mathias

Published
2018
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35. iNetModels 2.0: an interactive visualization and database of multi-omics data

Author

Arif, Muhammad, Zhang, Cheng, Li, Xiangyu, Güngör, Cem, Çakmak, Buğra, Arslantürk, Metin, Tebani, Abdellah, Özcan, Berkay, Subaş, Oğuzhan, Zhou, Wenyu, Piening, Brian, Turkez, Hasan, Fagerberg, Linn, Price, Nathan, Hood, Leroy, Snyder, Michael, Nielsen, Jens, Uhlen, Mathias, and Mardinoglu, Adil

Subjects
Aged, 80 and over, Proteomics, Mouth, Databases, Factual, AcademicSubjects/SCI00010, Middle Aged, Gastrointestinal Microbiome, Non-alcoholic Fatty Liver Disease, Neoplasms, Web Server Issue, Humans, Metabolomics, Gene Regulatory Networks, Metagenomics, Software, Aged
Abstract

It is essential to reveal the associations between various omics data for a comprehensive understanding of the altered biological process in human wellness and disease. To date, very few studies have focused on collecting and exhibiting multi-omics associations in a single database. Here, we present iNetModels, an interactive database and visualization platform of Multi-Omics Biological Networks (MOBNs). This platform describes the associations between the clinical chemistry, anthropometric parameters, plasma proteomics, plasma metabolomics, as well as metagenomics for oral and gut microbiome obtained from the same individuals. Moreover, iNetModels includes tissue- and cancer-specific Gene Co-expression Networks (GCNs) for exploring the connections between the specific genes. This platform allows the user to interactively explore a single feature's association with other omics data and customize its particular context (e.g. male/female specific). The users can also register their data for sharing and visualization of the MOBNs and GCNs. Moreover, iNetModels allows users who do not have a bioinformatics background to facilitate human wellness and disease research. iNetModels can be accessed freely at https://inetmodels.com without any limitation., Graphical Abstract Graphical AbstractiNetModels 2.0: an interactive visualization and database of multi-omics data.

Published
2021

36. Genome-wide single cell annotation of the human protein-coding genes

Author

Karlsson, Max, primary, Álvez, María Bueno, additional, Shi, Mengnan, additional, Méar, Loren, additional, Schutten, Rutger, additional, Hikmet, Feria, additional, Digre, Andreas, additional, Katona, Borbala, additional, Vuu, Jimmy, additional, Bosic, Martina, additional, Sjöstedt, Evelina, additional, Edfors, Fredrik, additional, Oksvold, Per, additional, von Feilitzen, Kalle, additional, Zwahlen, Martin, additional, Forsberg, Mattias, additional, Johansson, Fredric, additional, Mulder, Jan, additional, Hökfelt, Tomas, additional, Luo, Younglun, additional, Butler, Lynn, additional, Zhong, Wen, additional, Mardinoglu, Adil, additional, Sivertsson, Åsa, additional, Ponten, Fredrik, additional, Zhang, Cheng, additional, Lindskog, Cecilia, additional, Fagerberg, Linn, additional, and Uhlén, Mathias, additional

Published
2022
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37. Author Correction : Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level (vol 13, 3620, 2022)

Author

Wang, Fei, Ding, Peiwen, Liang, Xue, Ding, Xiangning, Brandt, Camilla Blunk, Sjostedt, Evelina, Zhu, Jiacheng, Bolund, Saga, Zhang, Lijing, de Rooij, Laura P. M. H., Luo, Lihua, Wei, Yanan, Zhao, Wandong, Lv, Zhiyuan, Hasko, Janos, Li, Runchu, Qin, Qiuyu, Jia, Yi, Wu, Wendi, Yuan, Yuting, Pu, Mingyi, Wang, Haoyu, Wu, Aiping, Xie, Lin, Liu, Ping, Chen, Fang, Herold, Jacqueline, Kalucka, Joanna, Karlsson, Max, Zhang, Xiuqing, Helmig, Rikke Bek, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Uhlen, Mathias, Bolund, Lars, Jessen, Niels, Jiang, Hui, Xu, Xun, Yang, Huanming, Carmeliet, Peter, Mulder, Jan, Chen, Dongsheng, Lin, Lin, Luo, Yonglun, Wang, Fei, Ding, Peiwen, Liang, Xue, Ding, Xiangning, Brandt, Camilla Blunk, Sjostedt, Evelina, Zhu, Jiacheng, Bolund, Saga, Zhang, Lijing, de Rooij, Laura P. M. H., Luo, Lihua, Wei, Yanan, Zhao, Wandong, Lv, Zhiyuan, Hasko, Janos, Li, Runchu, Qin, Qiuyu, Jia, Yi, Wu, Wendi, Yuan, Yuting, Pu, Mingyi, Wang, Haoyu, Wu, Aiping, Xie, Lin, Liu, Ping, Chen, Fang, Herold, Jacqueline, Kalucka, Joanna, Karlsson, Max, Zhang, Xiuqing, Helmig, Rikke Bek, Fagerberg, Linn, Lindskog, Cecilia, Pontén, Fredrik, Uhlen, Mathias, Bolund, Lars, Jessen, Niels, Jiang, Hui, Xu, Xun, Yang, Huanming, Carmeliet, Peter, Mulder, Jan, Chen, Dongsheng, Lin, Lin, and Luo, Yonglun

Published
2022
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38. Dynamics of the normal gut microbiota : A longitudinal one-year population study in Sweden

Author

Olsson, Lisa M., Boulund, Fredrik, Nilsson, Staffan, Khan, Muhammad Tanweer, Gummesson, Anders, Fagerberg, Linn, Engstrand, Lars, Perkins, Rosie, Uhlén, Mathias, Bergström, Göran, Tremaroli, Valentina, Backhed, Fredrik, Olsson, Lisa M., Boulund, Fredrik, Nilsson, Staffan, Khan, Muhammad Tanweer, Gummesson, Anders, Fagerberg, Linn, Engstrand, Lars, Perkins, Rosie, Uhlén, Mathias, Bergström, Göran, Tremaroli, Valentina, and Backhed, Fredrik

Abstract

Temporal dynamics of the gut microbiota potentially limit the identification of microbial features associated with health status. Here, we used whole-genome metagenomic and 16S rRNA gene sequencing to characterize the intra-and inter-individual variations of gut microbiota composition and functional potential of a disease-free Swedish population (n = 75) over one year. We found that 23% of the total compositional variance was explained by intra-individual variation. The degree of intra-individual compositional variability was negatively associated with the abundance of Faecalibacterium prausnitzii (a butyrate producer) and two Bifidobacterium species. By contrast, the abundance of facultative anaerobes and aerotolerant bacteria such as Escherichia coli and Lactobacillus acidophilus varied extensively, independent of compositional stability. The contribution of intra-individual variance to the total variance was greater for functional pathways than for microbial species. Thus, reliable quantification of microbial features requires repeated samples to address the issue of intra-individual variations of the gut microbiota., QC 20220916

Published
2022
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39. Dynamics of the normal gut microbiota:A longitudinal one-year population study in Sweden

Author

Olsson, Lisa M., Boulund, Fredrik, Nilsson, Staffan, Khan, Muhammad Tanweer, Gummesson, Anders, Fagerberg, Linn, Engstrand, Lars, Perkins, Rosie, Uhlén, Mathias, Bergström, Göran, Tremaroli, Valentina, Bäckhed, Fredrik, Olsson, Lisa M., Boulund, Fredrik, Nilsson, Staffan, Khan, Muhammad Tanweer, Gummesson, Anders, Fagerberg, Linn, Engstrand, Lars, Perkins, Rosie, Uhlén, Mathias, Bergström, Göran, Tremaroli, Valentina, and Bäckhed, Fredrik

Abstract

Temporal dynamics of the gut microbiota potentially limit the identification of microbial features associated with health status. Here, we used whole-genome metagenomic and 16S rRNA gene sequencing to characterize the intra- and inter-individual variations of gut microbiota composition and functional potential of a disease-free Swedish population (n = 75) over one year. We found that 23% of the total compositional variance was explained by intra-individual variation. The degree of intra-individual compositional variability was negatively associated with the abundance of Faecalibacterium prausnitzii (a butyrate producer) and two Bifidobacterium species. By contrast, the abundance of facultative anaerobes and aerotolerant bacteria such as Escherichia coli and Lactobacillus acidophilus varied extensively, independent of compositional stability. The contribution of intra-individual variance to the total variance was greater for functional pathways than for microbial species. Thus, reliable quantification of microbial features requires repeated samples to address the issue of intra-individual variations of the gut microbiota.

Published
2022

43. Additional file 1 of Genome-wide annotation of protein-coding genes in pig

Author

Karlsson, Max, Sj��stedt, Evelina, Oksvold, Per, Sivertsson, ��sa, Huang, Jinrong, ��lvez, Mar��a Bueno, Arif, Muhammad, Li, Xiangyu, Lin, Lin, Yu, Jiaying, Ma, Tao, Xu, Fengping, Han, Peng, Jiang, Hui, Mardinoglu, Adil, Zhang, Cheng, von Feilitzen, Kalle, Xu, Xun, Wang, Jian, Yang, Huanming, Bolund, Lars, Zhong, Wen, Fagerberg, Linn, Lindskog, Cecilia, Pont��n, Fredrik, Mulder, Jan, Luo, Yonglun, and Uhlen, Mathias

Abstract

Additional file 1. Supplementary Figures S1 ��� S8

Published
2022
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44. Prestasjonslønn til glede eller besvær?

Author

Kristthorsdottir, Sigridur Kristin, Jacobsen, Lise, and Fagerberg, Linn Iren

Subjects
human resource management
Abstract

Executive Master of Management i Human resource management fra Handelshøyskolen BI, 2022 Hensikten med denne studien var å undersøke om individuell prestasjonslønn virket motiverende for den enkelte ansatte, i en bedrift hvor arbeidsoppgavene er relativt enkle og rutinepregede. Vi ønsket å se om opplevd god relasjon til leder kunne redusere eventuelle negative effekter. Vår problemstilling i denne oppgaven er: Hvordan påvirker prestasjonslønnen motivasjon og turnoverintensjon, og har leder-medarbeider-relasjon noen betydning? Det ble gjennomført en to-delt spørreundersøkelse hos en av Norges største engrosvirksomheter. Totalt 407 ansatte fikk tilsendt spørreundersøkelsen. Av disse svarte 98 stk. (24%) på begge. Ut ifra undersøkelsen utledet vi hypoteser som så på sammenhengen mellom prestasjonslønn, motivasjon, informerende - og kontrollerende, turnoverintensjon og leder-medarbeider relasjon. Våre viktigste funn er at utbetalt prestasjonslønn ikke har signifikant positiv effekt på motivasjon. Det som viser seg å ha effekt, er de ansattes opplevelse av at belønningssystemet oppleves som en takk for god innsats, fordi relasjonen til leder gir informerende effekt. Funnene er dog ikke generaliserbare, pga. lavt antall respondenter. Avslutningsvis i denne oppgaven diskuterer vi hvordan Engrosvirksomheten kan bruke våre funn til å redusere negative effekter av prestasjonslønnssystemet, og gir implikasjoner for videre forskning.

Published
2022

45. The Evolution of Blood Protein Profiles of Extremely Preterm Infants After Birth

Author

Zhong, Wen, primary, Danielsson, Hanna, additional, Brusselaers, Nele, additional, Wackernagel, Dirk, additional, Sjöbom, Ulrika, additional, Sävman, Karin, additional, Pupp, Ingrid Hansen, additional, Ley, David, additional, Nilsson, Anders K., additional, Fagerberg, Linn, additional, Uhlen, Mathias, additional, and Hellstrom, Ann Knattan, additional

Published
2022
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47. PROTEOMICS: Tissue-based map of the human proteome

Author

Uhlén, Mathias, Fagerberg, Linn, Hallström, Björn M., Lindskog, Cecilia, Oksvold, Per, Mardinoglu, Adil, Sivertsson, Åsa, Kampf, Caroline, Sjöstedt, Evelina, Asplund, Anna, Olsson, IngMarie, Edlund, Karolina, Lundberg, Emma, Navani, Sanjay, Szigyarto, Cristina Al-Khalili, Odeberg, Jacob, Djureinovic, Dijana, Takanen, Jenny Ottosson, Hober, Sophia, Alm, Tove, Edqvist, Per-Henrik, Berling, Holger, Tegel, Hanna, Mulder, Jan, Rockberg, Johan, Nilsson, Peter, Schwenk, Jochen M., Hamsten, Marica, von Feilitzen, Kalle, Forsberg, Mattias, Persson, Lukas, Johansson, Fredric, Zwahlen, Martin, von Heijne, Gunnar, Nielsen, Jens, and Pontén, Fredrik

Published
2015
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48. A single–cell type transcriptomics map of human tissues

Author

Karlsson, Max, primary, Zhang, Cheng, additional, Méar, Loren, additional, Zhong, Wen, additional, Digre, Andreas, additional, Katona, Borbala, additional, Sjöstedt, Evelina, additional, Butler, Lynn, additional, Odeberg, Jacob, additional, Dusart, Philip, additional, Edfors, Fredrik, additional, Oksvold, Per, additional, von Feilitzen, Kalle, additional, Zwahlen, Martin, additional, Arif, Muhammad, additional, Altay, Ozlem, additional, Li, Xiangyu, additional, Ozcan, Mehmet, additional, Mardinoglu, Adil, additional, Fagerberg, Linn, additional, Mulder, Jan, additional, Luo, Yonglun, additional, Ponten, Fredrik, additional, Uhlén, Mathias, additional, and Lindskog, Cecilia, additional

Published
2021
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