Fredrik Boulund

Publikationer
Forskningsbidrag
Populärvetenskap och samverkan

Artiklar

Article: BRAIN, BEHAVIOR, AND IMMUNITY. 2024;117:298-309
Differences in the gut microbiome of young adults with schizophrenia spectrum disorder: using machine learning to distinguish cases from controls
Stiernborg M; Prast-Nielsen S; Melas PA; Skott M; Millischer V; Boulund F; Forsell Y; Lavebratt C
Article: BRAIN, BEHAVIOR, AND IMMUNITY. 2023;110:310-321
Bacterial gut microbiome differences in adults with ADHD and in children with ADHD on psychostimulant medication
Stiernborg M; Debelius JW; Yang LL; Skott E; Millischer V; Giacobini M; Melas PA; Boulund F; Lavebratt C
Article: GUT MICROBES. 2022;14(1):2013761
Novel strain of Pseudoruminococcus massiliensis possesses traits important in gut adaptation and host-microbe interactions
Hiippala K; Khan I; Ronkainen A; Boulund F; Vaha-Makila H; Suutarinen M; Seifert M; Engstrand L; Satokari R
Article: BMJ OPEN. 2022;12(10):e065825
Cohort profile: the Swedish Maternal Microbiome project (SweMaMi) - assessing the dynamic associations between the microbiome and maternal and neonatal adverse events
Fransson E; Gudnadottir U; Hugerth LW; Itzel EW; Hamsten M; Boulund F; Pennhag A; Du J; Schuppe-Koistinen I; Brusselaers N; Engstrand L
Article: CELL HOST AND MICROBE. 2022;30(5):726-739.e3
Dynamics of the normal gut microbiota: A longitudinal one-year population study in Sweden
Olsson LM; Boulund F; Nilsson S; Khan MT; Gummesson A; Fagerberg L; Engstrand L; Perkins R; Uhlen M; Bergstrom G; Tremaroli V; Backhed F
Article: CELL SYSTEMS. 2022;13(3):241-255.e7
Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health
Marabita F; James T; Karhu A; Virtanen H; Kettunen K; Stenlund H; Boulund F; Hellstrom C; Neiman M; Mills R; Perheentupa T; Laivuori H; Helkkula P; Byrne M; Jokinen I; Honko H; Kallonen A; Ermes M; Simila H; Lindholm M; Widen E; Ripatti S; Perala-Heape M; Engstrand L; Nilsson P; Moritz T; Miettinen T; Sallinen R; Kallioniemi O
Article: FRONTIERS IN MICROBIOLOGY. 2022;13:997849
Conjugative transfer of multi-drug resistance IncN plasmids from environmental waterborne bacteria to Escherichia coli
Guzman-Otazo J; Joffre E; Agramont J; Mamani N; Jutkina J; Boulund F; Hu YOO; Jumilla-Lorenz D; Farewell A; Larsson DGJ; Flach C-F; Iniguez V; Sjoling A
Article: JOURNAL OF INFECTIOUS DISEASES. 2021;224(1):14-20
High Amounts of SARS-CoV-2 Precede Sickness Among Asymptomatic Health Care Workers
Dillner J; Elfstrom KM; Blomqvist J; Engstrand L; Uhlen M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellstrom C; Olofsson J; Andersson E; Falk AJ; Bergstrom S; Hultin E; Pin E; Pimenoff VN; Hassan S; Manberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Muhr LSA; Lundgren KC
Article: AMERICAN JOURNAL OF OBSTETRICS AND GYNECOLOGY. 2021;224(3):296.e1-296.e23
No evidence for a placental microbiome in human pregnancies at term
Sterpu I; Fransson E; Hugerth LW; Du J; Pereira M; Cheng L; Radu SA; Calderon-Perez L; Zha Y; Angelidou P; Pennhag A; Boulund F; Scheynius A; Engstrand L; Wiberg-Itzel E; Schuppe-Koistinen I
Article: FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY. 2021;11:625229
Dysbiosis of the Human Oral Microbiome During the Menstrual Cycle and Vulnerability to the External Exposures of Smoking and Dietary Sugar
Bostanci N; Krog MC; Hugerth LW; Bashir Z; Fransson E; Boulund F; Belibasakis GN; Wannerberger K; Engstrand L; Nielsen HS; Schuppe-Koistinen I
Article: MSPHERE. 2020;5(6):10.1128/msphere.00448-10.1128/msphere.00420
Assessment of In Vitro and In Silico Protocols for Sequence-Based Characterization of the Human Vaginal Microbiome
Hugerth LW; Pereira M; Zha Y; Seifert M; Kaldhusdal V; Boulund F; Krog MC; Bashir Z; Hamsten M; Fransson E; Nielsen HS; Schuppe-Koistinen I; Engstrand L
Article: NATURE COMMUNICATIONS. 2020;11(1):4487
Integration of molecular profiles in a longitudinal wellness profiling cohort
Tebani A; Gummesson A; Zhong W; Koistinen IS; Lakshmikanth T; Olsson LM; Boulund F; Neiman M; Stenlund H; Hellstrom C; Karlsson MJ; Arif M; Dodig-Crnkovic T; Mardinoglu A; Lee S; Zhang C; Chen Y; Olin A; Mikes J; Danielsson H; von Feilitzen K; Jansson P-A; Angeras O; Huss M; Kjellqvist S; Odeberg J; Edfors F; Tremaroli V; Forsstrom B; Schwenk JM; Nilsson P; Moritz T; Backhed F; Engstrand L; Brodin P; Bergstrom G; Uhlen M; Fagerberg L
Article: MOLECULAR & CELLULAR PROTEOMICS. 2020;19(3):518-528
Discovery of Species-unique Peptide Biomarkers of Bacterial Pathogens by Tandem Mass Spectrometry-based Proteotyping
Karlsson R; Thorsell A; Gomila M; Salva-Serra F; Jakobsson HE; Gonzales-Siles L; Jaen-Luchoro D; Skovbjerg S; Fuchs J; Karlsson A; Boulund F; Johnning A; Kristiansson E; Moore ERB
Article: SCIENTIFIC REPORTS. 2019;9(1):17287
Effects of sampling strategy and DNA extraction on human skin microbiome investigations
Bjerre RD; Hugerth LW; Boulund F; Seifert M; Johansen JD; Engstrand L
Article: CELL HOST AND MICROBE. 2019;26(5):666-679.e7
The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations
Tett A; Huang KD; Asnicar F; Fehlner-Peach H; Pasolli E; Karcher N; Armanini F; Manghi P; Bonham K; Zolfo M; De Filippis F; Magnabosco C; Bonneau R; Lusingu J; Amuasi J; Reinhard K; Rattei T; Boulund F; Engstrand L; Zink A; Carmen Collado M; Littman DR; Eibach D; Ercolini D; Rota-Stabelli O; Huttenhower C; Maixner F; Segata N
Article: MICROBIOME. 2019;7(1):52
Identification and reconstruction of novel antibiotic resistance genes from metagenomes
Berglund F; Osterlund T; Boulund F; Marathe NP; Larsson DGJ; Kristiansson E
Journal article: PLOS ONE. 2018;13(12):e0208804
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics
Karlsson R; Gonzales-Siles L; Gomila M; Busquets A; Salva-Serra F; Jaen-Luchoro D; Jakobsson HE; Karlsson A; Boulund F; Kristiansson E; Moore ERB
Journal article: BMC GENOMICS. 2017;18(1):682
Computational discovery and functional validation of novel fluoroquinolone resistance genes in public metagenomic data sets.
Boulund F; Berglund F; Flach C-F; Bengtsson-Palme J; Marathe NP; Larsson DGJ; Kristiansson E
Journal article: MOLECULAR & CELLULAR PROTEOMICS. 2017;16(6):1052-1063
Typing and Characterization of Bacteria Using Bottom-up Tandem Mass Spectrometry Proteomics
Boulund F; Karlsson R; Gonzales-Siles L; Johnning A; Karami N; Al-Bayati O; Ahren C; Moore ERB; Kristiansson E
Article: MICROBIOLOGY RESOURCE ANNOUNCEMENTS. 2017;5(14):e00125-e00117
Draft Genome Sequences of Six Strains of Streptococcus pneumoniae from Serotypes 5, 6A, 6B, 18C, 19A, and 23F.
Jakobsson HE; Salvà-Serra F; Thorell K; Karlsson R; Gonzales-Silès L; Boulund F; Engstrand L; Kristiansson E; Moore ERB
Journal article: MICROBIOLOGY RESOURCE ANNOUNCEMENTS. 2016;4(6):e01382-e01316
Draft Genome Sequence of Extended-Spectrum-β-Lactamase-Producing Escherichia coli Strain CCUG 62462, Isolated from a Urine Sample.
Johnning A; Jakobsson HE; Boulund F; Salvà-Serra F; Moore ERB; Åhrén C; Karami N; Kristiansson E
Article: PROTEOMICS. 2016;16(18):2454-2460
Strategies to improve usability and preserve accuracy in biological sequence databases
Bengtsson-Palme J; Boulund F; Edstrom R; Feizi A; Johnning A; Jonsson VA; Karlsson FH; Pal C; Pereira MB; Rehammar A; Sanchez J; Sanli K; Thorell K
Article: MICROBIOLOGY RESOURCE ANNOUNCEMENTS. 2016;4(3):e00552-e00516
Draft Genome Sequence of Moraxella catarrhalis Type Strain CCUG 353T.
Jakobsson HE; Salvà-Serra F; Thorell K; Gonzales-Siles L; Boulund F; Karlsson R; Sikora P; Engstrand L; Kristiansson E; Moore ERB
Article: MICROBIOLOGY RESOURCE ANNOUNCEMENTS. 2016;4(2):e00175-e00116
Draft Genome Sequence of Streptococcus gordonii Type Strain CCUG 33482T.
Salvà-Serra F; Jakobsson HE; Thorell K; Gonzales-Siles L; Hallbäck ET; Jaén-Luchoro D; Boulund F; Sikora P; Karlsson R; Svensson L; Bennasar A; Engstrand L; Kristiansson E; Moore ERB
Journal article: GIGASCIENCE. 2015;4:1-10
Tentacle: distributed quantification of genes in metagenomes
Boulund F; Sjogren A; Kristiansson E
Journal article: SYSTEMATIC AND APPLIED MICROBIOLOGY. 2015;38(4):246-257
Proteotyping: Proteomic characterization, classification and identification of microorganisms - A prospectus
Karlsson R; Gonzales-Siles L; Boulund F; Svensson-Stadler L; Skovbjerg S; Karlsson A; Davidson M; Hulth S; Kristiansson E; Moore ERB
Article: PLATELETS. 2015;26(2):132-137
In vitro assessment of platelet concentrates with multiple electrode aggregometry
Hakimi CS; Hesse C; Walllen H; Boulund F; Grahn A; Jeppsson A
Journal article: FRONTIERS IN MICROBIOLOGY. 2014;5:648
Shotgun metagenomics reveals a wide array of antibiotic resistance genes and mobile elements in a polluted lake in India.
Bengtsson-Palme J; Boulund F; Fick J; Kristiansson E; Larsson DGJ
Journal article: ANNALS OF CLINICAL MICROBIOLOGY AND ANTIMICROBIALS. 2013;12:34
Functional verification of computationally predicted qnr genes
Flach C-F; Boulund F; Kristiansson E; Larsson DGJ
Journal article: BMC GENOMICS. 2012;13:695
A novel method to discover fluoroquinolone antibiotic resistance (qnr) genes in fragmented nucleotide sequences
Boulund F; Johnning A; Pereira MB; Larsson DGJ; Kristiansson E
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Preprint: BIORXIV. 2024
Profiling the intestinal microbiota, plasma bile acids and inflammation markers reveals novel associations in Crohn’s disease and Ulcerative colitis
Prast-Nielsen S; Granström AL; Kiasat A; Ahlström G; Edfeldt G; Rautiainen S; Boulund F; Andersson FO; Lindberg J; Schuppe-Koistinen I; Gustafsson UO; Engstrand L
Letter: CLINICAL AND EXPERIMENTAL ALLERGY. 2023;53(11):1212-1215
The gut microbiome and asthma in a Swedish twin study
Mubanga M; Ploner A; Schuppe-Koistinen I; Magnusson PKE; Boulund F; Debelius JW; Almqvist C
Review: HUMAN REPRODUCTION OPEN. 2022;2022(2):hoac015
The microbiome in reproductive health: protocol for a systems biology approach using a prospective, observational study design
Krog MC; Madsen ME; Bliddal S; Bashir Z; Vexo LE; Hartwell D; Hugerth LW; Fransson E; Hamsten M; Boulund F; Wannerberger K; Engstrand L; Schuppe-Koistinen I; Nielsen HS
Preprint: BIORXIV. 2021
A comparison of approaches to scaffolding multiple regions along the 16S rRNA gene for improved resolution
Debelius J; Robeson M; Hugerth L; Boulund F; Ye W; Engstrand L
Corrigendum: MSPHERE. 2020;5(6):10.1128/msphere.01253-10.1128/msphere.01220
Assessment of In Vitro and In Silico Protocols for Sequence-Based Characterization of the Human Vaginal Microbiome (vol 5, e00448-20, 2020)
Hugerth LW; Pereira M; Zha Y; Seifert M; Kaldhusdal V; Boulund F; Krog MC; Bashir Z; Hamsten M; Fransson E; Nielsen HS; Schuppe-Koistinen I; Engstrand L
Preprint: MEDRXIV. 2020
Screening for high amounts of SARS-CoV-2 identifies pre-symptomatic subjects among healthy healthcare workers
Dillner J; Elfström M; Blomqvist J; Engstrand L; Uhlén M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellström C; Olofsson J; Andersson E; Falk AJ; Bergström S; Hultin E; Pin E; Pimenoff V; Hassan S; Månberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Mühr LSA; Lundgren KC
Preprint: BIORXIV. 2020
Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health
Marabita F; James T; Karhu A; Virtanen H; Kettunen K; Stenlund H; Boulund F; Hellström C; Neiman M; Mills R; Perheentupa T; Laivuori H; Helkkula P; Byrne M; Jokinen I; Honko H; Kallonen A; Ermes M; Similä H; Lindholm M; Widen E; Ripatti S; Perälä-Heape M; Engstrand L; Nilsson P; Moritz T; Miettinen T; Sallinen R; Kallioniemi O
Preprint: BIORXIV. 2020
Optimal protocols for sequence-based characterization of the human vaginal microbiome
Hugerth LW; Pereira M; Zha Y; Seifert M; Kaldhusdal V; Boulund F; Krog MC; Bashir Z; Hamsten M; Fransson E; Svarre-Nielsen H; Schuppe-Koistinen I; Engstrand L
Preprint: SSRN ELECTRONIC JOURNAL. 2020
Screening for High Amounts of SARS-CoV-2 Identifies Pre-Symptomatic Subjects Among Healthy Healthcare Workers
Dillner J; Elfström KM; Blomqvist J; Engstrand L; Uhlen M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellström C; Olofsson J; Andersson E; Falk AJ; Bergström S; Hultin E; Pin E; Pimenoff VN; Hassan S; Månberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Mühr LSA; Conneryd Lundgren K
Book chapter: RECENT DEVELOPMENTS IN MULTIVARIATE AND RANDOM MATRIX ANALYSIS. 2020;p. 287-311
Detection of Sparse and Weak Effects in High-Dimensional Feature Space, with an Application to Microbiome Data Analysis
Pavlenko T; Tillander A; Debelius J; Boulund F
Preprint: BIORXIV. 2019
The Prevotella copri complex comprises four distinct clades that are underrepresented in Westernised populations
Tett A; Huang KD; Asnicar F; Fehlner-Peach H; Pasolli E; Karcher N; Armanini F; Manghi P; Bonham K; Zolfo M; De Filippis F; Magnabosco C; Bonneau R; Lusingu J; Amuasi J; Reinhard K; Rattei T; Boulund F; Engstrand L; Zink A; Collado MC; Littman DR; Eibach D; Ercolini D; Rota-Stabelli O; Huttenhower C; Maixner F; Segata N
Book chapter: METAGENOMICS. 2018;p. 81-102
Chapter 4 Computational and Statistical Considerations in the Analysis of Metagenomic Data
Boulund F; Pereira MB; Jonsson V; Kristiansson E
Book chapter: MALDI‐TOF AND TANDEM MS FOR CLINICAL MICROBIOLOGY. 2017;p. 419-450
Proteotyping
Karlsson R; Gonzales‐Siles L; Boulund F; Lindgren Å; Svensson‐Stadler L; Karlsson A; Kristiansson E; Moore ERB

Forskningsbidrag

Swedish Bioinformatics Workshop 2014
Swedish Research Council for Environment Agricultural Sciences and Spatial Planning
1 January 2014 - 31 December 2014

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Nyheter från KI

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