Niina Haiminen
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Explore the profile of Niina Haiminen including associated specialties, affiliations and a list of published articles.
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42
Citations
626
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Recent Articles
1.
Martino C, Kellman B, Sandoval D, Clausen T, Cooper R, Benjdia A, et al.
mBio
. 2025 Feb;
:e0401524.
PMID: 39998226
The gastrointestinal (GI) tract is a site of replication of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and GI symptoms are often reported by patients. SARS-CoV-2 cell entry depends upon...
2.
Strudwick J, Gardiner L, Denning-James K, Haiminen N, Evans A, Kelly J, et al.
Brief Bioinform
. 2024 Nov;
26(1).
PMID: 39576223
Machine learning (ML) methods offer opportunities for gaining insights into the intricate workings of complex biological systems, and their applications are increasingly prominent in the analysis of omics data to...
3.
Zhu Q, Huang S, Gonzalez A, McGrath I, McDonald D, Haiminen N, et al.
mSystems
. 2024 Oct;
9(11):e0128924.
PMID: 39422474
No abstract available.
4.
Beck K, Haiminen N, Agarwal A, Carrieri A, Madgwick M, Kelly J, et al.
mSystems
. 2024 Oct;
9(11):e0084024.
PMID: 39387577
Importance: We evaluated the feasibility of using untargeted metagenomic sequencing of raw milk for detecting anomalous food ingredient content with artificial intelligence methods in a study specifically designed to test...
5.
Shaffer J, Nothias L, Thompson L, Sanders J, Salido R, Couvillion S, et al.
Nat Microbiol
. 2022 Nov;
7(12):2128-2150.
PMID: 36443458
Despite advances in sequencing, lack of standardization makes comparisons across studies challenging and hampers insights into the structure and function of microbial communities across multiple habitats on a planetary scale....
6.
Zhu Q, Huang S, Gonzalez A, McGrath I, McDonald D, Haiminen N, et al.
mSystems
. 2022 Apr;
7(2):e0016722.
PMID: 35369727
We introduce the operational genomic unit (OGU) method, a metagenome analysis strategy that directly exploits sequence alignment hits to individual reference genomes as the minimum unit for assessing the diversity...
7.
Armstrong G, Cantrell K, Huang S, McDonald D, Haiminen N, Carrieri A, et al.
Genome Res
. 2021 Sep;
31(11):2131-2137.
PMID: 34479875
The number of publicly available microbiome samples is continually growing. As data set size increases, bottlenecks arise in standard analytical pipelines. Faith's phylogenetic diversity (Faith's PD) is a highly utilized...
8.
Ganda E, Beck K, Haiminen N, Silverman J, Kawas B, Cronk B, et al.
mSystems
. 2021 Jun;
6(3):e0061921.
PMID: 34128697
Untargeted sequencing of nucleic acids present in food can inform the detection of food safety and origin, as well as product tampering and mislabeling issues. The application of such technologies...
9.
Marotz C, Belda-Ferre P, Ali F, Das P, Huang S, Cantrell K, et al.
Microbiome
. 2021 Jun;
9(1):132.
PMID: 34103074
Background: SARS-CoV-2 is an RNA virus responsible for the coronavirus disease 2019 (COVID-19) pandemic. Viruses exist in complex microbial environments, and recent studies have revealed both synergistic and antagonistic effects...
10.
Sun Z, Huang S, Zhang M, Zhu Q, Haiminen N, Carrieri A, et al.
Nat Methods
. 2021 May;
18(6):618-626.
PMID: 33986544
Accurate microbial identification and abundance estimation are crucial for metagenomics analysis. Various methods for classification of metagenomic data and estimation of taxonomic profiles, broadly referred to as metagenomic profilers, have...