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Niina Haiminen
Niina Haiminen
DAIN Studios
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The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color
JC Motamayor, K Mockaitis, J Schmutz, N Haiminen, DL Iii, O Cornejo, ...
Genome biology 14, 1-25, 2013
3032013
Human skin, oral, and gut microbiomes predict chronological age
S Huang, N Haiminen, AP Carrieri, R Hu, L Jiang, L Parida, B Russell, ...
Msystems 5 (1), 10.1128/msystems. 00630-19, 2020
1002020
Challenges in benchmarking metagenomic profilers
Z Sun, S Huang, M Zhang, Q Zhu, N Haiminen, AP Carrieri, ...
Nature methods 18 (6), 618-626, 2021
902021
Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences
AP Carrieri, N Haiminen, S Maudsley-Barton, LJ Gardiner, B Murphy, ...
Scientific reports 11 (1), 4565, 2021
782021
Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity
JP Shaffer, LF Nothias, LR Thompson, JG Sanders, RA Salido, ...
Nature Microbiology 7 (12), 2128-2150, 2022
632022
Segmentation and dimensionality reduction
E Bingham, A Gionis, N Haiminen, H Hiisilä, H Mannila, E Terzi
Proceedings of the 2006 SIAM International Conference on Data Mining, 372-383, 2006
612006
SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment
C Marotz, P Belda-Ferre, F Ali, P Das, S Huang, K Cantrell, L Jiang, ...
Microbiome 9 (1), 132, 2021
53*2021
Phylogeny-aware analysis of metagenome community ecology based on matched reference genomes while bypassing taxonomy
Q Zhu, S Huang, A Gonzalez, I McGrath, D McDonald, N Haiminen, ...
Msystems 7 (2), e00167-22, 2022
51*2022
GenomicTools: a computational platform for developing high-throughput analytics in genomics
A Tsirigos, N Haiminen, E Bilal, F Utro
Bioinformatics 28 (2), 282-283, 2012
492012
Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results
N Haiminen, DN Kuhn, L Parida, I Rigoutsos
PloS one 6 (9), e24182, 2011
462011
Application of genome wide association and genomic prediction for improvement of cacao productivity and resistance to black and frosty pod diseases
JA Romero Navarro, W Phillips-Mora, A Arciniegas-Leal, A Mata-Quirós, ...
Frontiers in Plant Science 8, 1905, 2017
402017
EMPress enables tree-guided, interactive, and exploratory analyses of multi-omic data sets
K Cantrell, MW Fedarko, G Rahman, D McDonald, Y Yang, T Zaw, ...
MSystems 6 (2), 10.1128/msystems. 01216-20, 2021
352021
Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity
C Martino, BP Kellman, DR Sandoval, TM Clausen, CA Marotz, SJ Song, ...
BioRxiv, 2020.08. 17.238444, 2020
352020
Food authentication from shotgun sequencing reads with an application on high protein powders
N Haiminen, S Edlund, D Chambliss, M Kunitomi, BC Weimer, B Ganesan, ...
NPJ science of food 3 (1), 24, 2019
342019
Functional profiling of COVID-19 respiratory tract microbiomes
N Haiminen, F Utro, E Seabolt, L Parida
Scientific Reports 11 (1), 6433, 2021
31*2021
Monitoring the microbiome for food safety and quality using deep shotgun sequencing
KL Beck, N Haiminen, D Chambliss, S Edlund, M Kunitomi, BC Huang, ...
npj Science of Food 5 (1), 3, 2021
292021
Randomization methods for assessing data analysis results on real‐valued matrices
M Ojala, N Vuokko, A Kallio, N Haiminen, H Mannila
Statistical Analysis and Data Mining: The ASA Data Science Journal 2 (4 …, 2009
282009
Comparing segmentations by applying randomization techniques
N Haiminen, H Mannila, E Terzi
BMC bioinformatics 8, 1-8, 2007
262007
DNA extraction and host depletion methods significantly impact and potentially bias bacterial detection in a biological fluid
E Ganda, KL Beck, N Haiminen, JD Silverman, B Kawas, BD Cronk, ...
Msystems 6 (3), 10.1128/msystems. 00619-21, 2021
242021
Randomization of real-valued matrices for assessing the significance of data mining results
M Ojala, N Vuokko, A Kallio, N Haiminen, H Mannila
Proceedings of the 2008 SIAM International Conference on Data Mining, 494-505, 2008
242008
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Artículos 1–20