Antti Häkkinen

According to our database, Antti Häkkinen authored at least 21 papers between 2009 and 2021.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2021

PRISM: recovering cell-type-specific expression profiles from individual composite RNA-seq samples.

Antti Häkkinen, Kaiyang Zhang, Amjad Alkodsi, Noora Andersson, Erdogan Pekcan Erkan, Jun Dai, Katja Kaipio, Tarja Lamminen, Naziha Mansuri, Kaisa Huhtinen, Anna Vähärautio, Olli Carpén, Johanna Hynninen, Sakari Hietanen, Rainer Lehtonen, Sampsa Hautaniemi

Bioinform., 2021

Agile workflow for interactive analysis of mass cytometry data.

Julia Casado, Oskari Lehtonen, Ville Rantanen, Katja Kaipio, Luca Pasquini, Antti Häkkinen, Elenora Petrucci, Johanna Hynninen, Sakari Hietanen, Olli Carpén, Mauro Biffoni, Anniina Färkkilä, Sampsa Hautaniemi

Bioinform., 2021

Network-guided identification of cancer-selective combinatorial therapies in ovarian cancer.

Liye He, Daria Bulanova, Jaana Oikkonen, Antti Häkkinen, Kaiyang Zhang, Shuyu Zheng, Wenyu Wang, Erdogan Pekcan Erkan, Olli Carpén, Titta Joutsiniemi, Sakari Hietanen, Johanna Hynninen, Kaisa Huhtinen, Sampsa Hautaniemi, Anna Vähärautio, Jing Tang, Krister Wennerberg, Tero Aittokallio

Briefings Bioinform., 2021

2020

qSNE: quadratic rate t-SNE optimizer with automatic parameter tuning for large datasets.

Antti Häkkinen, Juha Koiranen, Julia Casado, Katja Kaipio, Oskari Lehtonen, Eleonora Petrucci, Johanna Hynninen, Sakari Hietanen, Olli Carpén, Luca Pasquini, Mauro Biffoni, Rainer Lehtonen, Sampsa Hautaniemi

Bioinform., 2020

2019

Anduril 2: upgraded large-scale data integration framework.

Alejandra Cervera, Ville Rantanen, Kristian Ovaska, Marko Laakso, Javier Nuñez-Fontarnau, Amjad Alkodsi, Julia Casado, Chiara Facciotto, Antti Häkkinen, Riku Louhimo, Sirkku Karinen, Kaiyang Zhang, Kari Lavikka, Lauri Lyly, Maninder Pal Singh, Sampsa Hautaniemi

Bioinform., 2019

2018

SCIP: a single-cell image processor toolbox.

Leonardo Martins, Ramakanth Neeli-Venkata, Samuel M. D. Oliveira, Antti Häkkinen, Andre S. Ribeiro, José M. Fonseca

Bioinform., 2018

Identifying differentially methylated sites in samples with varying tumor purity.

Antti Häkkinen, Amjad Alkodsi, Chiara Facciotto, Kaiyang Zhang, Katja Kaipio, Sirpa Leppä, Olli Carpén, Seija Grénman, Johanna Hynninen, Sakari Hietanen, Rainer Lehtonen, Sampsa Hautaniemi

Bioinform., 2018

2016

Temperature-Dependent Model of Multi-step Transcription Initiation in Escherichia coli Based on Live Single-Cell Measurements.

Samuel M. D. Oliveira, Antti Häkkinen, Jason Lloyd-Price, Huy Tran, Vinodh Kandavalli, Andre S. Ribeiro

PLoS Comput. Biol., 2016

Characterizing rate limiting steps in transcription from RNA production times in live cells.

Antti Häkkinen, Andre S. Ribeiro

Bioinform., 2016

2015

Estimation of GFP-tagged RNA numbers from temporal fluorescence intensity data.

Antti Häkkinen, Andre S. Ribeiro

Bioinform., 2015

2014

Estimation of fluorescence-tagged RNA numbers from spot intensities.

Antti Häkkinen, Meenakshisundaram Kandhavelu, Stefania Garasto, Andre S. Ribeiro

Bioinform., 2014

2013

Effects of multimerization on the temporal variability of protein complex abundance.

Antti Häkkinen, Huy Tran, Olli Yli-Harja, Brian P. Ingalls, Andre S. Ribeiro

BMC Syst. Biol., 2013

CellAging: a tool to study segregation and partitioning in division in cell lineages of <i>Escherichia coli</i>.

Antti Häkkinen, Anantha Barathi Muthukrishnan, André Mora, José Manuel Fonseca, Andre S. Ribeiro

Bioinform., 2013

2012

Effects of gene length on the dynamics of gene expression.

Andre S. Ribeiro, Antti Häkkinen, Jason Lloyd-Price

Comput. Biol. Chem., 2012

Evolving kinetics of gene expression in stochastic environments.

Antti Häkkinen, Andre S. Ribeiro

Comput. Biol. Chem., 2012

Detecting sequence dependent transcriptional pauses from RNA and protein number time series.

Frank Emmert-Streib, Antti Häkkinen, Andre S. Ribeiro

BMC Bioinform., 2012

2011

Evolutionary Dynamics of a Population of Cells with a Toxin Suppressor Gene.

Antti Häkkinen, Fred G. Biddle, Olli-Pekka Smolander, Olli Yli-Harja, Andre S. Ribeiro

Trans. Comp. Sys. Biology, 2011

In vivo kinetics of transcription initiation of the lar promoter in Escherichia coli. Evidence for a sequential mechanism with two rate-limiting steps.

Meenakshisundaram Kandhavelu, Henrik Mannerström, Abhishekh Gupta, Antti Häkkinen, Jason Lloyd-Price, Olli Yli-Harja, Andre S. Ribeiro

BMC Syst. Biol., 2011

2010

Effects of Transcriptional Pausing on Gene Expression Dynamics.

Tiina Rajala, Antti Häkkinen, Shannon Healy, Olli Yli-Harja, Andre S. Ribeiro

PLoS Comput. Biol., 2010

Dynamical effects of transcriptional pause-prone sites.

Andre S. Ribeiro, Antti Häkkinen, Shannon Healy, Olli Yli-Harja

Comput. Biol. Chem., 2010

2009

Delayed Stochastic Model of Transcription at the Single Nucleotide Level.

Andre S. Ribeiro, Olli-Pekka Smolander, Tiina Rajala, Antti Häkkinen, Olli Yli-Harja

J. Comput. Biol., 2009