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Lista de obras de Tero Aittokallio

A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines

artículo científico publicado en 2017

A Two-Step Learning Approach for Solving Full and Almost Full Cold Start Problems in Dyadic Prediction

article by Tapio Pahikkala et al published 2014 in Lecture Notes in Computer Science

A community effort to assess and improve drug sensitivity prediction algorithms.

artículo científico publicado en 2014

A comparative evaluation of software for the analysis of liquid chromatography-tandem mass spectrometry data from isotope coded affinity tag experiments

artículo científico publicado en 2005

A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer

artículo científico publicado en 2020

A human ImmunoChip cDNA microarray provides a comprehensive tool to study immune responses

article

A model of a snorer's upper airway

artículo científico publicado en 2001

A multilevel layout algorithm for visualizing physical and genetic interaction networks, with emphasis on their modular organization

artículo científico publicado en 2012

A normalized drug response metric improves accuracy and consistency of anticancer drug sensitivity quantification in cell-based screening

scientific article published on 23 January 2020

A normalized drug response metric improves accuracy and consistency of drug sensitivity quantification in cell-based screening

A practical comparison of methods for detecting transcription factor binding sites in ChIP-seq experiments

artículo científico publicado en 2009

A relational database to identify differentially expressed genes in the endometrium and endometriosis lesions

artículo científico publicado en 2020

A statistical score for assessing the quality of multiple sequence alignments

artículo científico publicado en 2006

Abstract 5588: Functional drug sensitivity and resistance profiling of AML patient cells defines a disease-specific combination of druggable signal addictions

Accumulated Metabolites of Hydroxybutyric Acid Serve as Diagnostic and Prognostic Biomarkers of Ovarian High-Grade Serous Carcinomas

artículo científico publicado en 2015

Adjustment of the human respiratory system to increased upper airway resistance during sleep

artículo científico publicado en 2002

Adrenals Contribute to Growth of Castration-Resistant VCaP Prostate Cancer Xenografts

Aggressive natural killer-cell leukemia mutational landscape and drug profiling highlight JAK-STAT signaling as therapeutic target.

artículo científico publicado en 2018

Alignment of LC-MS images, with applications to biomarker discovery and protein identification

artículos científicos

An immunity and pyroptosis gene-pair signature predicts overall survival in acute myeloid leukemia

artículo científico publicado en 2022

An update on clinical proteomics in Alzheimer's research

artículo científico publicado en 2009

Analysis of inspiratory flow shapes in patients with partial upper-airway obstruction during sleep

artículo científico publicado en 2001

Analysis of similarity of electrophoretic patterns in mRNA differential display.

artículo científico publicado en 2000

Antiandrogens Reduce Intratumoral Androgen Concentrations and Induce Androgen Receptor Expression in Castration-Resistant Prostate Cancer Xenografts

artículo científico publicado en 2017

Anticancer compound ABT-263 accelerates apoptosis in virus-infected cells and imbalances cytokine production and lowers survival rates of infected mice

scientific article published on 25 July 2013

Antiviral Properties of Chemical Inhibitors of Cellular Anti-Apoptotic Bcl-2 Proteins

artículo científico publicado en 2017

Automated detection of differently expressed fragments in mRNA differential display.

artículo científico publicado en 2001

Breeze: an integrated quality control and data analysis application for high-throughput drug screening

artículo científico publicado en 2020

C-SPADE: a web-tool for interactive analysis and visualization of drug screening experiments through compound-specific bioactivity dendrograms

artículo científico publicado en 2017

CIP2A Promotes T-Cell Activation and Immune Response to Listeria monocytogenes Infection

artículo científico publicado en 2016

Can carotid body perfusion act as a respiratory controller?

artículo científico publicado en 2007

Cancer stem cell drugs target K-ras signaling in a stemness context

scientific article published on 14 March 2016

Castration induces up-regulation of intratumoral androgen biosynthesis and androgen receptor expression in an orthotopic VCaP human prostate cancer xenograft model

artículo científico publicado en 2014

Chemogenomic Analysis of the Druggable Kinome and Its Application to Repositioning and Lead Identification Studies

artículo científico publicado en 2019

Chk1 targeting reactivates PP2A tumor suppressor activity in cancer cells

artículo científico publicado en 2013

Classification of nasal inspiratory flow shapes by attributed finite automata

artículo científico publicado en 1999

Climacteric vasomotor symptoms do not predict nocturnal breathing abnormalities in postmenopausal women

artículo científico publicado en 2001

Combined ASRGL1 and p53 immunohistochemistry as an independent predictor of survival in endometrioid endometrial carcinoma.

artículo científico publicado en 2018

Comparison of PDQuest and Progenesis software packages in the analysis of two-dimensional electrophoresis gels

artículo científico publicado en 2003

Comprehensive Drug Testing of Patient-derived Conditionally Reprogrammed Cells from Castration-resistant Prostate Cancer

artículo científico publicado en 2016

Computational-experimental approach to drug-target interaction mapping: A case study on kinase inhibitors.

artículo científico

Computer-assisted identification of multitrace electrophoretic patterns in differential display experiments.

artículo científico publicado en 2007

Consistency in drug response profiling

artículo científico publicado en 2016

Corrections: Reinstated p53 response and high anti-T-cell leukemia activity by the novel alkylating deacetylase inhibitor tinostamustine

artículo científico publicado en 2020

Cost-effective survival prediction for patients with advanced prostate cancer using clinical trial and real-world hospital registry datasets

scientific article published on 17 November 2019

Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis

artículo científico publicado en 2016

DNMT Inhibitors Increase Methylation in the Cancer Genome

scientific article published on 24 April 2019

Dealing with missing values in large-scale studies: microarray data imputation and beyond.

artículo científico publicado en 2009

Detection of high-frequency respiratory movements during sleep

artículo científico publicado en 2000

Discovery of novel drug sensitivities in T-PLL by high-throughput ex vivo drug testing and mutation profiling.

artículo científico publicado en 2017

Drug Target Commons 2.0: a community platform for systematic analysis of drug-target interaction profiles

Drug Target Commons: A Community Effort to Build a Consensus Knowledge Base for Drug-Target Interactions

artículo científico publicado en 2017

Drug response prediction by inferring pathway-response associations with kernelized Bayesian matrix factorization

artículo científico publicado en 2016

Drug-Sensitivity Screening and Genomic Characterization of 45 HPV-Negative Head and Neck Carcinoma Cell Lines for Novel Biomarkers of Drug Efficacy

scientific article published on 03 July 2018

Early metabolic markers identify potential targets for the prevention of type 2 diabetes

artículo científico

Early suppression of immune response pathways characterizes children with prediabetes in genome-wide gene expression profiling

article

Effect of medroxyprogesterone on inspiratory flow shapes during sleep in postmenopausal women

artículo científico publicado en 2003

Efficient estimation of emission probabilities in profile hidden Markov models

artículo científico publicado en 2003

Enhanced sensitivity to glucocorticoids in cytarabine-resistant AML

artículo científico publicado en 2016

Erratum: Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis

artículo científico publicado en 2016

Evaluation of statistical approaches for association testing in noisy drug screening data

scientific article published on 18 May 2022

Feature learning with a genetic algorithm for fluorescence fingerprinting of plant species

article

Filtering strategies for improving protein identification in high-throughput MS/MS studies

artículo científico publicado en 2009

From drug response profiling to target addiction scoring in cancer cell models

artículo científico publicado en 2015

GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring

artículo científico publicado en 2006

Genetic and functional implications of an exonic TRIM55 variant in heart failure

scientific article published on 19 December 2019

Genetic variants and their interactions in disease risk prediction - machine learning and network perspectives

artículo científico publicado en 2013

Genetic variants and their interactions in the prediction of increased pre-clinical carotid atherosclerosis: the cardiovascular risk in young Finns study

artículo científico publicado en 2010

Genome-wide off-targets of drugs: risks and opportunities

artículo científico publicado en 2019

Genome-wide profiling of interleukin-4 and STAT6 transcription factor regulation of human Th2 cell programming

artículo científico publicado en 2010

Genome-wide scoring of positive and negative epistasis through decomposition of quantitative genetic interaction fitness matrices

artículo científico publicado en 2010

Genoscape: a Cytoscape plug-in to automate the retrieval and integration of gene expression data and molecular networks

artículo científico publicado en 2009

Geometrical distortions in two-dimensional gels: applicable correction methods.

artículo científico publicado en 2005

Global proteomics profiling improves drug sensitivity prediction: results from a multi-omics, pan-cancer modeling approach.

artículo científico publicado en 2017

Graph-based methods for analysing networks in cell biology

artículo científico publicado en 2006

Hierarchical grid transformation for image warping in the analysis of two-dimensional electrophoresis gels

artículo científico publicado en 2002

Identification of drug candidates and repurposing opportunities through compound-target interaction networks

artículo científico

Identification of novel IL-4/Stat6-regulated genes in T lymphocytes.

artículo científico publicado en 2003

Identification of novel genes regulated by IL-12, IL-4, or TGF-beta during the early polarization of CD4+ lymphocytes

artículo científico publicado en 2003

Identification of selective cytotoxic and synthetic lethal drug responses in triple negative breast cancer cells.

artículo científico publicado en 2016

Immune cell contexture in the bone marrow tumor microenvironment impacts therapy response in CML

scholarly article by Oscar Brück et al published 20 June 2018 in Leukemia

Impact of normalization methods on high-throughput screening data with high hit rates and drug testing with dose-response data

artículo científico publicado en 2015

Improved detection of differentially represented DNA barcodes for high-throughput clonal phenomics

scientific article published on 01 March 2020

Improved statistical modeling of tumor growth and treatment effect in preclinical animal studies with highly heterogeneous responses in vivo

artículo científico publicado en 2012

Improving identification of differentially expressed genes by integrative analysis of Affymetrix and Illumina arrays.

artículo científico publicado en 2006

Improving missing value estimation in microarray data with gene ontology

artículo científico publicado en 2005

Improving the efficacy-safety balance of polypharmacology in multi-target drug discovery

artículo científico publicado en 2017

In Search of System-Wide Productivity Gains - The Role of Global Collaborations in Preclinical Translation.

artículo científico publicado en 2017

Individualized systems medicine strategy to tailor treatments for patients with chemorefractory acute myeloid leukemia.

artículo científico publicado en 2013

Inspiratory flow shape clustering: an automated method to monitor upper airway performance during sleep

artículo científico publicado en 2006

Integrated Analysis of Drug Sensitivity and Selectivity to Predict Synergistic Drug Combinations and Target Coaddictions in Cancer

artículo científico publicado en 2019

Integrating probe-level expression changes across generations of Affymetrix arrays

artículo científico publicado en 2005

Interactive visual analysis of drug-target interaction networks using Drug Target Profiler, with applications to precision medicine and drug repurposing

scientific article published on 18 December 2018

Intra-tissue steroid profiling indicates differential progesterone and testosterone metabolism in the endometrium and endometriosis lesions.

artículo científico publicado en 2014

JAK/STAT-Activating Genomic Alterations Are a Hallmark of T-PLL

scientific article published on 21 November 2019

JAK1/2 and BCL2 inhibitors synergize to counteract bone marrow stromal cell-induced protection of AML.

artículo científico publicado en 2017

Kinetics and STAT4- or STAT6-mediated regulation of genes involved in lymphocyte polarization to Th1 and Th2 cells.

artículo científico publicado en 2003

Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling.

artículo científico publicado en 2015

Learning with multiple pairwise kernels for drug bioactivity prediction.

artículo científico publicado en 2018

Leveraging multi-way interactions for systematic prediction of pre-clinical drug combination effects

artículo científico publicado en 2020

Liver lipid metabolism is altered by increased circulating estrogen to androgen ratio in male mouse

artículo científico publicado en 2015

Machine Learning of Bone Marrow Histopathology Identifies Genetic and Clinical Determinants in Patients with MDS

artículo científico publicado en 2021

Machine learning and feature selection for drug response prediction in precision oncology applications

scientific article published on 10 August 2018

Mahalanobis distance screening of Arabidopsis mutants with chlorophyll fluorescence

artículo científico publicado en 2010

Making sense of large-scale kinase inhibitor bioactivity data sets: a comparative and integrative analysis

artículo científico publicado en 2014

Matched preclinical designs for improved translatability

artículo científico publicado en 2017

MediSyn: uncertainty-aware visualization of multiple biomedical datasets to support drug treatment selection

artículo científico publicado en 2017

Medroxyprogesterone improves nocturnal breathing in postmenopausal women with chronic obstructive pulmonary disease

artículo científico publicado en 2005

Methods for High-throughput Drug Combination Screening and Synergy Scoring.

artículo científico publicado en 2018

MicroRNA-135b regulates ERα, AR and HIF1AN and affects breast and prostate cancer cell growth

artículo científico publicado en 2015

Mining high-throughput screens for cancer drug targets-lessons from yeast chemical-genomic profiling and synthetic lethality

Missing value imputation improves clustering and interpretation of gene expression microarray data

artículo científico publicado en 2008

Model-based analysis of mechanisms responsible for sleep-induced carbon dioxide differences.

artículo científico publicado en 2006

Model-based prediction of sequence alignment quality

artículo científico publicado en 2008

Modelling of killer T-cell and cancer cell subpopulation dynamics under immuno- and chemotherapies

artículo científico publicado en 2019

Module Finding Approaches for Protein Interaction Networks

Module Finding Approaches for Protein Interaction Networks

Multi-Omics Studies towards Novel Modulators of Influenza A Virus-Host Interaction

artículo científico publicado en 2016

Multi-modal meta-analysis of cancer cell line omics profiles identifies ECHDC1 as a novel breast tumor suppressor

artículo científico publicado en 2021

Multiobjective optimization identifies cancer-selective combination therapies

artículo científico publicado en 2020

Network pharmacology applications to map the unexplored target space and therapeutic potential of natural products

artículo científico

Network pharmacology modeling identifies synergistic Aurora B and ZAK interaction in triple-negative breast cancer

scientific article published on 08 July 2019

Nocturnal transcutaneous carbon dioxide tension in postmenopausal estrogen users and non-users

artículo científico publicado en 2009

Non-invasive respiratory monitoring during wakefulness and sleep in pre- and postmenopausal women

artículo científico publicado en 2005

Novel Lignan and stilbenoid mixture shows anticarcinogenic efficacy in preclinical PC-3M-luc2 prostate cancer model

artículo científico publicado en 2014

Novel Screening Method Identifies PI3Kα, mTOR, and IGF1R as Key Kinases Regulating Cardiomyocyte Survival

artículo científico publicado en 2019

Novel activities of safe-in-human broad-spectrum antiviral agents.

artículo científico publicado en 2018

Obatoclax, saliphenylhalamide, and gemcitabine inhibit influenza a virus infection

artículo científico publicado en 2012

Optimized design and analysis of preclinical intervention studies in vivo

artículo científico publicado en 2016

Optimized detection of differential expression in global profiling experiments: case studies in clinical transcriptomic and quantitative proteomic datasets

scientific article published on 23 June 2009

Optimized detection of transcription factor-binding sites in ChIP-seq experiments

artículo científico publicado en 2011

Orphan G protein-coupled receptor GPRC5A modulates integrin β1-mediated epithelial cell adhesion.

artículo científico publicado en 2016

Ovarian endometriosis signatures established through discovery and directed mass spectrometry analysis

artículo científico publicado en 2014

Overnight features of transcutaneous carbon dioxide measurement as predictors of metabolic status

artículo científico publicado en 2007

Overnight variability in transcutaneous carbon dioxide predicts vascular impairment in women

artículo científico publicado en 2008

PP2A inhibition is a druggable MEK inhibitor resistance mechanism in KRAS-mutant lung cancer cells

artículo científico publicado en 2018

Parallel Feature Selection for Regularized Least-Squares

article by Sebastian Okser et al published 2013 in Lecture Notes in Computer Science

Parameter estimation of a respiratory control model from noninvasive carbon dioxide measurements during sleep

artículo científico publicado en 2006

Patient-customized Drug Combination Prediction and Testing for T-cell Prolymphocytic Leukemia Patients.

artículo científico publicado en 2018

Pharmacological reactivation of MYC-dependent apoptosis induces susceptibility to anti-PD-1 immunotherapy

artículo científico publicado en 2019

Phenotypic Screening Combined with Machine Learning for Efficient Identification of Breast Cancer-Selective Therapeutic Targets

artículo científico publicado en 2019

PhosFox: a bioinformatics tool for peptide-level processing of LC-MS/MS-based phosphoproteomic data

artículo científico publicado en 2014

Phosphoproteomics combined with quantitative 14-3-3-affinity capture identifies SIRT1 and RAI as novel regulators of cytosolic double-stranded RNA recognition pathway.

artículo científico publicado en 2014

Phosphoproteomics to Characterize Host Response During Influenza A Virus Infection of Human Macrophages

artículo científico publicado en 2016

PolyAlign: A Versatile LC-MS Data Alignment Tool for Landmark-Selected and -Automated Use.

artículo científico publicado en 2011

Pravastatin-induced improvement in coronary reactivity and circulating ATP and ADP levels in young adults with type 1 diabetes

artículo científico publicado en 2012

Predicting drug-target interactions through integrative analysis of chemogenetic assays in yeast

artículo científico publicado en 2013

Predicting quantitative genetic interactions by means of sequential matrix approximation

artículo científico publicado en 2008

Prediction of drug combination effects with a minimal set of experiments

scientific article published on 09 December 2019

Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data

artículo científico publicado en 2016

Probabilistic analysis of probe reliability in differential gene expression studies with short oligonucleotide arrays

artículo científico publicado en 2011

Probe-level estimation improves the detection of differential splicing in Affymetrix exon array studies

artículo científico publicado en 2009

Publisher Correction: Pharmacological reactivation of MYC-dependent apoptosis induces susceptibility to anti-PD-1 immunotherapy

artículo científico publicado en 2019

Quality classification of tandem mass spectrometry data

artículo científico publicado en 2005

Quantitative maps of genetic interactions in yeast - comparative evaluation and integrative analysis

artículo científico publicado en 2011

Quantitative proteomics analysis of the nuclear fraction of human CD4+ cells in the early phases of IL-4-induced Th2 differentiation

artículo científico publicado en 2010

Quantitative scoring of differential drug sensitivity for individually optimized anticancer therapies

artículo científico publicado en 2014

Quantitative subcellular proteome and secretome profiling of influenza A virus-infected human primary macrophages

artículo científico publicado en 2011

RUNX1 mutations in blast-phase chronic myeloid leukemia associate with distinct phenotypes, transcriptional profiles, and drug responses

artículo científico publicado en 2020

Rapalogs can promote cancer cell stemness in vitro in a Galectin-1 and H-ras-dependent manner.

artículo científico publicado en 2017

Re: Fatemeh Seyednasrollah, Mehrad Mahmoudian, Liisa Rautakorpi, et al. How Reliable are Trial-based Prognostic Models in Real-world Patients with Metastatic Castration-resistant Prostate Cancer? Eur Urol. 2017;71:838-40.

artículo científico publicado en 2017

Regularized Machine Learning in the Genetic Prediction of Complex Traits

artículo científico publicado en 2014

Reinstated p53 response and high anti-T-cell leukemia activity by the novel alkylating deacetylase inhibitor tinostamustine

artículo científico publicado en 2020

Relevance Rank Platform (RRP) for Functional Filtering of High Content Protein-Protein Interaction Data.

artículo científico publicado en 2015

Reproducibility-optimized test statistic for ranking genes in microarray studies

artículo científico publicado en 2008

Resampling reveals sample-level differential expression in clinical genome-wide studies.

artículo científico publicado en 2009

Searching for Drug Synergy in Complex Dose-Response Landscapes Using an Interaction Potency Model

artículo científico

Secreted frizzled-related protein 2 (SFRP2) expression promotes lesion proliferation via canonical WNT signaling and indicates lesion borders in extraovarian endometriosis.

artículo científico publicado en 2018

Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells

artículo científico

Sleep quality, daytime sleepiness and fasting insulin levels in women with chronic obstructive pulmonary disease

artículo científico publicado en 2005

Specific cancer-associated mutations in the switch III region of Ras increase tumorigenicity by nanocluster augmentation.

artículo científico publicado en 2015

Statistical detection of quantitative protein biomarkers provides insights into signaling networks deregulated in acute myeloid leukemia.

artículo científico publicado en 2014

Susceptibility of low-density lipoprotein particles to aggregate depends on particle lipidome, is modifiable, and associates with future cardiovascular deaths

SynToxProfiler: An interactive analysis of drug combination synergy, toxicity and efficacy

artículo científico publicado en 2020

SynergyFinder 2.0: visual analytics of multi-drug combination synergies

scientific article published on 04 April 2020

SynergyFinder: a web application for analyzing drug combination dose-response matrix data

artículo científico publicado en 2017

Systematic Identification of MicroRNAs That Impact on Proliferation of Prostate Cancer Cells and Display Changed Expression in Tumor Tissue

artículo científico publicado en 2015

Systematic Mapping of Kinase Addiction Combinations in Breast Cancer Cells by Integrating Drug Sensitivity and Selectivity Profiles.

artículo científico publicado en 2015

Systematic construction of gene coexpression networks with applications to human T helper cell differentiation process

artículo científico publicado en 2007

Systematic drug screening reveals specific vulnerabilities and co-resistance patterns in endocrine-resistant breast cancer

artículo científico publicado en 2016

Systematic drug sensitivity testing reveals synergistic growth inhibition by dasatinib or mTOR inhibitors with paclitaxel in ovarian granulosa cell tumor cells

artículo científico publicado en 2017

Systematic identification of feature combinations for predicting drug response with Bayesian multi-view multi-task linear regression

artículo científico publicado en 2017

TIMMA-R: an R package for predicting synergistic multi-targeted drug combinations in cancer cell lines or patient-derived samples

artículo científico publicado en 2015

Target inhibition networks: predicting selective combinations of druggable targets to block cancer survival pathways

artículo científico publicado en 2013

Th1 response and cytotoxicity genes are down-regulated in cutaneous T-cell lymphoma

artículo científico publicado en 2006

The Hydroxysteroid (17β) Dehydrogenase Family Gene HSD17B12 Is Involved in the Prostaglandin Synthesis Pathway, the Ovarian Function, and Regulation of Fertility.

artículo científico publicado en 2016

The inconvenience of data of convenience: computational research beyond post-mortem analyses

artículo científico publicado en 2017

The rocky road to personalized medicine: computational and statistical challenges

Toward more realistic drug-target interaction predictions

artículo científico publicado en 2014

Transcriptional response networks for elucidating mechanisms of action of multitargeted agents

artículo científico publicado en 2016

Transcutaneous carbon dioxide profile during sleep reveals metabolic risk factors in post-menopausal females.

artículo científico publicado en 2009

UBR5 Is Coamplified with MYC in Breast Tumors and Encodes an Ubiquitin Ligase That Limits MYC-Dependent Apoptosis

artículo científico publicado en 2020

Understanding sleep-disordered breathing through mathematical modelling

artículo científico publicado en 2009

What is synergy? The Saariselkä agreement revisited

artículo científico publicado en 2015

Whole-genome view of the consequences of a population bottleneck using 2926 genome sequences from Finland and United Kingdom

artículo científico publicado en 2017

Wrapper-based selection of genetic features in genome-wide association studies through fast matrix operations

artículo científico publicado en 2012

ePCR: an R-package for survival and time-to-event prediction in advanced prostate cancer, applied to real-world patient cohorts

scientific article published in 2018

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