Jussi Taipale

发表

PeakXus: comprehensive transcription factor binding site discovery from ChIP-Nexus and ChIP-Exo experiments

Teemu Kivioja, Tuomo Hartonen, Biswajyoti Sahu, 2016, Bioinform..

Minimizing the risk of reporting false positives in large-scale RNAi screens

Nir Hacohen, Jan Ellenberg, Norbert Perrimon, 2006, Nature Methods.

MODER2: first-order Markov modeling and discovery of monomeric and dimeric binding motifs

Esko Ukkonen, Jussi Taipale, Jarkko Toivonen, 2020, Bioinform..

PeakXus: a comprehensive peak calling software for ChIP-Nexus and ChIP-exo

Teemu Kivioja, Tuomo Hartonen, Biswajyoti Sahu, 2016 .

Seed-driven Learning of Position Probability Matrices from Large Sequence Sets

Esko Ukkonen, Jussi Taipale, Jarkko Toivonen, 2017, WABI.

The interaction landscape between transcription factors and the nucleosome

Biswajyoti Sahu, Jussi Taipale, Patrick Cramer, 2018, Nature.

Fast motif matching revisited: high‐order PWMs, SNPs and indels

Esko Ukkonen, Janne H. Korhonen, Jussi Taipale, 2016, Bioinform..

Population-scale testing can suppress the spread of infectious disease

Ioannis Kontoyiannis, Jussi Taipale, Sten Linnarsson, 2021, 2104.06857.

CRISPR–Cas9 genome editing induces a p53-mediated DNA damage response

Jussi Taipale, Bernhard Schmierer, J. Taipale, 2018, Nature Medicine.

Counting absolute number of molecules using unique molecular identifiers

Jussi Taipale, Sten Linnarsson, Anna Vähärautio, 2011 .

Conservation of transcription factor binding specificities across 600 million years of bilateria evolution

Jussi Taipale, Bart Deplancke, Jarkko Toivonen, 2015, eLife.

Myt1l safeguards neuronal identity by actively repressing many non-neuronal fates

Thomas Vierbuchen, Thomas C. Südhof, Marius Wernig, 2017, Nature.

Medulloblastoma Growth Inhibition by Hedgehog Pathway Blockade

James M. Olson, Jussi Taipale, Michael K. Cooper, 2002, Science.

Multiparameter functional diversity of human C2H2 zinc finger proteins

Andrew Emili, Jussi Taipale, Timothy R Hughes, 2016, Genome research.

Characterization of the colorectal cancer-associated enhancer MYC-335 at 8q24: the role of rs67491583.

Sampsa Hautaniemi, Jussi Taipale, Daniel A Culver, 2012, Cancer genetics.

Structural insights into the DNA-binding specificity of E2F family transcription factors

Lennart Nilsson, Kashyap Dave, Jussi Taipale, 2015, Nature Communications.

KSHV Reactivation from Latency Requires Pim-1 and Pim-3 Kinases to Inactivate the Latency-Associated Nuclear Antigen LANA

Jussi Taipale, Markku Varjosalo, Thomas F. Schulz, 2009, PLoS pathogens.

The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling

Esko Ukkonen, Jussi Taipale, Mikko Turunen, 2009, Nature Genetics.

FGF receptor-4 (FGFR4) polymorphism acts as an activity switch of a membrane type 1 matrix metalloproteinase–FGFR4 complex

Jussi Taipale, Markku Varjosalo, K. Alitalo, 2010, Proceedings of the National Academy of Sciences.

Exome sequencing reveals frequent inactivating mutations in ARID1A, ARID1B, ARID2 and ARID4A in microsatellite unstable colorectal cancer

Esa Pitkänen, Jussi Taipale, Jukka-Pekka Mecklin, 2014, International journal of cancer.

Inhibition of Hedgehog signaling by direct binding of cyclopamine to Smoothened.

Jussi Taipale, Philip A Beachy, J. Taipale, 2002, Genes & development.

Cancer by super-enhancer

Jussi Taipale, Anna Vähärautio, J. Taipale, 2014, Science.

The non-coding variant rs1800734 enhances DCLK3 expression through long-range interaction and promotes colorectal cancer progression

Emmanouil T. Dermitzakis, Jussi Taipale, Tianran Peng, 2017, Nature Communications.

Growth factors in the extracellular matrix

Jussi Taipale, J. Taipale, J. Keski‐Oja, 1997, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

Locating potential enhancer elements by comparative genomics using the EEL software

Esko Ukkonen, Jussi Taipale, Kimmo Palin, 2006, Nature Protocols.

A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding

Kai Zhang, Matti Nykter, Fredrik Wiklund, 2014, Nature Genetics.

Gated Visual Input to the Central Auditory System

James M. Olson, Jussi Taipale, Michael K. Cooper, 2002 .

Human kinome analysis reveals novel kinases contributing to virus infection and retinoic-acid inducible gene I-induced type I and type III IFN gene expression

Jussi Taipale, Ilkka Julkunen, J. Taipale, 2013, Innate immunity.

Transcription factor PROX1 induces colon cancer progression by promoting the transition from benign to highly dysplastic phenotype.

Jussi Taipale, Guillermo Oliver, Caj Haglund, 2008, Cancer cell.

Deletion of Vascular Endothelial Growth Factor C (VEGF-C) and VEGF-D Is Not Equivalent to VEGF Receptor 3 Deletion in Mouse Embryos

Jussi Taipale, Steven A. Stacker, M. Karkkainen, 2008, Molecular and Cellular Biology.

Small molecule modulation of Smoothened activity

Jussi Taipale, J. Taipale, P. Beachy, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Application of Active and Kinase-Deficient Kinome Collection for Identification of Kinases Regulating Hedgehog Signaling

Sami Kilpinen, Jussi Taipale, Markku Varjosalo, 2008, Cell.

Loss of SUFU function in familial multiple meningioma.

Anssi Auvinen, Jussi Taipale, Yilong Li, 2012, American journal of human genetics.

Mutations in the Circadian Gene CLOCK in Colorectal Cancer

Sampsa Hautaniemi, Jussi Taipale, Mikko Turunen, 2010, Molecular Cancer Research.

Identification of pathways regulating cell size and cell-cycle progression by RNAi

Jussi Taipale, Markku Varjosalo, Juha Saharinen, 2006, Nature.

High-throughput assay for determining specificity and affinity of protein-DNA binding interactions

Jussi Taipale, Outi Hallikas, J. Taipale, 2006, Nature Protocols.

Hedgehog: functions and mechanisms.

Jussi Taipale, Markku Varjosalo, J. Taipale, 2008, Genes & development.

CTCF/cohesin-binding sites are frequently mutated in cancer

Niko Välimäki, Esa Pitkänen, Kashyap Dave, 2015, Nature Genetics.

Divergence of hedgehog signal transduction mechanism between Drosophila and mammals.

Jussi Taipale, Markku Varjosalo, J. Taipale, 2006, Developmental cell.