Jakob Skou Pedersen - Publications, H-index & Citations

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Jakob Skou Pedersen

aarhus university

68H-index

269Paper Count

4.3WCitation Count

Published Papers 56

Publication Date

bayesReact: expression-coupled regulatory motif analysis detects microRNA activity across cancers, tissues, and at the single-cell level

Nucleic Acids Research

IF13.1

2026-02-27

PREAI

Rasmussen, Asta Mannstaedt; Bouchard-Cote, Alexandre; Pedersen, Jakob Skou

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LRP2 Expression in Melanoma Is Associated With a Transitory Cell State, Increased T Cell Infiltration, and Is Upregulated by IFNy Signaling

Pigment Cell & Melanoma Research

IF2.6

2025-09-05

OAAI

Martin Q. Rasmussen; Marie L. Bønnelykke-Behrndtz; Camilla Merrild; Ida Tvilling; Julie N. Christensen; Morten M. Nielsen; Jeanette B. Georgsen; Nina Naumann; Johann M. Gudbergsson; Anders Etzerodt; Jakob S. Pedersen; Russell W. Jenkins; Søren E. Degn; Søren K. Moestrup; Henrik Schmidt; Torben Steiniche; Mette Madsen

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circHIPK3 nucleates IGF2BP2 and functions as a competing endogenous RNA

ELIFE

IF0

2024-07-23

OAAI

Okholm, Trine Line Hauge; Kamstrup, Andreas Bjerregaard; Nielsen, Morten Muhlig; Hollensen, Anne Kruse; Graversgaard, Mette Laugesen; Sorensen, Matilde Helbo; Kristensen, Lasse Sommer; Vang, Soren; Park, Samuel S.; Yeo, Eugene; Dyrskjot, Lars; Kjems, Jorgen; Pedersen, Jakob Skou; Damgaard, Christian Kroun

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Exploring the tumor genomic landscape of aggressive prostate cancer by whole-genome sequencing of tissue or liquid biopsies

INTERNATIONAL JOURNAL OF CANCER

IF4.7

2024-04-11

OAAI

Weiss, Simone; Lamy, Philippe; Rusan, Maria; Norgaard, Maibritt; Ulhoi, Benedicte Parm; Knudsen, Michael; Kassentoft, Christine Gaasdal; Farajzadeh, Leila; Jensen, Jorgen Bjerggaard; Pedersen, Jakob Skou; Borre, Michael; Sorensen, Karina Dalsgaard

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Plasma cell-free DNA profiling for deciphering cellular origins and immune competence in cancer patients

CANCER RESEARCH

IF16.6

2024-03-22

PREAI

Andersen, Laura; Frydendahl, Amanda; Henriksen, Tenna Vesterman; Demuth, Christina; Rasmussen, Mads Heilskov; Nordentoft, Iver; Birkenkamp-Demtroder, Karin; Pedersen, Jakob Skou; Besenbacher, Soren; Dyrskjot, Lars; Andersen, Claus L.; Birkbak, Nicolai J.

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Sequence dependencies and mutation rates of localized mutational processes in cancer

GENOME MEDICINE

IF11.2

2023-08-17

OAAI

Poulsgaard, Gustav Alexander; Sorensen, Simon Grund; Juul, Randi Istrup; Nielsen, Morten Muhlig; Pedersen, Jakob Skou

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Circular stable intronic RNAs possess distinct biological features and are deregulated in bladder cancer

NAR CANCER

IF3.2

2023-08-07

OAAI

Rasmussen, Asta M.; Okholm, Trine Line H.; Knudsen, Michael; Vang, Soren; Dyrskjot, Lars; Hansen, Thomas B.; Pedersen, Jakob S.

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NOD1 mediates interleukin-18 processing in epithelial cells responding to Helicobacter pylori infection in mice

NATURE COMMUNICATIONS

IF15.7

2023-06-26

OAAI

Tran, L. S.; Ying, L.; D'Costa, K.; Wray-McCann, G.; Kerr, G.; Le, L.; Allison, C. C.; Ferrand, J.; Chaudhry, H.; Emery, J.; De Paoli, A.; Colon, N.; Creed, S.; Kaparakis-Liaskos, M.; Como, J.; Dowling, J. K.; Johanesen, P. A.; Kufer, T. A.; Pedersen, J. S.; Mansell, A.; Philpott, D. J.; Elgass, K. D.; Abud, H. E.; Nachbur, U.; Croker, B. A.; Masters, S. L.; Ferrero, R. L.

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DREAMS: deep read-level error model for sequencing data applied to low-frequency variant calling and circulating tumor DNA detection

GENOME BIOLOGY

IF9.4

2023-04-30

OAAI

Christensen, Mikkel H.; Drue, Simon O.; Rasmussen, Mads H.; Frydendahl, Amanda; Lyskjaer, Iben; Demuth, Christina; Nors, Jesper; Gotschalck, Kare A.; Iversen, Lene H.; Andersen, Claus L.; Pedersen, Jakob Skou

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Genome-Scale CRISPRa and CRISPRi screening for lncRNA drivers of prostate cancer progression

CANCER RESEARCH

IF16.6

2023-04-04

PREAI

Weiss, Simone; Lord, Allegra; Schmierer, Bernhard; Rovsing, Anne B.; Thomsen, Emil A.; Mikkelsen, Jacob G.; Ulhoi, Benedicte; Pedersen, Jakob S.; Borre, Michael; Sorensen, Karina D.

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Pan-cancer association of DNA repair deficiencies with whole-genome mutational patterns

ELIFE

IF0

2023-03-08

OAAI

Sorensen, Simon Grund; Shrikhande, Amruta; Poulsgaard, Gustav Alexander; Christensen, Mikkel Hovden; Bertl, Johanna; Laursen, Britt Elmedal; Hoffmann, Eva R.; Pedersen, Jakob Skou

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Pathway and network analysis of more than 2500 whole cancer genomes (vol 11, 729, 2020)

NATURE COMMUNICATIONS

IF15.7

2022-12-08

OAAI

Reyna, Matthew A.; Haan, David; Paczkowska, Marta; Verbeke, Lieven P. C.; Vazquez, Miguel; Kahraman, Abdullah; Pulido-Tamayo, Sergio; Barenboim, Jonathan; Wadi, Lina; Dhingra, Priyanka; Shrestha, Raunak; Getz, Gad; Lawrence, Michael S.; Pedersen, Jakob Skou; Rubin, Mark A.; Wheeler, David A.; Brunak, Sren; Izarzugaza, Jose M. G.; Khurana, Ekta; Marchal, Kathleen; von Mering, Christian; Sahinalp, S. Cenk; Valencia, Alfonso; Reimand, Jueri; Stuart, Joshua M.; Raphael, Benjamin J.

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Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis (vol 3, 56, 2020)

COMMUNICATIONS BIOLOGY

IF5.1

2022-12-08

OAAI

Carlevaro-Fita, Joana; Lanzos, Andres; Feuerbach, Lars; Hong, Chen; Mas-Ponte, David; Pedersen, Jakob Skou; Abascal, Federico; Johnson, Rory; Aaltonen, Lauri A.; Larsson, Erik

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Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis (vol 11, 4858, 2020)

NATURE COMMUNICATIONS

IF15.7

2022-04-04

OAAI

Taber, Ann; Christensen, Emil; Lamy, Philippe; Nordentoft, Iver; Prip, Frederik; Lindskrog, Sia Viborg; Birkenkamp-Demtroder, Karin; Okholm, Trine Line Hauge; Knudsen, Michael; Pedersen, Jakob Skou; Steiniche, Torben; Agerbaek, Mads; Jensen, Jorgen Bjerggaard; Dyrskjot, Lars

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The transcriptional landscape and biomarker potential of circular RNAs in prostate cancer

GENOME MEDICINE

IF11.2

2022-01-25

OAAI

Hansen, Emma Bollmann; Fredsoe, Jacob; Okholm, Trine Line Hauge; Ulhoi, Benedicte Parm; Klingenberg, Soren; Jensen, Jorgen Bjerggaard; Kjems, Jorgen; Bouchelouche, Kirsten; Borre, Michael; Damgaard, Christian Kroun; Pedersen, Jakob Skou; Kristensen, Lasse Sommer; Sorensen, Karina Dalsgaard

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Error Characterization and Statistical Modeling Improves Circulating Tumor DNA Detection by Droplet Digital PCR

CLINICAL CHEMISTRY

IF6.3

2022-01-14

OAAI

Henriksen, Tenna, V; Drue, Simon O.; Frydendahl, Amanda; Demuth, Christina; Rasmussen, Mads H.; Reinert, Thomas; Pedersen, Jakob S.; Andersen, Claus L.

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miRNA activity inferred from single cell mRNA expression

SCIENTIFIC REPORTS

IF3.9

2021-04-28

OAAI

Nielsen, Morten Muhlig; Pedersen, Jakob Skou

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Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression

GENOME MEDICINE

IF11.2

2020-12-07

121

OAAI

Okholm, Trine Line Hauge; Sathe, Shashank; Park, Samuel S.; Kamstrup, Andreas Bjerregaard; Rasmussen, Asta Mannstaedt; Shankar, Archana; Chua, Zong Ming; Fristrup, Niels; Nielsen, Morten Muhlig; Vang, Soren; Dyrskjot, Lars; Aigner, Stefan; Damgaard, Christian Kroun; Yeo, Gene W.; Pedersen, Jakob Skou

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Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis

NATURE COMMUNICATIONS

IF15.7

2020-09-25

137

OAAI

Taber, Ann; Christensen, Emil; Lamy, Philippe; Nordentoft, Iver; Prip, Frederik; Lindskrog, Sia Viborg; Birkenkamp-Demtroeder, Karin; Okholm, Trine Line Hauge; Knudsen, Michael; Pedersen, Jakob Skou; Steiniche, Torben; Agerbaek, Mads; Jensen, Jorgen Bjerggaard; Dyrskjot, Lars

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Pathway and network analysis of more than 2500 whole cancer genomes

NATURE COMMUNICATIONS

IF15.7

2020-02-05

OAAI

Reyna, Matthew A.; Haan, David; Paczkowska, Marta; Verbeke, Lieven P. C.; Vazquez, Miguel; Kahraman, Abdullah; Pulido-Tamayo, Sergio; Barenboim, Jonathan; Wadi, Lina; Dhingra, Priyanka; Shrestha, Raunak; Getz, Gad; Lawrence, Michael S.; Pedersen, Jakob Skou; Rubin, Mark A.; Wheeler, David A.; Brunak, Soren; Izarzugaza, Jose M. G.; Khurana, Ekta; Marchal, Kathleen; von Mering, Christian; Sahinalp, S. Cenk; Valencia, Alfonso; Reimand, Juri; Stuart, Joshua M.; Raphael, Benjamin J.

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Research Directions