methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles A Akalin, M Kormaksson, S Li, FE Garrett-Bakelman, ME Figueroa, ... Genome biology 13, 1-9, 2012 | 1821 | 2012 |
An atlas of combinatorial transcriptional regulation in mouse and man T Ravasi, H Suzuki, CV Cannistraci, S Katayama, VB Bajic, K Tan, ... Cell 140 (5), 744-752, 2010 | 841 | 2010 |
Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation T Baubec, DF Colombo, C Wirbelauer, J Schmidt, L Burger, AR Krebs, ... Nature 520 (7546), 243-247, 2015 | 703 | 2015 |
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line Nature genetics 41 (5), 553-562, 2009 | 420 | 2009 |
Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates H Kikuta, M Laplante, P Navratilova, AZ Komisarczuk, PG Engström, ... Genome research 17 (5), 545-555, 2007 | 393 | 2007 |
Complex loci in human and mouse genomes PG Engström, H Suzuki, N Ninomiya, A Akalin, L Sessa, G Lavorgna, ... PLoS genetics 2 (4), e47, 2006 | 354 | 2006 |
Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages K Schroder, KM Irvine, MS Taylor, NJ Bokil, KA Le Cao, KA Masterman, ... Proceedings of the National Academy of Sciences 109 (16), E944-E953, 2012 | 340 | 2012 |
Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia A Akalin, FE Garrett-Bakelman, M Kormaksson, J Busuttil, L Zhang, ... PLoS genetics 8 (6), e1002781, 2012 | 337 | 2012 |
DNA Hydroxymethylation Profiling Reveals that WT1 Mutations Result in Loss of TET2 Function in Acute Myeloid Leukemia R Rampal, A Akalin, J Madzo, A Vasanthakumar, E Pronier, J Patel, Y Li, ... Cell Reports, 2014 | 308 | 2014 |
Genomation: a toolkit to summarize, annotate and visualize genomic intervals A Akalin, V Franke, K Vlahoviček, CE Mason, D Schübeler Bioinformatics 31 (7), 1127-1129, 2015 | 270 | 2015 |
RNA localization is a key determinant of neurite-enriched proteome A Zappulo, D Van Den Bruck, C Ciolli Mattioli, V Franke, K Imami, ... Nature communications 8 (1), 583, 2017 | 202 | 2017 |
Two independent transcription initiation codes overlap on vertebrate core promoters V Haberle, N Li, Y Hadzhiev, C Plessy, C Previti, C Nepal, J Gehrig, ... Nature 507 (7492), 381-385, 2014 | 199 | 2014 |
Zebrafish enhancer detection (ZED) vector: A new tool to facilitate transgenesis and the functional analysis of cis‐regulatory regions in zebrafish J Bessa, JJ Tena, E de la Calle‐Mustienes, A Fernández‐Miñán, ... Developmental dynamics: an official publication of the American Association …, 2009 | 191 | 2009 |
Induction of sarcomas by mutant IDH2 C Lu, S Venneti, A Akalin, F Fang, PS Ward, RG DeMatteo, AM Intlekofer, ... Genes & development 27 (18), 1986-1998, 2013 | 183 | 2013 |
Transcriptomic profiling of SARS-CoV-2 infected human cell lines identifies HSP90 as target for COVID-19 therapy E Wyler, K Mösbauer, V Franke, A Diag, LT Gottula, R Arsiè, F Klironomos, ... IScience 24 (3), 2021 | 179 | 2021 |
Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cells M Kim, V Franke, B Brandt, ED Lowenstein, V Schöwel, S Spuler, A Akalin, ... Nature communications 11 (1), 6375, 2020 | 163 | 2020 |
Strategies for analyzing bisulfite sequencing data K Wreczycka, A Gosdschan, D Yusuf, B Grüning, Y Assenov, A Akalin Journal of biotechnology 261, 105-115, 2017 | 158 | 2017 |
Functional annotation of human long noncoding RNAs via molecular phenotyping JA Ramilowski, CW Yip, S Agrawal, JC Chang, Y Ciani, IV Kulakovskiy, ... Genome research 30 (7), 1060-1072, 2020 | 140 | 2020 |
Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis C Nepal, Y Hadzhiev, C Previti, V Haberle, N Li, H Takahashi, ... Genome research 23 (11), 1938-1950, 2013 | 135 | 2013 |
DoRiNA 2.0—upgrading the doRiNA database of RNA interactions in post-transcriptional regulation K Blin, C Dieterich, R Wurmus, N Rajewsky, M Landthaler, A Akalin Nucleic acids research 43 (D1), D160-D167, 2015 | 134 | 2015 |