Article

Inference of chromosome 3D structures from GAM data by a physics computational approach.
Fiorillo, L., Bianco, S., Chiariello, A.M., Barbieri, M., Esposito, A., Annunziatella, C., Conte, M. ORCID: https://orcid.org/0000-0002-6670-9800, Corrado, A., Prisco, A., Pombo, A. ORCID: https://orcid.org/0000-0002-7493-6288 and Nicodemi, M. ORCID: https://orcid.org/0000-0002-8416-6416
Methods 181-182 : 70-79. 1 October 2020

Studying ribosome dynamics with simplified models.
Levi, M., Noel, J.K. ORCID: https://orcid.org/0000-0003-3168-6036 and Whitford, P.C.
Methods 162-163 : 128-140. 1 June 2019

Genome-wide analysis of RNA and protein localization and local translation in mESC-derived neurons.
Ludwik, K.A. ORCID: https://orcid.org/0000-0002-9436-7270, von Kuegelgen, N. ORCID: https://orcid.org/0000-0001-8116-9032 and Chekulaeva, M. ORCID: https://orcid.org/0000-0002-6868-7887
Methods 162-163 : 31-41. June 2019

Molecular Dynamics simulations of the Strings and Binders Switch Model of chromatin.
Annunziatella, C., Chiariello, A.M. ORCID: https://orcid.org/0000-0002-6112-0167, Esposito, A. ORCID: https://orcid.org/0000-0002-5903-8439, Bianco, S. ORCID: https://orcid.org/0000-0001-5819-060X, Fiorillo, L. and Nicodemi, M. ORCID: https://orcid.org/0000-0002-8416-6416
Methods 142 : 81-88. 1 June 2018

mRNA interactome capture in mammalian cells.
Kastelic, N. and Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734
Methods 126 : 38-43. 15 August 2017

Gene editing in mouse zygotes using the CRISPR/Cas9 system.
Wefers, B., Bashir, S. ORCID: https://orcid.org/0000-0002-1281-8710, Rossius, J. ORCID: https://orcid.org/0009-0000-6011-9714 and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Methods 121-122 : 55-67. 15 May 2017

Gene editing and clonal isolation of human induced pluripotent stem cells using CRISPR/Cas9.
Yumlu, S., Stumm, J., Bashir, S. ORCID: https://orcid.org/0000-0002-1281-8710, Dreyer, A.K. ORCID: https://orcid.org/0000-0001-6586-9282, Lisowski, P. ORCID: https://orcid.org/0000-0002-3634-1072, Danner, E. ORCID: https://orcid.org/0000-0003-3277-5727 and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Methods 121-122 : 29-44. 15 May 2017

In silico methods for co-transcriptional RNA secondary structure prediction and for investigating alternative RNA structure expression.
Meyer, I.M. ORCID: https://orcid.org/0000-0002-4048-3479
Methods 120 : 3-16. 1 May 2017

Assessment of curated phenotype mining in neuropsychiatric disorder literature.
Fontaine, J.F. ORCID: https://orcid.org/0000-0002-1101-4091, Priller, J., Spruth, E., Perez-Iratxeta, C. and Andrade-Navarro, M.A. ORCID: https://orcid.org/0000-0001-6650-1711
Methods 74 : 90-96. March 2015

Generation of targeted mouse mutants by embryo microinjection of TALENs.
Wefers, B., Ortiz, O., Wurst, W. and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Methods 69 (1): 94-101. 15 August 2014

Bioimage informatics in the context of drosophila research.
Jug, F., Pietzsch, T., Preibisch, S. ORCID: https://orcid.org/0000-0002-0276-494X and Tomancak, P.
Methods 68 (1): 60-73. 15 June 2014

iCLIP: protein-RNA interactions at nucleotide resolution.
Huppertz, I., Attig, J., D'Ambrogio, A., Easton, L.E., Sibley, C.R., Sugimoto, Y. ORCID: https://orcid.org/0000-0003-1646-7679, Tajnik, M., König, J. and Ule, J.
Methods 65 (3): 274-87. February 2014

High-resolution profiling of protein occupancy on polyadenylated RNA transcripts.
Munschauer, M. ORCID: https://orcid.org/0000-0001-6143-4548, Schueler, M., Dieterich, C. ORCID: https://orcid.org/0000-0001-9468-6311 and Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734
Methods 65 (3): 302-309. February 2014

Constitutive and conditional RNAi transgenesis in mice.
Kleinhammer, A., Wurst, W. and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Methods 53 (4): 430-436. April 2011

Vigilant vectors: adeno-associated virus with a biosensor to switch on amplified therapeutic genes in specific tissues in life-threatening diseases.
Tang, Y., Schmitt-Ott, K., Qian, K., Kagiyama, S. and Phillips, M.I.
Methods 28 (2): 259-266. October 2002

Review

Analyzing protein-protein interactions by quantitative mass spectrometry.
Paul, F.E. ORCID: https://orcid.org/0000-0001-5181-3122, Hosp, F. and Selbach, M. ORCID: https://orcid.org/0000-0003-2454-8751
Methods 54 (4): 387-395. August 2011

Sleeping Beauty transposon mutagenesis of the rat genome in spermatogonial stem cells.
Ivics, Z. ORCID: https://orcid.org/0000-0002-7803-6658, Izsvak, Z. ORCID: https://orcid.org/0000-0002-2053-2384, Chapman, K.M. and Hamra, F.K.
Methods 53 (4): 356-365. April 2011

Conditional RNAi in mice.
Kleinhammer, A., Deussing, J., Wurst, W. and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Methods 53 (2): 142-150. February 2011

Evaluation of the LightCycler 1536 Instrument for high-throughput quantitative real-time PCR.
Schlesinger, J. ORCID: https://orcid.org/0009-0005-5310-9717, Toenjes, M., Schueler, M., Zhang, Q., Dunkel, I. and Sperling, S.R. ORCID: https://orcid.org/0000-0002-7135-3298
Methods 50 (4): S19-S22. April 2010

Efficient stable gene transfer into human cells by Sleeping Beauty transposon vectors.
Izsvak, Z. ORCID: https://orcid.org/0000-0002-2053-2384, Chuah, M.K., VandenDriessche, T. and Ivics, Z. ORCID: https://orcid.org/0000-0002-7803-6658
Methods 49 (3): 287-297. November 2009

Editorial

Editing and investigating genomes with TALE and CRISPR/Cas systems: Genome engineering across species using TALENs.
Kuehn, R. ORCID: https://orcid.org/0000-0003-1694-9803 and Wefers, B.
Methods 69 (1): 1. 15 August 2014