Xiang, X., Zhao, X., Pan, X., Dong, Z., Yu, J., Li, S., Liang, X., Han, P.
, Qu, K., Jensen, J. B.
, Farup, J., Wang, F., Petersen, T. S., Bolund, L., Teng, H., Lin, L.
& Luo, Y. (2021).
Efficient correction of Duchenne muscular dystrophy mutations by SpCas9 and dual gRNAs.
Molecular Therapy - Nucleic Acids,
24, 403-415.
https://doi.org/10.1016/j.omtn.2021.03.005
Zhou, T.
, Cömert, C., Zhou, X., Lin, L., Bolund, L., Palmfeldt, J., Tong, G.
, Luo, Y. & Bross, P. (2021).
Energy metabolism adaptations and gene expression reprogramming in a cellular MAFLD model.
https://doi.org/10.1101/2021.11.08.467719
Xiang, X., Corsi, G. I., Anthon, C., Qu, K., Pan, X., Liang, X., Han, P., Dong, Z., Liu, L., Zhong, J., Ma, T., Wang, J., Zhang, X., Jiang, H., Xu, F., Liu, X., Xu, X., Wang, J., Yang, H.
... Luo, Y. (2021).
Enhancing CRISPR-Cas9 gRNA efficiency prediction by data integration and deep learning.
Nature Communications,
12(1), Article 3238.
https://doi.org/10.1038/s41467-021-23576-0
Farup, J., Just, J., de Paoli, F., Lin, L., Jensen, J. B., Billeskov, T., Roman, I. S.
, Cömert, C., Møller, A. B., Madaro, L., Groppa, E., Fred, R. G.
, Kampmann, U., Gormsen, L. C., Pedersen, S. B., Bross, P., Stevnsner, T., Eldrup, N., Pers, T. H.
... Jessen, N. (2021).
Human skeletal muscle CD90+ fibro-adipogenic progenitors are associated with muscle degeneration in type 2 diabetic patients.
Cell Metabolism,
33(11), 2201-2214.e10.
https://doi.org/10.1016/j.cmet.2021.10.001
Andersen, O. M., Bøgh, N., Landau, A., Pløen, G. G., Jensen, A. M. G., Monti, G., Ulhøi, B. P.
, Nyengaard, J. R., Jacobsen, K. R.
, Jørgensen, M. M., Holm, I. E., Kristensen, M. L.
, Søvsø Szocska Hansen, E., Teunissen, C. E., Breidenbach, L., Droescher, M., Liu, Y., Pedersen, H. S.
, Callesen, H. ... Sørensen, C. B. (2021).
In vivo evidence that SORL1, encoding the endosomal recycling receptor SORLA, can function as a causal gene in Alzheimer´s Disease.
http://biorxiv.org/content/early/2021/07/13/2021.07.13.452149
Dumas, S. J., Meta, E., Borri, M.
, Luo, Y., Li, X., Rabelink, T. J.
& Carmeliet, P. (2021).
Phenotypic diversity and metabolic specialization of renal endothelial cells.
Nature Reviews. Nephrology,
17(7), 441-464.
https://doi.org/10.1038/s41581-021-00411-9
Zheng, T., Huang, J., Xiang, X., Li, S., Yu, J., Qu, K., Xu, Z., Han, P., Dong, Z., Liu, Y., Xu, F., Yang, H., Jäättelä, M.
, Luo, Y. & Liu, B. (2021).
Systematical analysis reveals a strong cancer relevance of CREB1-regulated genes.
Cancer Cell International,
21(1), Article 530.
https://doi.org/10.1186/s12935-021-02224-z
Berthelsen, M. F., Riedel, M.
, Cai, H., Skaarup, S. H., Alstrup, A. K. O., Dagnæs-Hansen, F.
, Luo, Y., Jensen, U. B., Hager, H., Liu, Y.
, Callesen, H., Vendelbo, M. H., Jakobsen, J. E.
& Thomsen, M. K. (2021).
The CRISPR/Cas9 Minipig—A Transgenic Minipig to Produce Specific Mutations in Designated Tissues.
Cancers,
13(12), Article 3024.
https://doi.org/10.3390/cancers13123024
Zhang, C., Li, C., Yang, L., Leng, L., Jovic, D., Wang, J., Fang, F., Li, G., Zhao, D., Li, X.
, Lin, L., Luo, Y., Bolund, L., Huang, J., Lin, G. & Xu, F. (2021).
The Dynamic Changes of Transcription Factors During the Development Processes of Human Biparental and Uniparental Embryos.
Frontiers in Cell and Developmental Biology,
9, Article 709498.
https://doi.org/10.3389/fcell.2021.709498
Teuwen, L. A., De Rooij, L. P. M. H., Cuypers, A., Rohlenova, K., Dumas, S. J., García-Caballero, M., Meta, E., Amersfoort, J., Taverna, F., Becker, L. M., Veiga, N., Cantelmo, A. R., Geldhof, V., Conchinha, N. V.
, Kalucka, J., Treps, L., Conradi, L. C., Khan, S., Karakach, T. K.
... Carmeliet, P. (2021).
Tumor vessel co-option probed by single-cell analysis.
Cell Reports,
35(11), Article 109253.
https://doi.org/10.1016/j.celrep.2021.109253
Arslanova, A., Shafaattalab, S., Ye, K., Asghari, P., Lin, L., Kim, B. R., Roston, T. M., Hove-Madsen, L., Van Petegem, F., Sanatani, S., Moore, E., Lynn, F., Søndergaard, M.
, Luo, Y., Chen, S. R. W. & Tibbits, G. F. (2021).
Using hiPSC-CMs to Examine Mechanisms of Catecholaminergic Polymorphic Ventricular Tachycardia.
Current Protocols,
1(12), Article e320.
https://doi.org/10.1002/cpz1.320
Sjöstedt, E., Zhong, W., Fagerberg, L., Karlsson, M., Mitsios, N., Adori, C., Oksvold, P., Edfors, F., Limiszewska, A., Hikmet, F., Huang, J., Du, Y.
, Lin, L., Dong, Z., Yang, L., Liu, X., Jiang, H., Xu, X., Wang, J. ... Mulder, J. (2020).
An atlas of the protein-coding genes in the human, pig, and mouse brain.
Science,
367(6482), Article 5947.
https://doi.org/10.1126/science.aay5947
Goveia, J., Rohlenova, K., Taverna, F., Treps, L., Conradi, L.-C., Pircher, A., Geldhof, V., de Rooij, L. P. M. H.
, Kalucka, J., Sokol, L., García-Caballero, M., Zheng, Y., Qian, J., Teuwen, L.-A., Khan, S., Boeckx, B., Wauters, E., Decaluwé, H., De Leyn, P.
... Carmeliet, P. (2020).
An Integrated Gene Expression Landscape Profiling Approach to Identify Lung Tumor Endothelial Cell Heterogeneity and Angiogenic Candidates.
Cancer Cell,
37(1), 21-36.e13.
https://doi.org/10.1016/j.ccell.2019.12.001
Goveia, J., Rohlenova, K., Taverna, F., Treps, L., Conradi, L.-C., Pircher, A., Geldhof, V., de Rooij, L. P. M. H.
, Kalucka, J., Sokol, L., Garcia-Caballero, M., Zheng, Y., Qian, J., Teuwen, L.-A., Khan, S., Boeckx, B., Wauters, E., Decaluwe, H., De Leyn, P.
... Carmeliet, P. (2020).
An Integrated Gene Expression Landscape Profiling Approach to Identify Lung Tumor Endothelial Cell Heterogeneity and Angiogenic Candidates (vol 37, pg 21.e1, 2020).
Cancer Cell,
37(3), 421-421.
https://doi.org/10.1016/j.ccell.2020.03.002
Olagnier, D., Farahani, E., Thyrsted, J., Blay-Cadanet, J., Herengt, A., Idorn, M., Hait, A., Hernaez, B.
, Knudsen, A., Iversen, M. B., Schilling, M.
, Jørgensen, S. E., Thomsen, M.
, Reinert, L. S., Lappe, M., Hoang, H.-D., Gilchrist, V. H.
, Hansen, A. L., Ottosen, R.
... Holm, C. K. (2020).
Author Correction: SARS-CoV2-mediated suppression of NRF2-signaling reveals potent antiviral and anti-inflammatory activity of 4-octyl-itaconate and dimethyl fumarate.
Nature Communications,
11(1), Article 5419.
https://doi.org/10.1038/s41467-020-19363-y
Feng, L., Chao, J., Tian, E., Li, L., Ye, P., Zhang, M., Chen, X., Cui, Q., Sun, G., Zhou, T., Felix, G., Qin, Y., Li, W., Meza, E. D., Klein, J., Ghoda, L., Hu, W.
, Luo, Y., Dang, W. ... Shi, Y. (2020).
Cell-Based Therapy for Canavan Disease Using Human iPSC-Derived NPCs and OPCs.
Advanced Science,
7(23), Article 2002155.
https://doi.org/10.1002/advs.202002155
Larsen, M. T.
, Mandrup, O. A., Schelde, K. K.
, Luo, Y., Sørensen, K. D., Dagnæs-Hansen, F., Cameron, J.
, Stougaard, M., Steiniche, T. & Howard, K. A. (2020).
FcRn overexpression in human cancer drives albumin recycling and cell growth: a mechanistic basis for exploitation in targeted albumin-drug designs.
Journal of Controlled Release,
322, 53-63.
https://doi.org/10.1016/j.jconrel.2020.03.004
Luo, L.
, Zhou, Y., Zhang, C., Huang, J., Du, J., Liao, J., Bergholt, N. L., Bünger, C., Xu, F.
, Lin, L., Tong, G., Zhou, G.
& Luo, Y. (2020).
Feeder-free generation and transcriptome characterization of functional mesenchymal stromal cells from human pluripotent stem cells.
Stem Cell Research,
48, Article 101990.
https://doi.org/10.1016/j.scr.2020.101990
Wang, J., Xiang, X.
, Bolund, L., Zhang, X., Cheng, L.
& Luo, Y. (2020).
GNL-Scorer: A generalized model for predicting CRISPR on-target activity by machine learning and featurization.
Molecular and Cellular Biology,
12(11), 909-911.
https://doi.org/10.1093/jmcb/mjz116
Yu, J., Xiang, X., Huang, J., Liang, X., Pan, X., Dong, Z.
, Petersen, T. S., Qu, K., Yang, L., Zhao, X., Li, S., Zheng, T., Xu, Z., Liu, C., Han, P., Xu, F., Yang, H., Liu, X., Zhang, X.
... Lin, L. (2020).
Haplotyping by CRISPR-mediated DNA circularization (CRISPR-hapC) broadens allele-specific gene editing.
Nucleic Acids Research,
48(5), Article e25.
https://doi.org/10.1093/nar/gkz1233
Björkman, A., Johansen, S. L.
, Lin, L., Schertzer, M., Kanellis, D. C., Katsori, A.-M., Christensen, S. T.
, Luo, Y., Andersen, J. S., Elsässer, S. J., Londono-Vallejo, A., Bartek, J. & Schou, K. B. (2020).
Human RTEL1 associates with Poldip3 to facilitate responses to replication stress and R-loop resolution.
Genes & Development,
34(15-16), 1065-1074.
https://doi.org/10.1101/gad.330050.119
Han, P., Wei, G., Cai, K., Xiang, X., Deng, W. P., Li, Y. B., Kuang, S., Dong, Z., Zheng, T.
, Luo, Y., Liu, J., Guan, Y., Li, C., Dey, S. K., Liao, Z. & Banerjee, S. (2020).
Identification and functional characterization of mutations in LPL gene causing severe hypertriglyceridaemia and acute pancreatitis.
Journal of Cellular and Molecular Medicine (Online),
24(2), 1286-1299.
https://doi.org/10.1111/jcmm.14768
Thomsen, E. A., Rovsing, A. B., Anderson, M. V., Due, H., Huang, J.
, Luo, Y., Dybkaer, K.
& Mikkelsen, J. G. (2020).
Identification of BLNK and BTK as mediators of rituximab-induced programmed cell death by CRISPR screens in GCB-subtype diffuse large B-cell lymphoma.
Molecular Oncology,
14(9), 1978-1997.
https://doi.org/10.1002/1878-0261.12753
Liu, T., Li, J., Dou, H., Xiang, X., Chen, W., Zhang, T., Li, L., Zhang, X., Dong, X., Chen, L., Lin, X., Li, J., Sun, H.-X., Gu, Y.
& Lin, L. (2020).
Low-Concentration Essential Amino Acids in PZM-3 Improve the Developmental Competence of Porcine Embryos Produced by Handmade Cloning.
Cellular reprogramming,
22(6), 282-290.
https://doi.org/10.1089/cell.2020.0036
Nelson, S. R., Zhang, C., Roche, S., O'Neill, F., Swan, N.
, Luo, Y., Larkin, A., Crown, J. & Walsh, N. (2020).
Modelling of pancreatic cancer biology: transcriptomic signature for 3D PDX-derived organoids and primary cell line organoid development.
Scientific Reports,
10(1), Article 2778.
https://doi.org/10.1038/s41598-020-59368-7
Olagnier, D., Farahani, E., Thyrsted, J., Blay-Cadanet, J., Herengt, A., Idorn, M., Hait, A., Hernaez, B.
, Knudsen, A., Iversen, M. B., Schilling, M.
, Jørgensen, S. E., Thomsen, M.
, Reinert, L. S., Lappe, M., Hoang, H.-D., Gilchrist, V. H.
, Hansen, A. L., Ottosen, R.
... Holm, C. K. (2020).
SARS-CoV2-mediated suppression of NRF2-signaling reveals potent antiviral and anti-inflammatory activity of 4-octyl-itaconate and dimethyl fumarate.
Nature Communications,
11(1), Article 4938.
https://doi.org/10.1038/s41467-020-18764-3
Rohlenova, K., Goveia, J., García-Caballero, M., Subramanian, A.
, Kalucka, J., Treps, L., Falkenberg, K. D., de Rooij, L. P. M. H., Zheng, Y.
, Lin, L., Sokol, L., Teuwen, L.-A., Geldhof, V., Taverna, F., Pircher, A., Conradi, L.-C., Khan, S., Stegen, S., Panovska, D.
... Carmeliet, P. (2020).
Single-Cell RNA Sequencing Maps Endothelial Metabolic Plasticity in Pathological Angiogenesis.
Cell Metabolism,
31(4), 862-877.e14.
https://doi.org/10.1016/j.cmet.2020.03.009
Dumas, S. J., Meta, E., Borri, M., Goveia, J., Rohlenova, K., Conchinha, N. V., Falkenberg, K., Teuwen, L.-A., de Rooij, L.
, Kalucka, J., Chen, R., Khan, S., Taverna, F., Lu, W., Parys, M., De Legher, C., Vinckier, S., Karakach, T. K., Schoonjans, L.
... Carmeliet, P. (2020).
Single-Cell RNA Sequencing Reveals Renal Endothelium Heterogeneity and Metabolic Adaptation to Water Deprivation.
Journal of the American Society of Nephrology : JASN,
31(1), 118-138.
https://doi.org/10.1681/ASN.2019080832
Kalucka, J., de Rooij, L. P. M. H., Goveia, J., Rohlenova, K., Dumas, S. J., Meta, E., Conchinha, N. V., Taverna, F., Teuwen, L.-A., Veys, K., García-Caballero, M., Khan, S., Geldhof, V., Sokol, L., Chen, R., Treps, L., Borri, M., de Zeeuw, P., Dubois, C.
... Carmeliet, P. (2020).
Single-Cell Transcriptome Atlas of Murine Endothelial Cells.
Cell,
180(4), 764-779.e20.
https://doi.org/10.1016/j.cell.2020.01.015
Xiang, X., Li, C., Chen, X., Dou, H., Li, Y., Zhang, X.
& Luo, Y. (2019).
CRISPR/Cas9-Mediated Gene Tagging: A Step-by-Step Protocol. In Y. Luo (Ed.),
Methods in Molecular Biology (pp. 255-269). Humana Press.
https://doi.org/10.1007/978-1-4939-9170-9_16
Korsholm, L. M., Gál, Z.
, Lin, L., Quevedo, O., Ahmad, D. A., Dulina, E.
, Luo, Y., Bartek, J. & Larsen, D. H. (2019).
Double-strand breaks in ribosomal RNA genes activate a distinct signaling and chromatin response to facilitate nucleolar restructuring and repair.
Nucleic Acids Research,
47(15), 8019-8035.
https://doi.org/10.1093/nar/gkz518
Mikkelsen, R. B., Frederiksen, H. R. S., Gjerris, M., Holst, B.
, Hyttel, P., Luo, Y., Freude, K. & Sandøe, P. (2019).
Genetic Protection Modifications: Moving Beyond the Binary Distinction Between Therapy and Enhancement for Human Genome Editing.
The CRISPR Journal,
2(6), 362-369.
https://doi.org/10.1089/crispr.2019.0024
Xiang, X., Luo, L., Nodzyński, M., Li, C., Han, P., Dou, H.
, Petersen, T. S., Liang, X., Pan, X., Qu, K., Yang, L., Dang, Y., Liu, X.
, Bolund, L., Zhang, X., Tong, G., Xing, Y.
, Luo, Y. & Lin, L. (2019).
LION: a simple and rapid method to achieve CRISPR gene editing.
Cellular and Molecular Life Sciences,
76(13), 2633-2645.
https://doi.org/10.1007/s00018-019-03064-x
Gostinčar, C., Sun, X., Zajc, J., Fang, C., Hou, Y.
, Luo, Y., Gunde-Cimerman, N. & Song, Z. (2019).
Population Genomics of an Obligately Halophilic Basidiomycete Wallemia ichthyophaga.
Frontiers in Microbiology,
10.
https://doi.org/10.3389/fmicb.2019.02019
Leng, L., Sun, J., Huang, J., Gong, F., Yang, L., Zhang, S., Yuan, X., Fang, F., Xu, X.
, Luo, Y., Bolund, L., Peters, B. A., Lu, G., Jiang, T., Xu, F. & Lin, G. (2019).
Single-Cell Transcriptome Analysis of Uniparental Embryos Reveals Parent-of-Origin Effects on Human Preimplantation Development.
Cell Stem Cell,
25(5), 697-712.e6.
https://doi.org/10.1016/j.stem.2019.09.004
Jensen, I. S., Yuan, J., He, J.
, Lin, L., Sander, B. & Golas, M. M. (2019).
The FlpTRAP system for purification of specific, endogenous chromatin regions.
Analytical Biochemistry,
587, Article 113418.
https://doi.org/10.1016/j.ab.2019.113418
Chen, M., Laursen, S. H.
, Habekost, M., Knudsen, C. H., Buchholdt, S. H., Huang, J., Xu, F., Liu, X.
, Bolund, L., Luo, Y., Nissen, P., Febbraro, F. & Denham, M. (2018).
Central and peripheral nervous system progenitors derived from human pluripotent stem cells reveal a unique temporal and cell-type specific expression of PMCAs.
Frontiers in Cell and Developmental Biology,
6, Article 5.
https://doi.org/10.3389/fcell.2018.00005
Møller, H. D.
, Lin, L., Xiang, X.
, Petersen, T. S., Huang, J., Yang, L.
, Kjeldsen, E., Jensen, U. B., Zhang, X., Liu, X., Xu, X., Wang, J., Yang, H., Church, G. M.
, Bolund, L., Regenberg, B.
& Luo, Y. (2018).
CRISPR-C: circularization of genes and chromosome by CRISPR in human cells.
Nucleic Acids Research,
46(22), e131. Article e131.
https://doi.org/10.1093/nar/gky767
Lin, L., Liu, Y., Xu, F., Huang, J.
, Daugaard, T. F., Petersen, T. S.
, Hansen, B., Ye, L., Zhou, Q., Fang, F., Yang, L., Li, S., Fløe, L., Jensen, K. T., Shrock, E., Chen, F., Yang, H., Wang, J., Liu, X.
... Luo, Y. (2018).
Genome-wide determination of on-target and off-target characteristics for RNA-guided DNA methylation by dCas9 methyltransferases.
GigaScience,
7(3), 1-19.
https://doi.org/10.1093/gigascience/giy011
Olagnier, D., Brandtoft, A. M., Gunderstofte, C., Villadsen, N. L., Krapp, C.
, Thielke, A. L., Laustsen, A., Peri, S.
, Hansen, A. L., Bonefeld, L., Thyrsted, J., Bruun, V.
, Iversen, M. B., Lin, L., Artegoitia, V. M., Su, C., Yang, L., Lin, R., Balachandran, S.
... Holm, C. K. (2018).
Nrf2 negatively regulates STING indicating a link between antiviral sensing and metabolic reprogramming.
Nature Communications,
9(1), Article 3506.
https://doi.org/10.1038/s41467-018-05861-7
Liu, B.
, Palmfeldt, J., Lin, L., Colaço, A., Clemmensen, K. K. B., Huang, J., Xu, F., Liu, X., Maeda, K.
, Luo, Y. & Jäättelä, M. (2018).
STAT3 associates with vacuolar H+-ATPase and regulates cytosolic and lysosomal pH.
Cell Research,
28(10), 996–1012.
https://doi.org/10.1038/s41422-018-0080-0
Jensen, K. T., Fløe, L.
, Petersen, T. S., Huang, J., Xu, F.
, Bolund, L., Luo, Y. & Lin, L. (2017).
Chromatin accessibility and guide sequence secondary structure affect CRISPR-Cas9 gene editing efficiency.
FEBS Letters,
591(13), 1892-1901.
https://doi.org/10.1002/1873-3468.12707