2026

Unpaired data as a first-order challenge in single-cell and spatial proteomics.
Koutrouli, Mikaela, Finotello, Francesca, Schoof, Erwin M. ORCID: https://orcid.org/0000-0002-3117-7832 and Roussos, Panos ORCID: https://orcid.org/0000-0002-4640-6239
Nature Biotechnology 27 March 2026 (In Press)

Functional integration of an autologous engineered esophagus in a large-animal model.
Durkin, Natalie, Hall, George T. ORCID: https://orcid.org/0000-0002-4828-0668, Lutman, Roberto, Scuglia, Marianna, Xenakis, Theodoros ORCID: https://orcid.org/0000-0003-3682-8873, Patera, Giulia, Di Biagio, Daniele, Yamada, Koji ORCID: https://orcid.org/0009-0003-9701-3018, Tullie, Lucinda, Scaglioni, Dominic ORCID: https://orcid.org/0000-0002-0441-2198, Shibuya, Soichi ORCID: https://orcid.org/0000-0002-4274-1312, Nikaki, Kornilia ORCID: https://orcid.org/0000-0002-8968-8926, Beesley, Max Arran, Saleh, Tarek, Garrido Flores, Matias, Borselle, Dominika ORCID: https://orcid.org/0000-0002-4880-8047, Karaluka, Valerija, Hutchinson, J. Ciaran ORCID: https://orcid.org/0000-0002-1708-2634, Khalaf, Sahira, Ogunbiyi, Olumide, Wu, Lei ORCID: https://orcid.org/0000-0002-0268-6304, Huang, Xia, Song, Wenhui ORCID: https://orcid.org/0000-0001-8406-472X, Loukogeorgakis, Stavros, Pellegata, Alessandro Filippo, Mantero, Sara ORCID: https://orcid.org/0000-0002-1264-0465, Cossu, Giulio ORCID: https://orcid.org/0000-0001-5863-9593, Li, Vivian S.W. ORCID: https://orcid.org/0000-0003-2041-0085, Borrelli, Osvaldo ORCID: https://orcid.org/0000-0003-0241-0508, Bonfanti, Paola ORCID: https://orcid.org/0000-0001-9655-3766, Castellano, Sergi, Gerli, Mattia Francesco Maria ORCID: https://orcid.org/0000-0002-9331-7394, McCann, Conor J. ORCID: https://orcid.org/0000-0002-9324-5984, Eaton, Simon ORCID: https://orcid.org/0000-0003-0892-9204, Pellegrini, Marco ORCID: https://orcid.org/0000-0002-3724-6640 and De Coppi, Paolo ORCID: https://orcid.org/0000-0002-1659-0207
Nature Biotechnology 20 March 2026 (In Press)

2025

Shortcomings of silhouette in single-cell integration benchmarking.
Rautenstrauch, Pia ORCID: https://orcid.org/0000-0002-0070-4759 and Ohler, Uwe ORCID: https://orcid.org/0000-0002-0881-3116
Nature Biotechnology 30 July 2025 (In Press)

2024

Systematic benchmarking of single-cell ATAC-sequencing protocols.
De Rop, F.V. ORCID: https://orcid.org/0000-0001-5241-924X, Hulselmans, G., Flerin, C. ORCID: https://orcid.org/0000-0003-1883-871X, Soler-Vila, P., Rafels, A., Christiaens, V., González-Blas, C.B., Marchese, D., Caratù, G. ORCID: https://orcid.org/0000-0003-1085-8062, Poovathingal, S., Rozenblatt-Rosen, O. ORCID: https://orcid.org/0000-0001-6313-3570, Slyper, M., Luo, W. ORCID: https://orcid.org/0000-0002-7041-823X, Muus, C. ORCID: https://orcid.org/0000-0003-2779-0893, Duarte, F. ORCID: https://orcid.org/0000-0002-1261-4929, Shrestha, R., Bagdatli, S.T., Corces, M.R. ORCID: https://orcid.org/0000-0001-7465-7652, Mamanova, L., Knights, A., Meyer, K.B. ORCID: https://orcid.org/0000-0001-5906-1498, Mulqueen, R. ORCID: https://orcid.org/0000-0002-3903-7594, Taherinasab, A., Maschmeyer, P. ORCID: https://orcid.org/0000-0002-1705-5302, Pezoldt, J. ORCID: https://orcid.org/0000-0001-7143-5691, Lambert, C.L.G., Iglesias, M. ORCID: https://orcid.org/0000-0003-1757-7343, Najle, S.R. ORCID: https://orcid.org/0000-0002-0654-9147, Dossani, Z.Y. ORCID: https://orcid.org/0000-0001-9264-6340, Martelotto, L.G., Burkett, Z. ORCID: https://orcid.org/0000-0002-5153-485X, Lebofsky, R. ORCID: https://orcid.org/0000-0002-3728-6415, Martin-Subero, J.I. ORCID: https://orcid.org/0000-0001-8809-5195, Pillai, S., Sebé-Pedrós, A. ORCID: https://orcid.org/0000-0002-9896-9746, Deplancke, B. ORCID: https://orcid.org/0000-0001-9935-843X, Teichmann, S.A. ORCID: https://orcid.org/0000-0002-6294-6366, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Braun, T.P., Adey, A.C. ORCID: https://orcid.org/0000-0001-7648-8717, Greenleaf, W.J. ORCID: https://orcid.org/0000-0003-1409-3095, Buenrostro, J.D. ORCID: https://orcid.org/0000-0001-9958-3987, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158, Aerts, S. ORCID: https://orcid.org/0000-0002-8006-0315 and Heyn, H. ORCID: https://orcid.org/0000-0002-3276-1889
Nature Biotechnology 42 (6): 916-926. June 2024

Pangenome graph construction from genome alignments with Minigraph-Cactus.
Hickey, G. ORCID: https://orcid.org/0000-0002-2280-9404, Monlong, J., Ebler, J., Novak, A.M. ORCID: https://orcid.org/0000-0001-5828-047X, Eizenga, J.M., Gao, Y., Marschall, T. ORCID: https://orcid.org/0000-0002-9376-1030, Li, H. ORCID: https://orcid.org/0000-0003-4874-2874 and Paten, B. ORCID: https://orcid.org/0000-0001-8863-3539
Nature Biotechnology 42 (4): 663-673. April 2024

2023

Functional analysis of structural variants in single cells using Strand-seq.
Jeong, H. ORCID: https://orcid.org/0000-0002-1526-3343, Grimes, K. ORCID: https://orcid.org/0000-0002-4805-2366, Rauwolf, K.K., Bruch, P.M. ORCID: https://orcid.org/0000-0002-9992-3109, Rausch, T. ORCID: https://orcid.org/0000-0001-5773-5620, Hasenfeld, P. ORCID: https://orcid.org/0000-0003-2319-2482, Benito, E., Roider, T. ORCID: https://orcid.org/0000-0002-6973-3531, Sabarinathan, R., Porubsky, D. ORCID: https://orcid.org/0000-0001-8414-8966, Herbst, S.A. ORCID: https://orcid.org/0000-0001-8502-0366, Erarslan-Uysal, B., Jann, J.C. ORCID: https://orcid.org/0000-0003-2200-0151, Marschall, T. ORCID: https://orcid.org/0000-0002-9376-1030, Nowak, D. ORCID: https://orcid.org/0000-0001-7130-7921, Bourquin, J.P., Kulozik, A.E. ORCID: https://orcid.org/0000-0003-1953-0848, Dietrich, S., Bornhauser, B. ORCID: https://orcid.org/0000-0003-2890-3191, Sanders, A.D. ORCID: https://orcid.org/0000-0003-3945-0677 and Korbel, J.O. ORCID: https://orcid.org/0000-0002-2798-3794
Nature Biotechnology 41 (6): 832-844. June 2023

Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations.
Malin-Mayor, C., Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Guignard, L. ORCID: https://orcid.org/0000-0002-3686-1385, McDole, K., Wan, Y., Lemon, W.C. ORCID: https://orcid.org/0000-0003-4541-738X, Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Keller, P.J. ORCID: https://orcid.org/0000-0003-2896-4920, Preibisch, S. ORCID: https://orcid.org/0000-0002-0276-494X and Funke, J. ORCID: https://orcid.org/0000-0003-4388-7783
Nature Biotechnology 44 (1): 44-49. January 2023

2022

The trispecific DARPin ensovibep inhibits diverse SARS-CoV-2 variants.
Rothenberger, S. ORCID: https://orcid.org/0000-0001-8633-2994, Hurdiss, D.L., Walser, M., Malvezzi, F., Mayor, J., Ryter, S., Moreno, H., Liechti, N. ORCID: https://orcid.org/0000-0003-4354-2419, Bosshart, A., Iss, C., Calabro, V., Cornelius, A., Hospodarsch, T., Neculcea, A., Looser, T., Schlegel, A., Fontaine, S., Villemagne, D. ORCID: https://orcid.org/0000-0002-4465-364X, Paladino, M., Schiegg, D., Mangold, S., Reichen, C., Radom, F., Kaufmann, Y., Schaible, D., Schlegel, I., Zitt, C., Sigrist, G., Straumann, M., Wolter, J., Comby, M., Sacarcelik, F., Drulyte, I., Lyoo, H. ORCID: https://orcid.org/0000-0001-5806-9463, Wang, C., Li, W., Du, W., Binz, H.K. ORCID: https://orcid.org/0000-0003-0702-2280, Herrup, R., Lusvarghi, S. ORCID: https://orcid.org/0000-0003-1793-0450, Neerukonda, S.N., Vassell, R., Wang, W., Adler, J.M. ORCID: https://orcid.org/0000-0001-8147-0351, Eschke, K., Nascimento, M., Abdelgawad, A., Gruber, A.D., Bushe, J. ORCID: https://orcid.org/0000-0001-6103-3277, Kershaw, O., Knutson, C.G., Balavenkatraman, K.K., Ramanathan, K., Wyler, E. ORCID: https://orcid.org/0000-0002-9884-1806, Teixeira Alves, L.G. ORCID: https://orcid.org/0000-0002-5822-4168, Lewis, S., Watson, R., Haeuptle, M.A., Zürcher, A., Dawson, K.M. ORCID: https://orcid.org/0000-0002-1770-291X, Steiner, D., Weiss, C.D. ORCID: https://orcid.org/0000-0002-9965-1289, Amstutz, P., van Kuppeveld, F.J.M., Stumpp, M.T. ORCID: https://orcid.org/0000-0001-7356-2061, Bosch, B.J. ORCID: https://orcid.org/0000-0002-3864-232X, Engler, O. ORCID: https://orcid.org/0000-0002-8404-1496 and Trimpert, J. ORCID: https://orcid.org/0000-0003-1616-0810
Nature Biotechnology 40 (12): 1845-1854. December 2022

Single-cell multi-omics allows functional characterization of structural variants.
Korbel, J.O. and Sanders, A.D. ORCID: https://orcid.org/0000-0003-3945-0677
Nature Biotechnology 24 November 2022

Deep Visual Proteomics defines single-cell identity and heterogeneity.
Mund, A. ORCID: https://orcid.org/0000-0002-7843-5341, Coscia, F. ORCID: https://orcid.org/0000-0002-2244-5081, Kriston, A., Hollandi, R., Kovács, F., Brunner, A.D., Migh, E., Schweizer, L., Santos, A., Bzorek, M., Naimy, S., Rahbek-Gjerdrum, L.M. ORCID: https://orcid.org/0000-0003-4377-3209, Dyring-Andersen, B., Bulkescher, J., Lukas, C. ORCID: https://orcid.org/0000-0001-7169-6883, Eckert, M.A., Lengyel, E., Gnann, C., Lundberg, E. ORCID: https://orcid.org/0000-0001-7034-0850, Horvath, P. and Mann, M. ORCID: https://orcid.org/0000-0003-1292-4799
Nature Biotechnology 40 (8): 1231-1240. August 2022

Standardized annotation of translated open reading frames.
Mudge, J.M. ORCID: https://orcid.org/0000-0003-4789-7495, Ruiz-Orera, J. ORCID: https://orcid.org/0000-0002-8317-0034, Prensner, J.R. ORCID: https://orcid.org/0000-0002-7024-636X, Brunet, M.A. ORCID: https://orcid.org/0000-0001-5973-3522, Calvet, F. ORCID: https://orcid.org/0000-0003-1841-9881, Jungreis, I. ORCID: https://orcid.org/0000-0002-3197-5367, Gonzalez, Jo.M. ORCID: https://orcid.org/0000-0001-5569-0705, Magrane, M. ORCID: https://orcid.org/0000-0003-3544-996X, Martinez, T.F. ORCID: https://orcid.org/0000-0002-4011-8164, Schulz, J.F. ORCID: https://orcid.org/0000-0002-8157-2224, Yang, Y.T. ORCID: https://orcid.org/0000-0002-6873-5279, Albà, M.M., Aspden, J.L., Baranov, P.V. ORCID: https://orcid.org/0000-0001-9017-0270, Bazzini, A.A. ORCID: https://orcid.org/0000-0002-2251-5174, Bruford, E. ORCID: https://orcid.org/0000-0002-8380-5247, Martin, M.J., Calviello, L., Carvunis, A.R. ORCID: https://orcid.org/0000-0002-6474-6413, Chen, J. ORCID: https://orcid.org/0000-0002-6634-4397, Couso, J.P. ORCID: https://orcid.org/0000-0002-8547-7312, Deutsch, E.W. ORCID: https://orcid.org/0000-0001-8732-0928, Flicek, P. ORCID: https://orcid.org/0000-0002-3897-7955, Frankish, A., Gerstein, M., Hubner, N. ORCID: https://orcid.org/0000-0002-1218-6223, Ingolia, N.T. ORCID: https://orcid.org/0000-0002-3395-1545, Kellis, M. ORCID: https://orcid.org/0000-0001-7113-9630, Menschaert, G., Moritz, R.L. ORCID: https://orcid.org/0000-0002-3216-9447, Ohler, U. ORCID: https://orcid.org/0000-0002-0881-3116, Roucou, X. ORCID: https://orcid.org/0000-0001-9370-5584, Saghatelian, A. ORCID: https://orcid.org/0000-0002-0427-563X, Weissman, J.S. ORCID: https://orcid.org/0000-0003-2445-670X and van Heesch, S. ORCID: https://orcid.org/0000-0001-9593-1980
Nature Biotechnology 40 (7): 994–999. July 2022

Sizing up beta cells made from stem cells.
Nguyen-Ngoc, K.V., Wortham, M. and Sander, M. ORCID: https://orcid.org/0000-0001-5308-7785
Nature Biotechnology 40 (7): 1006-1008. July 2022

A knowledge graph to interpret clinical proteomics data.
Santos, A. ORCID: https://orcid.org/0000-0002-9163-7730, Colaço, A.R., Nielsen, A.B., Niu, L., Strauss, M., Geyer, P.E., Coscia, F. ORCID: https://orcid.org/0000-0002-2244-5081, Albrechtsen, N.J.W. ORCID: https://orcid.org/0000-0003-4230-5753, Mundt, F., Jensen, L.J. ORCID: https://orcid.org/0000-0001-7885-715X and Mann, M. ORCID: https://orcid.org/0000-0003-1292-4799
Nature Biotechnology 40 (5): 692-702. 22 May 2022

Single-cell profiling of proteins and chromatin accessibility using PHAGE-ATAC.
Fiskin, E., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Eraslan, G. ORCID: https://orcid.org/0000-0001-9579-2909, Liu, F., Ring, A.M. ORCID: https://orcid.org/0000-0003-3699-2446, Xavier, R.J. and Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158
Nature Biotechnology 40 (3): 374-381. March 2022

Mitochondrial variant enrichment from high-throughput single-cell RNA sequencing resolves clonal populations.
Miller, T.E., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Verga, J.A., DePasquale, E.A.K., Liu, V. ORCID: https://orcid.org/0000-0002-6790-6603, Ssozi, D. ORCID: https://orcid.org/0000-0002-1664-2951, Sandor, K. ORCID: https://orcid.org/0000-0003-2892-4865, Yin, Y. ORCID: https://orcid.org/0000-0002-2220-005X, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, El Farran, C.A. ORCID: https://orcid.org/0000-0002-9374-103X, Morgan, D.M. ORCID: https://orcid.org/0000-0002-3253-1362, Satpathy, A.T. ORCID: https://orcid.org/0000-0002-5167-537X, Griffin, G.K., Lane, A.A. ORCID: https://orcid.org/0000-0001-7380-0226, Love, J.C. ORCID: https://orcid.org/0000-0003-0921-3144, Bernstein, B.E. ORCID: https://orcid.org/0000-0002-5726-6278, Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X and van Galen, P. ORCID: https://orcid.org/0000-0002-0735-1570
Nature Biotechnology 40 (7): 1030-1034. 24 February 2022

2021

Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells.
Mimitou, E.P., Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Chen, K.Y. ORCID: https://orcid.org/0000-0002-4406-2604, Zorzetto-Fernandes, A.L., Hao, Y., Takeshima, Y. ORCID: https://orcid.org/0000-0001-8312-9309, Luo, W. ORCID: https://orcid.org/0000-0002-7041-823X, Huang, T.S. ORCID: https://orcid.org/0000-0001-8902-5439, Yeung, B.Z., Papalexi, E., Thakore, P.I., Kibayashi, T., Wing, J.B. ORCID: https://orcid.org/0000-0002-3462-1003, Hata, M., Satija, R. ORCID: https://orcid.org/0000-0001-9448-8833, Nazor, K.L., Sakaguchi, S., Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X, Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158 and Smibert, P. ORCID: https://orcid.org/0000-0003-0772-1647
Nature Biotechnology 39 (10): 1246-1258. October 2021

Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling.
Lareau, C.A. ORCID: https://orcid.org/0000-0003-4179-4807, Ludwig, L.S. ORCID: https://orcid.org/0000-0002-2916-2164, Muus, C. ORCID: https://orcid.org/0000-0003-2779-0893, Gohil, S.H., Zhao, T., Chiang, Z., Pelka, K., Verboon, J.M., Luo, W., Christian, E., Rosebrock, D., Getz, G. ORCID: https://orcid.org/0000-0002-0936-0753, Boland, G.M., Chen, F. ORCID: https://orcid.org/0000-0003-2308-3649, Buenrostro, J.D. ORCID: https://orcid.org/0000-0001-9958-3987, Hacohen, N. ORCID: https://orcid.org/0000-0002-2349-2656, Wu, C.J. ORCID: https://orcid.org/0000-0002-3348-5054, Aryee, M.J., Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158 and Sankaran, V.G. ORCID: https://orcid.org/0000-0003-0044-443X
Nature Biotechnology 39 (4): 451-461. April 2021

Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads.
Porubsky, D. ORCID: https://orcid.org/0000-0001-8414-8966, Ebert, P. ORCID: https://orcid.org/0000-0001-7441-532X, Audano, P.A., Vollger, M.R. ORCID: https://orcid.org/0000-0002-8651-1615, Harvey, W.T., Marijon, P. ORCID: https://orcid.org/0000-0002-6694-6873, Ebler, J., Munson, K.M. ORCID: https://orcid.org/0000-0001-8413-6498, Sorensen, M., Sulovari, A. ORCID: https://orcid.org/0000-0003-4354-9020, Haukness, M. ORCID: https://orcid.org/0000-0001-9991-8089, Ghareghani, M., Lansdorp, P.M., Paten, B., Devine, S.E., Sanders, A.D. ORCID: https://orcid.org/0000-0003-3945-0677, Lee, C., Chaisson, M.J.P., Korbel, J.O. ORCID: https://orcid.org/0000-0002-2798-3794, Eichler, E.E. ORCID: https://orcid.org/0000-0002-8246-4014 and Marschall, T. ORCID: https://orcid.org/0000-0002-9376-1030
Nature Biotechnology 39 (3): 302-308. March 2021

2020

GPSeq reveals the radial organization of chromatin in the cell nucleus.
Girelli, G. ORCID: https://orcid.org/0000-0003-4264-6494, Custodio, J., Kallas, T., Agostini, F. ORCID: https://orcid.org/0000-0002-5453-2737, Wernersson, E. ORCID: https://orcid.org/0000-0003-4778-1660, Spanjaard, B. ORCID: https://orcid.org/0000-0003-1309-8839, Mota, A., Kolbeinsdottir, S., Gelali, E. ORCID: https://orcid.org/0000-0003-0067-5473, Crosetto, N. ORCID: https://orcid.org/0000-0002-3019-6978 and Bienko, M. ORCID: https://orcid.org/0000-0002-6499-9082
Nature Biotechnology 38 (10): 1184-1193. October 2020

Benchmarking single-cell RNA-sequencing protocols for cell atlas projects.
Mereu, E., Lafzi, A., Moutinho, C., Ziegenhain, C. ORCID: https://orcid.org/0000-0003-2208-4877, McCarthy, D.J., Álvarez-Varela, A., Batlle, E., Sagar, Grün, D. ORCID: https://orcid.org/0000-0002-3364-5898, Lau, J.K., Boutet, S.C., Sanada, C., Ooi, A., Jones, R.C. ORCID: https://orcid.org/0000-0001-7235-9854, Kaihara, K., Brampton, C., Talaga, Y., Sasagawa, Y., Tanaka, K., Hayashi, T., Braeuning, C. ORCID: https://orcid.org/0009-0007-1439-9920, Fischer, C. ORCID: https://orcid.org/0000-0003-0329-2435, Sauer, S. ORCID: https://orcid.org/0000-0002-4794-3693, Trefzer, T. ORCID: https://orcid.org/0000-0003-2031-7470, Conrad, C., Adiconis, X., Nguyen, L.T., Regev, A. ORCID: https://orcid.org/0000-0003-3293-3158, Levin, J.Z. ORCID: https://orcid.org/0000-0002-0170-3598, Parekh, S. ORCID: https://orcid.org/0000-0002-4826-1651, Janjic, A. ORCID: https://orcid.org/0000-0001-7180-5381, Wange, L.E. ORCID: https://orcid.org/0000-0002-3275-9156, Bagnoli, J.W., Enard, W. ORCID: https://orcid.org/0000-0002-4056-0550, Gut, M., Sandberg, R. ORCID: https://orcid.org/0000-0001-6473-1740, Nikaido, I. ORCID: https://orcid.org/0000-0002-7261-2570, Gut, I. ORCID: https://orcid.org/0000-0001-7219-632X, Stegle, O. and Heyn, H. ORCID: https://orcid.org/0000-0002-3276-1889
Nature Biotechnology 38 (6): 747-755. June 2020

Single-cell analysis of structural variations and complex rearrangements with tri-channel processing.
Sanders, A.D. ORCID: https://orcid.org/0000-0003-3945-0677, Meiers, S., Ghareghani, M., Porubsky, D., Jeong, H., van Vliet, M.A.C.C., Rausch, T. ORCID: https://orcid.org/0000-0001-5773-5620, Richter-Pechańska, P. ORCID: https://orcid.org/0000-0001-6727-6317, Kunz, J.B., Jenni, S., Bolognini, D. ORCID: https://orcid.org/0000-0002-8735-8093, Longo, G.M.C., Raeder, B. ORCID: https://orcid.org/0000-0002-9494-8884, Kinanen, V., Zimmermann, J., Benes, V. ORCID: https://orcid.org/0000-0002-0352-2547, Schrappe, M., Mardin, B.R. ORCID: https://orcid.org/0000-0002-3903-9354, Kulozik, A.E., Bornhauser, B., Bourquin, J.P., Marschall, T. ORCID: https://orcid.org/0000-0002-9376-1030 and Korbel, J.O. ORCID: https://orcid.org/0000-0002-2798-3794
Nature Biotechnology 38 (3): 343-354. March 2020

2019

Self-organizing neuruloids model developmental aspects of Huntington's disease in the ectodermal compartment.
Haremaki, T., Metzger, J.J. ORCID: https://orcid.org/0000-0001-6813-4425, Rito, T., Ozair, M.Z., Etoc, F. and Brivanlou, A.H. ORCID: https://orcid.org/0000-0002-1761-280X
Nature Biotechnology 37 (10): 1198-1208. October 2019

2018

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors.
Haghverdi, L. ORCID: https://orcid.org/0000-0001-9280-9170, Lun, A.T.L. ORCID: https://orcid.org/0000-0002-3564-4813, Morgan, M.D. ORCID: https://orcid.org/0000-0003-0757-0711 and Marioni, J.C.
Nature Biotechnology 36 (5): 421-427. May 2018

Simultaneous lineage tracing and cell-type identification using CRISPR-Cas9-induced genetic scars.
Spanjaard, B. ORCID: https://orcid.org/0000-0003-1309-8839, Hu, B. ORCID: https://orcid.org/0000-0003-0751-885X, Mitic, N. ORCID: https://orcid.org/0000-0003-0141-1293, Olivares-Chauvet, P., Janjuha, S., Ninov, N. and Junker, J.P. ORCID: https://orcid.org/0000-0002-2826-8290
Nature Biotechnology 36 (5): 469-473. May 2018

2017

Towards standards for human fecal sample processing in metagenomic studies.
Costea, P.I. ORCID: https://orcid.org/0000-0003-1645-3947, Zeller, G., Sunagawa, S. ORCID: https://orcid.org/0000-0003-3065-0314, Pelletier, E., Alberti, A. ORCID: https://orcid.org/0000-0003-3372-9423, Levenez, F., Tramontano, M., Driessen, M., Hercog, R., Jung, F.E., Kultima, J.R., Hayward, M.R., Coelho, L.P. ORCID: https://orcid.org/0000-0002-9280-7885, Allen-Vercoe, E., Bertrand, L., Blaut, M., Brown, J.R.M., Carton, T., Cools-Portier, S., Daigneault, M., Derrien, M., Druesne, A., de Vos, W.M. ORCID: https://orcid.org/0000-0002-0273-3166, Finlay, B.B., Flint, H.J., Guarner, F., Hattori, M., Heilig, H., Luna, R.A. ORCID: https://orcid.org/0000-0001-6104-0872, van Hylckama Vlieg, J., Junick, J., Klymiuk, I., Langella, P., Le Chatelier, Z., Mai, V., Manichanh, C., Martin, J.C., Mery, C., Morita, H., O'Toole, P.W., Orvain, C., Patil, K.R., Penders, J., Persson, S., Pons, N., Popova, M., Salonen, A., Saulnier, D., Scott, K.P., Singh, B., Slezak, K., Veiga, P., Versalovic, J., Zhao, L., Zoetendal, E.G., Ehrlich, S.D., Dore, J. and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Nature Biotechnology 35 (11): 1069-1076. November 2017

2016

Receptor combinations hone T-cell therapy.
Blankenstein, T. ORCID: https://orcid.org/0000-0002-3357-4321
Nature Biotechnology 34 (4): 389-391. 7 April 2016

2015

Increasing the efficiency of homology-directed repair for CRISPR-Cas9-induced precise gene editing in mammalian cells.
Chu, V.T. ORCID: https://orcid.org/0000-0003-1327-8696, Weber, T. ORCID: https://orcid.org/0000-0003-2079-842X, Wefers, B., Wurst, W., Sander, S. ORCID: https://orcid.org/0000-0003-4645-3366, Rajewsky, K. ORCID: https://orcid.org/0000-0002-6633-6370 and Kühn, R. ORCID: https://orcid.org/0000-0003-1694-9803
Nature Biotechnology 33 (5): 543-548. May 2015

Identification of human T-cell receptors with optimal affinity to cancer antigens using antigen-negative humanized mice.
Obenaus, M. ORCID: https://orcid.org/0000-0002-5090-9162, Leitão, C., Leisegang, M. ORCID: https://orcid.org/0000-0003-3692-7142, Chen, X. ORCID: https://orcid.org/0000-0002-5614-1406, Gavvovidis, I. ORCID: https://orcid.org/0000-0001-5644-9788, van der Bruggen, P., Uckert, W., Schendel, D.J. and Blankenstein, T. ORCID: https://orcid.org/0000-0002-3357-4321
Nature Biotechnology 33 (4): 402-407. April 2015

Decoding the regulatory network of early blood development from single-cell gene expression measurements.
Moignard, V., Woodhouse, S., Haghverdi, L. ORCID: https://orcid.org/0000-0001-9280-9170, Lilly, A.J., Tanaka, Y., Wilkinson, A.C., Buettner, F., Macaulay, I.C., Jawaid, W., Diamanti, E., Nishikawa, S.I., Piterman, N., Kouskoff, V., Theis, F.J., Fisher, J. and Göttgens, B.
Nature Biotechnology 33 (3): 269-276. March 2015

2014

An integrated catalog of reference genes in the human gut microbiome.
Li, J., Jia, H., Cai, X., Zhong, H., Feng, Q., Sunagawa, S., Arumugam, M., Kultima, J.R., Prifti, E., Nielsen, T., Juncker, A.S., Manichanh, C., Chen, B., Zhang, W., Levenez, F., Wang, J., Xu, X., Xiao, L., Liang, S., Zhang, D., Zhang, Z., Chen, W., Zhao, H., Al-Aama, J.Y., Edris, S., Yang, H., Wang, J., Hansen, T., Nielsen, H.B., Brunak, S., Kristiansen, K., Guarner, F., Pedersen, O., Dore, J., Ehrlich, S.D., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X and Wang, J.
Nature Biotechnology 32 (8): 834-841. August 2014

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes.
Nielsen, H.B., Almeida, M., Juncker, A.S., Rasmussen, S., Li, J., Sunagawa, S., Plichta, D.R., Gautier, L., Pedersen, A.G., Le Chatelier, E., Pelletier, E., Bonde, I., Nielsen, T., Manichanh, C., Arumugam, M., Batto, J.M., Quintanilha Dos Santos, M.B., Blom, N., Borruel, N., Burgdorf, K.S., Boumezbeur, F., Casellas, F., Dore, J., Dworzynski, P., Guarner, F., Hansen, T., Hildebrand, F., Kaas, R.S., Kennedy, S., Kristiansen, K., Kultima, J.R., Leonard, P., Levenez, F., Lund, O., Moumen, B., Le Paslier, D., Pons, N., Pedersen, O., Prifti, E., Qin, J., Raes, J., Sorensen, S., Tap, J., Tims, S., Ussery, D.W., Yamada, T., Renault, P., Sicheritz-Ponten, T., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Wang, J., Brunak, S. and Ehrlich, S.D.
Nature Biotechnology 32 (8): 822-828. August 2014

2008

Discovering microRNAs from deep sequencing data using miRDeep.
Friedlaender, M.R. ORCID: https://orcid.org/0000-0001-6577-4363, Chen, W. ORCID: https://orcid.org/0000-0003-3263-1627, Adamidi, C., Maaskola, J., Einspanier, R., Knespel, S. and Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332
Nature Biotechnology 26 (4): 407-415. April 2008

2004

Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs.
Korbel, J.O., Jensen, L.J. ORCID: https://orcid.org/0000-0001-7885-715X, von Mering, C. ORCID: https://orcid.org/0000-0001-7734-9102 and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Nature Biotechnology 22 (7): 911-917. 1 July 2004

The HUPO PSI's Molecular Interaction format - a community standard for the representation of protein interaction data.
Hermjakob, H., Montecchi-Palazzi, L., Bader, G., Wojcik, R., Salwinski, L., Ceol, A., Moore, S., Orchard, S., Sarkans, U., von Mering, C. ORCID: https://orcid.org/0000-0001-7734-9102, Roechert, B., Poux, S., Jung, E., Mersch, H., Kersey, P., Lappe, M., Li, Y.X., Zeng, R., Rana, D., Nikolski, M., Husi, H., Brun, C., Shanker, K., Grant, S.G.N., Sander, C., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Zhu, W.M., Pandey, A., Brazma, A., Jacq, B., Vidal, M., Sherman, D., Legrain, P., Cesareni, G., Xenarios, L., Eisenberg, D., Steipe, B., Hogue, C. and Apweiler, R.
Nature Biotechnology 22 (2): 177-183. 1 January 2004

2003

Systematic discovery of analogous enzymes in thiamin biosynthesis.
Morett, E., Korbel, J., Rajan, E., Saab-Rincon, G., Olvera, L., Olvera, M., Steffen, S., Snel, B. and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Nature Biotechnology 21 (7): 790-795. July 2003

2002

Male and female mice derived from the same embryonic stem cell clone by tetraploid embryo complementation.
Eggan, K., Rode, A., Jentsch, I., Samuel, C., Hennek, T., Tintrup, H., Zevnik, B., Erwin, J., Loring, J., Jackson-Grusby, L., Speicher, M.R., Kuehn, R. ORCID: https://orcid.org/0000-0003-1694-9803 and Jaenisch, R.
Nature Biotechnology 20 (5): 455-459. May 2002

2000

A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks.
Schuster, S., Fell, D.A. and Dandekar, T.
Nature Biotechnology 18 (3): 326-332. 1 March 2000

1999

A synthetic mimic of a discontinuous binding site on interleukin-10.
Reineke, U., Sabat, R., Misselwitz, R., Welfle, H., Volk, H.D. and Schneider-Mergener, J.
Nature Biotechnology 17 : 271-275. 1 March 1999

1998

Antisense 98: Work in progress.
Crooke, S.T., Eckstein, F., Christoffersen, R.E., Mehta, V., Cotter, F.E., Bennett, C.F., Agrawal, S., Haller, H., Dorr, F.A. and Grinstead, E.A.
Nature Biotechnology 16 (13): 1319-1321. December 1998

1996

Sustained somatic gene inactivation by viral transfer of Cre recombinase.
Rohlmann, A., Gotthardt, M. ORCID: https://orcid.org/0000-0003-1788-3172, Willnow, T.E. ORCID: https://orcid.org/0000-0001-9515-7921, Hammer, R.E. and Herz, J.
Nature Biotechnology 14 (11): 1562-1565. 1 November 1996

Oligonucleotide ligation assay (OLA) for the diagnosis of familial hypercholesterolemia.
Baron, H., Fung, S., Aydin, A. ORCID: https://orcid.org/0000-0002-2890-0225, Bähring, S. ORCID: https://orcid.org/0000-0001-8734-9755, Luft, F.C. ORCID: https://orcid.org/0000-0002-8635-1199 and Schuster, H.
Nature Biotechnology 14 (10): 1279-1282. 1 October 1996