Songling Li

Songling Li Associate Professor slli [at] biken.osaka-u.ac.jp

Education

Shanghai Jiao Tong University (SJTU), B.Sc. in Biotechnology

Shanghai Jiao Tong University (SJTU), M.Sc. in Cell Biology

University of Heidelberg, Germany, Ph.D. in Physics

Research & Career

Structural biology, Molecular dynamics (MD) simulation, Immune repertoire analysis

Awards

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Publications

Year Authors Title Publication Cites
2009 S Li, H Li, M Li, Y Shyr, L Xie, Y Li Improved prediction of lysine acetylation by support vector machines PROTEIN AND PEPTIDE LETTERS, 2009, 16, 977-983 91
2012 M Fritsche, S Li, DW Heermann, PA Wiggins A model for Escherichia coli chromosome packaging supports transcription factor-induced DNA domain formation NUCLEIC ACIDS RESEARCH, 2012, 40, 972-980 73
2019 J Rozewicki, S Li, KM Amada, DM Standley, K Katoh MAFFT-DASH: integrated protein sequence and structural alignment NUCLEIC ACIDS RESEARCH 47 (W1), W5-W, 2019, 10 52
2017 KK Nyati, K Masuda, MMU Zaman, PK Dubey, D Millrine, JP Chalise, ... TLR4-induced NF-κB and MAPK signaling regulate the IL-6 mRNA stabilizing protein Arid5a NUCLEIC ACIDS RESEARCH, 2017, 45, 2687-2703 50
2014 S Li, K Yamashita, KM Amada, DM Standley Quantifying sequence and structural features of protein–RNA interactions NUCLEIC ACIDS RESEARCH, 2014, 42, 10086-10098 34
2017 R Yonehara, S Nada, T Nakai, M Nakai, A Kitamura, A Ogawa, ... Structural basis for the assembly of the Ragulator-Rag GTPase complex NATURE COMMUNICATIONS, 2017, 8, 1-11 30
2018 H Hanieh, K Masuda, H Metwally, JP Chalise, M Mohamed, KK Nyati, ... Arid5a stabilizes OX40 mRNA in murine CD4+ T cells by recognizing a stem‐loop structure in its 3′UTR EUROPEAN JOURNAL OF IMMUNOLOGY, 2018, 48, 593-604 17
2017 S Sakakibara, T Arimori, K Yamashita, H Jinzai, D Motooka, S Nakamura, ... Clonal evolution and antigen recognition of anti-nuclear antibodies in acute systemic lupus erythematosus SCIENTIFIC REPORTS, 2017, 7, 1-14 14
2019 D Schritt, S Li, J Rozewicki, K Katoh, K Yamashita, W Volkmuth, G Cavet, ... Repertoire builder: high-throughput structural modeling of B and T cell receptors MOLECULAR SYSTEMS DESIGN & ENGINEERING, 2019, 4, 761-768 10
2013 S Li, DW Heermann Transcriptional regulatory network shapes the genome structure of Saccharomyces cerevisiae NUCLEUS, 2013, 4, 216-228 9
2015 D Hall, S Li, K Yamashita, R Azuma, JA Carver, DM Standley RNA–LIM: A novel procedure for analyzing protein/single-stranded RNA propensity data with concomitant estimation of interface structure ANALYTICAL BIOCHEMISTRY, 2015, 472, 52-61 4
2019 Z Xu, S Li, J Rozewicki, K Yamashita, S Teraguchi, T Inoue, R Shinnakasu, ... Functional clustering of B cell receptors using sequence and structural features MOLECULAR SYSTEMS DESIGN & ENGINEERING, 2019, 4, 769-778 3
2014 D Hall, S Li, K Yamashita, R Azuma, JA Carver, DM Standley A novel protein distance matrix based on the minimum arc-length between two amino-acid residues on the surface of a globular protein BIOPHYSICAL CHEMISTRY, 2014, 190, 50-55 3
2020 H Metwally, T Tanaka, S Li, G Parajuli, S Kang, H Hanieh, S Hashimoto, ... Noncanonical STAT1 phosphorylation expands its transcriptional activity into promoting LPS-induced IL-6 and IL-12p40 production SCIENCE SIGNALING, 2020, 13 2
2020 K Fukushima, T Satoh, F Sugihara, Y Sato, T Okamoto, Y Mitsui, S Yoshio, ... Dysregulated Expression of the Nuclear Exosome Targeting Complex Component Rbm7 in Nonhematopoietic Cells Licenses the Development of Fibrosis IMMUNITY 52 (3), 542-556., 2020, 13 2
2019 H Fukuda, S Li, L Sardo, JL Smith, K Yamashita, AD Sarca, K Shirakawa, ... Structural Determinants of the APOBEC3G N-terminal domain for HIV-1 RNA association FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY, 2019, 9, 129-129 2
2019 S Li, J Wilamowski, S Teraguchi, FJ van Eerden, J Rozewicki, A Davila, ... Structural modeling of lymphocyte receptors and their antigens IN VITRO DIFFERENTIATION OF T-CELLS, 2019, 207-229 2
2013 S Li, DW Heermann Using chimaeric expression sequence tag as the reference to identify three-dimensional chromosome contacts DNA RESEARCH, 2013, 20, 45-53 2
2020 S Teraguchi, DS Saputri, MA Llamas-Covarrubias, A Davila, D Diez, ... Methods for sequence and structural analysis of B and T cell receptor repertoires COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2020 0
2020 DS Saputri, S Li, FJ Van Eerden, J Rozewicki, Z Xu, HS Ismanto, A Davila, ... Flexible, functional and familiar: characteristics of SARS-CoV-2 spike protein evolution FRONTIERS IN MICROBIOLOGY, 2020, 11, 2112-2112 0
2019 DM Standley, JDO Nieri, S Li, D Schritt, K Yamashita Immunological entity clustering software US PATENT APP. 16/333,875, 2019 0
2017 D Schritt, K Katoh, S Li, DM Standley Modeling Biocatalysts FUTURE DIRECTIONS IN BIOCATALYSIS, 2017, 385-398 0
PAGETOP