Johannes Söding - Publications, H-index & Citations

Johannes Söding

university of gottingen

69H指数

160论文数

5.1W被引数

收录论文 56

发表时间

Phylograd: fast column-specific calculation of substitution model gradients Phylograd：快速列特定的替换模型梯度计算

BMC Bioinformatics

IF3.3

2025-12-23

OAAI

Benjamin Lieser; Georgy Belousov; Johannes Söding

Evaluation of metagenome binning: advances and challenges 元基因组分箱的评价：进展与挑战

BRIEFINGS IN BIOINFORMATICS

IF7.7

2025-11-01

OAAI

Yazhini, Arangasamy; Morice, Etienne; Jochheim, Annika; Lieser, Benjamin; Soding, Johannes

CarpeDeam: a de novo metagenome assembler for heavily damaged ancient datasets CarpeDeam：一种用于严重受损古数据的从头宏基因组组装工具

Genome Biology

IF9.4

2025-10-30

OAAI

Louis Kraft; Johannes Söding; Martin Steinegger; Annika Jochheim; Peter Wad Sackett; Antonio Fernandez-Guerra; Gabriel Renaud

De novo discovery of conserved gene clusters in microbial genomes with Spacedust 利用Spacedust在微生物基因组中开展全新保守基因簇的发现

Nature Methods

IF32.1

2025-09-15

OAAI

Ruoshi Zhang; Milot Mirdita; Johannes Söding

Strain-resolved de-novo metagenomic assembly of viral genomes and microbial 16S rRNAs

MICROBIOME

IF12.7

2024-10-01

OAAI

Jochheim, Annika; Jochheim, Florian A.; Kolodyazhnaya, Alexandra; Morice, Etienne; Steinegger, Martin; Soeding, Johannes

DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options

NUCLEIC ACIDS RESEARCH

IF13.1

2023-11-02

OAAI

Basu, Sushmita; Zhao, Bi; Biro, Balint; Faraggi, Eshel; Gsponer, Jorg; Hu, Gang; Kloczkowski, Andrzej; Malhis, Nawar; Mirdita, Milot; Soeding, Johannes; Steinegger, Martin; Wang, Duolin; Wang, Kui; Xu, Dong; Zhang, Jian; Kurgan, Lukasz

Cooperativity boosts affinity and specificity of proteins with multiple RNA-binding domains

genomics proteomics bioinformatics

IF2.8

2023-06-09

OAAI

Stitzinger, Simon H.; Sohrabi-Jahromi, Salma; Soeding, Johannes

Fast and accurate protein structure search with Foldseek 使用Foldseek快速准确的蛋白质结构搜索

NATURE BIOTECHNOLOGY

IF41.7

2023-05-08

438

OAAI

van Kempen, Michel; Kim, Stephanie S.; Tumescheit, Charlotte; Mirdita, Milot; Lee, Jeongjae; Gilchrist, Cameron L. M.; Soeding, Johannes; Steinegger, Martin

RNA sequencing indicates widespread conservation of circadian clocks in marine zooplankton

genomics proteomics bioinformatics

IF2.8

2023-01-31

OAAI

Raghavan, Venket; Eichele, Gregor; Larink, Otto; Karin, Eli Levy; Soeding, Johannes

Cln5 represents a new type of cysteine-based S-depalmitoylase linked to neurodegeneration

SCIENCE ADVANCES

IF12.5

2022-04-15

OAAI

Luebben, Anna, V; Bender, Daniel; Becker, Stefan; Crowther, Lisa M.; Erven, Ilka; Hofmann, Kay; Soeding, Johannes; Klemp, Henry; Bellotti, Cristina; Stauble, Andreas; Qiu, Tian; Kathayat, Rahul S.; Dickinson, Bryan C.; Gaertner, Jutta; Sheldrick, George M.; Kraetzner, Ralph; Steinfeld, Robert

Tejaas: reverse regression increases power for detecting trans-eQTLs Tejaas: 反向回归增加了检测trans-eqtl的能力

GENOME BIOLOGY

IF9.4

2021-05-06

OAAI

Banerjee, Saikat; Simonetti, Franco L.; Detrois, Kira E.; Kaphle, Anubhav; Mitra, Raktim; Nagial, Rahul; Soeding, Johannes

Bayesian Markov models improve the prediction of binding motifs beyond first order

genomics proteomics bioinformatics

IF2.8

2021-04-20

OAAI

Ge, Wanwan; Meier, Markus; Roth, Christian; Soeding, Johannes

Evidence for additive and synergistic action of mammalian enhancers during cell fate determination

ELIFE

IF0

2021-03-26

OAAI

Choi, Jinmi; Lysakovskaia, Kseniia; Stik, Gregoire; Demel, Carina; Soeding, Johannes; Tian, Tian, V; Graf, Thomas; Cramer, Patrick

DescribePROT: database of amino acid-level protein structure and function predictions

NUCLEIC ACIDS RESEARCH

IF13.1

2020-10-29

OAAI

Zhao, Bi; Katuwawala, Akila; Oldfield, Christopher J.; Dunker, A. Keith; Faraggi, Eshel; Gsponer, Jorg; Kloczkowski, Andrzej; Malhis, Nawar; Mirdita, Milot; Obradovic, Zoran; Soding, Johannes; Steinegger, Martin; Zhou, Yaoqi; Kurgan, Lukasz

A High-Throughput Screen for Transcription Activation Domains Reveals Their Sequence Features and Permits Prediction by Deep Learning (vol 78, pg 890, 2020)

MOLECULAR CELL

IF16.6

2020-09-01

OAAI

Erijman, Ariel; Kozlowski, Lukasz; Sohrabi-Jahromi, Salma; Fishburn, James; Warfield, Linda; Schreiber, Jacob; Noble, William S.; Soding, Johannes; Hahn, Steven

A High-Throughput Screen for Transcription Activation Domains Reveals Their Sequence Features and Permits Prediction by Deep Learning 转录激活结构域的高通量筛选揭示了它们的序列特征，并允许通过深度学习进行预测

MOLECULAR CELL

IF16.6

2020-06-01

OAAI

Erijman, Ariel; Kozlowski, Lukasz; Sohrabi-Jahromi, Salma; Fishburn, James; Warfield, Linda; Schreiber, Jacob; Noble, William S.; Soeding, Johannes; Hahn, Steven

MetaEuk-sensitive, high-throughput gene discovery, and annotation for large-scale eukaryotic metagenomics

MICROBIOME

IF12.7

2020-04-03

137

OAAI

Karin, Eli Levy; Mirdita, Milot; Soeding, Johannes

Mechanisms for Active Regulation of Biomolecular Condensates 生物分子缩合物的活性调控机制

TRENDS IN CELL BIOLOGY

IF18.1

2020-01-01

117

OAAI

Soeding, Johannes; Zwicker, David; Sohrabi-Jahromi, Salma; Boehning, Marc; Kirschbaum, Jan

Lysine/RNA-interactions drive and regulate biomolecular condensation 赖氨酸/RNA相互作用驱动和调节生物分子缩合

NATURE COMMUNICATIONS

IF15.7

2019-07-02

166

OAAI

Ukmar-Godec, Tina; Hutten, Saskia; Grieshop, Matthew P.; Rezaei-Ghaleh, Nasrollah; Cima-Omori, Maria-Sol; Biernat, Jacek; Mandelkow, Eckhard; Soeding, Johannes; Dormann, Dorothee; Zweckstetter, Markus

Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold

NATURE METHODS

IF32.1

2019-06-24

226

OAAI

Steinegger, Martin; Mirdita, Milot; Soeding, Johannes

研究方向