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Sameer Velankar

european bioinformatics institute
H-index:59
Citation Count:2.7万
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PDBe-SIFTS: An open-source tool for Structure Integration with Function, Taxonomy, and Sequences, featuring improved alignment, scoring scheme, and accelerated search

PDBe-SIFTS：一个用于结构与功能、分类和序列集成的开源工具，具有改进的比对、评分方案和加速搜索功能

Protein Science
IF5.2
2026-10-280
OAAI
Adam Bellaiche; Preeti Choudhary; Sreenath Nair; Deborah Harrus; Conny Wing-Heng Yu; Syed Ahsan Tanweer; Genevieve Laura Evans; Stephanie W. Lo; Maria J. Martin; Jennifer R. Fleming; Sameer Velankar
PDBe-KB Complexes: Enabling Functional Insight from Macromolecular Complexes in the PDB

PDBe-KB复合物：实现从PDB中宏分子复合物的功能洞察

Journal of Molecular Biology
IF4.5
2025-12-260
OAAI
Sri Devan Appasamy; Sreenath Nair; Dare Kayode Lawal; Ivanna Pidruchna; Adam Midlik; Grisell Díaz Leines; Balakumaran Balasubramaniyan; Marcelo Querino Lima Afonso; Jennifer Fleming; Sameer Velankar
PDBe: enhanced structural data exploration to facilitate discovery

PDBe：增强结构数据探索以促进发现

NUCLEIC ACIDS RESEARCH
IF13.1
2025-12-011
PRE
Afonso, Marcelo Querino Lima; Pidruchna, Ivanna; Nair, Sreenath; Midlik, Adam; Lawal, Dare; Vollmar, Melanie; Appasamy, Sri Devan; Choudhary, Preeti; Kunnakkattu, Ibrahim Roshan; Bertoni, Damian; Escobar, Cristian A.; Balasubramaniyan, Balakumaran; Gaborova, Romana; Leines, Grisell Diaz; Harrus, Deborah; Gupta, Deepti; Evans, Genevieve L.; Paramval, Urmila; Magana, Paulyna; Tanweer, Ahsan; Todor, Mihai; Thorpe, Christopher J.; Tsenkov, Maxim; Ganguly, Sudakshina; Ellaway, Joseph; Bueno, Weslley Morellato; Bellaiche, Adam; Sehnal, David; Svobodova, Radka; Fleming, Jennifer R.; Velankar, Sameer
AlphaFold Protein Structure Database 2025: a redesigned interface and updated structural coverage

AlphaFold蛋白质结构数据库2025：重新设计的界面和更新的结构覆盖范围

NUCLEIC ACIDS RESEARCH
IF13.1
2025-11-012
PRE
Bertoni, Damian; Tsenkov, Maxim; Magana, Paulyna; Nair, Sreenath; Pidruchna, Ivanna; Querino Lima Afonso, Marcelo; Midlik, Adam; Paramval, Urmila; Lawal, Dare; Tanweer, Ahsan; Last, Meera; Patel, Risha; Laydon, Agata; Lasecki, Dariusz; Dietrich, Nick; Tomlinson, Hamish; ZIDek, Augustin; Green, Tim; Kovalevskiy, Oleg; Lau, Andy; Kandathil, Shaun; Bordin, Nicola; Sillitoe, Ian; Mirdita, Milot; Jones, David; Orengo, Christine; Steinegger, Martin; Fleming, Jennifer R.; Velankar, Sameer
Updates to the CASP Infrastructure in 2024

2024年CASP基础设施的更新

proteins structure function and bioinformatics
IF0
2025-09-010
OAAI
Andriy Kryshtafovych; Maciej Milostan; Marc F. Lensink; Sameer Velankar; Alexandre M. J. J. Bonvin; John Moult; Krzysztof Fidelis
Biomolecular Interaction Prediction in the Pre- and Post-AlphaFold Era: The 8th CAPRI Evaluation

AlphaFold时代前后生物分子相互作用预测：第8届CAPRI评估

proteins structure function and bioinformatics
IF0
2025-07-140
OAAI
Marc F. Lensink; Nessim Raouraoua; Guillaume Brysbaert; Sameer Velankar; Shoshana J. Wodak; Alexandre M. J. J. Bonvin
MolViewSpec: a Mol* extension for describing and sharing molecular visualizations

MolViewSpec：Mol*的一个扩展，用于描述和共享分子可视化

NUCLEIC ACIDS RESEARCH
IF13.1
2025-05-060
OA
Midlik, Adam; Bittrich, Sebastian; Fleming, Jennifer R.; Nair, Sreenath; Velankar, Sameer; Burley, Stephen K.; Young, Jasmine Y.; Vallat, Brinda; Sehnal, David
CATH v4.4: major expansion of CATH by experimental and predicted structural data

CATH v4.4: 通过实验和预测的结构数据对CATH进行重大扩展

NUCLEIC ACIDS RESEARCH
IF13.1
2024-11-201
OAAI
Waman, Vaishali P.; Bordin, Nicola; Lau, Andy; Kandathil, Shaun; Wells, Jude; Miller, David; Velankar, Sameer; Jones, David T.; Sillitoe, Ian; Orengo, Christine
PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank

PDB NextGen Archive: 通过全球蛋白质数据库集中访问集成的注释和丰富的结构信息

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION
IF3.6
2024-05-274
OAAI
Choudhary, Preeti; Feng, Zukang; Berrisford, John; Chao, Henry; Ikegawa, Yasuyo; Peisach, Ezra; Piehl, Dennis W.; Smith, James; Tanweer, Ahsan; Varadi, Mihaly; Westbrook, John D.; Young, Jasmine Y.; Patwardhan, Ardan; Morris, Kyle L.; Hoch, Jeffrey C.; Kurisu, Genji; Velankar, Sameer; Burley, Stephen K.
PDBe CCDUtils: an RDKit-based toolkit for handling and analysing small molecules in the Protein Data Bank

PDBe CCDUtils: 一个基于RDKit的工具包，用于处理和分析蛋白质数据库中的小分子

JOURNAL OF CHEMINFORMATICS
IF5.7
2023-12-023
OAAI
Kunnakkattu, Ibrahim Roshan; Choudhary, Preeti; Pravda, Lukas; Nadzirin, Nurul; Smart, Oliver S.; Yuan, Qi; Anyango, Stephen; Nair, Sreenath; Varadi, Mihaly; Velankar, Sameer
EMBL's European Bioinformatics Institute (EMBL-EBI) in 2023

EMBL的欧洲生物信息学研究所 (embl-ebi) 2023年

NUCLEIC ACIDS RESEARCH
IF13.1
2023-11-283
OAAI
Thakur, Matthew; Buniello, Annalisa; Brooksbank, Catherine; Gurwitz, Kim T.; Hall, Matthew; Hartley, Matthew; Hulcoop, David G.; Leach, Andrew R.; Marques, Diana; Martin, Maria; Mithani, Aziz; McDonagh, Ellen M.; Mutasa-Gottgens, Euphemia; Ochoa, David; Perez-Riverol, Yasset; Stephenson, James; Varadi, Mihaly; Velankar, Sameer; Vizcaino, Juan Antonio; Witham, Rick; McEntyre, Johanna
EMDB-the Electron Microscopy Data Bank

EMDB-电子显微镜数据库

NUCLEIC ACIDS RESEARCH
IF13.1
2023-11-2219
OAAI
Turner, Jack; Abbott, Sanja; Fonseca, Neli; Carrijo, Lucas; Duraisamy, Amudha Kumari; Salih, Osman; Wang, Zhe; Kleywegt, Gerard J.; Morris, Kyle L.; Patwardhan, Ardan; Burley, Stephen K.; Crichlow, Gregg; Feng, Zukang; Flatt, Justin W.; Ghosh, Sutapa; Hudson, Brian P.; Lawson, Catherine L.; Liang, Yuhe; Peisach, Ezra; Persikova, Irina; Sekharan, Monica; Shao, Chenghua; Young, Jasmine; Velankar, Sameer; Armstrong, David; Bage, Marcus; Bueno, Wesley Morellato; Evans, Genevieve; Gaborova, Romana; Ganguly, Sudakshina; Gupta, Deepti; Harrus, Deborah; Tanweer, Ahsan; Bansal, Manju; Rangannan, Vetriselvi; Kurisu, Genji; Cho, Hasumi; Ikegawa, Yasuyo; Kengaku, Yumiko; Kim, Ju Yaen; Niwa, Satomi; Sato, Junko; Takuwa, Ayako; Yu, Jian; Hoch, Jeffrey C.; Baskaran, Kumaran; Xu, Wenqing; Zhang, Weizhe; Ma, Xiaodan
AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences

Alphofold蛋白质结构数据库2024年: 为2.14亿多个蛋白质序列提供结构覆盖

NUCLEIC ACIDS RESEARCH
IF13.1
2023-11-02193
OAAI
Varadi, Mihaly; Bertoni, Damian; Magana, Paulyna; Paramval, Urmila; Pidruchna, Ivanna; Radhakrishnan, Malarvizhi; Tsenkov, Maxim; Nair, Sreenath; Mirdita, Milot; Yeo, Jingi; Kovalevskiy, Oleg; Tunyasuvunakool, Kathryn; Laydon, Agata; Zidek, Augustin; Tomlinson, Hamish; Hariharan, Dhavanthi; Abrahamson, Josh; Green, Tim; Jumper, John; Birney, Ewan; Steinegger, Martin; Hassabis, Demis; Velankar, Sameer
Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment

AlphaFold对蛋白质复合物结构预测影响的CASP15-CAPRI实验

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
IF2.8
2023-10-3133
OA
Lensink, Marc F.; Brysbaert, Guillaume; Raouraoua, Nessim; Bates, Paul A.; Giulini, Marco; Honorato, Rodrigo V.; van Noort, Charlotte; Teixeira, Joao M. C.; Bonvin, Alexandre M. J. J.; Kong, Ren; Shi, Hang; Lu, Xufeng; Chang, Shan; Liu, Jian; Guo, Zhiye; Chen, Xiao; Morehead, Alex; Roy, Raj S.; Wu, Tianqi; Giri, Nabin; Quadir, Farhan; Chen, Chen; Cheng, Jianlin; Del Carpio, Carlos A.; Ichiishi, Eichiro; Rodriguez-Lumbreras, Luis A.; Fernandez-Recio, Juan; Harmalkar, Ameya; Chu, Lee-Shin; Canner, Sam; Smanta, Rituparna; Gray, Jeffrey J.; Li, Hao; Lin, Peicong; He, Jiahua; Tao, Huanyu; Huang, Sheng-You; Roel-Touris, Jorge; Jimenez-Garcia, Brian; Christoffer, Charles W.; Jain, Anika J.; Kagaya, Yuki; Kannan, Harini; Nakamura, Tsukasa; Terashi, Genki; Verburgt, Jacob C.; Zhang, Yuanyuan; Zhang, Zicong; Fujuta, Hayato; Sekijima, Masakazu; Kihara, Daisuke; Khan, Omeir; Kotelnikov, Sergei; Ghani, Usman; Padhorny, Dzmitry; Beglov, Dmitri; Vajda, Sandor; Kozakov, Dima; Negi, Surendra S.; Ricciardelli, Tiziana; Barradas-Bautista, Didier; Cao, Zhen; Chawla, Mohit; Cavallo, Luigi; Oliva, Romina; Yin, Rui; Cheung, Melyssa; Guest, Johnathan D.; Lee, Jessica; Pierce, Brian G.; Shor, Ben; Cohen, Tomer; Halfon, Matan; Schneidman-Duhovny, Dina; Zhu, Shaowen; Yin, Rujie; Sun, Yuanfei; Shen, Yang; Maszota-Zieleniak, Martyna; Bojarski, Krzysztof K.; Lubecka, Emilia A.; Marcisz, Mateusz; Danielsson, Annemarie; Dziadek, Lukasz; Gaardlos, Margrethe; Gieldon, Artur; Liwo, Adam; Samsonov, Sergey A.; Slusarz, Rafal; Zieba, Karolina; Sieradzan, Adam K.; Czaplewski, Cezary; Kobayashi, Shinpei; Miyakawa, Yuta; Kiyota, Yasuomi; Takeda-Shitaka, Mayuko; Olechnovic, Kliment; Valancauskas, Lukas; Dapkunas, Justas; Venclovas, Ceslovas; Wallner, Bjorn; Yang, Lin; Hou, Chengyu; He, Xiaodong; Guo, Shuai; Jiang, Shenda; Ma, Xiaoliang; Duan, Rui; Qui, Liming; Xu, Xianjin; Zou, Xiaoqin; Velankar, Sameer; Wodak, Shoshana J.
Challenges in bridging the gap between protein structure prediction and functional interpretation

弥合蛋白质结构预测和功能解释之间差距的挑战

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
IF2.8
2023-10-181
OA
Varadi, Mihaly; Tsenkov, Maxim; Velankar, Sameer
Clustering predicted structures at the scale of the known protein universe
Nature
IF48.5
2023-09-130
OA
Inigo Barrio-Hernandez; Jingi Yeo; Jürgen Jänes; Milot Mirdita; Cameron L. M. Gilchrist; Tanita Wein; Mihaly Varadi; Sameer Velankar; Pedro Beltrao; Martin Steinegger
Structural biology: The transformational era

结构生物学: 转型时代

PROTEOMICS
IF3.9
2023-09-051
OA
Wodak, Shoshana J.; Velankar, Sameer
The opportunities and challenges posed by the new generation of deep learning-based protein structure predictors

基于深度学习的新一代蛋白质结构预测器的机遇与挑战

CURRENT OPINION IN STRUCTURAL BIOLOGY
IF7
2023-04-0112
OAAI
Varadi, Mihaly; Bordin, Nicola; Orengo, Christine; Velankar, Sameer
AlphaFold2 reveals commonalities and novelties in protein structure space for 21 model organisms

AlphaFold2揭示了21种模型生物在蛋白质结构空间中的共性和新颖性

COMMUNICATIONS BIOLOGY
IF5.1
2023-02-0838
OAAI
Bordin, Nicola; Sillitoe, Ian; Nallapareddy, Vamsi; Rauer, Clemens; Lam, Su Datt; Waman, Vaishali P.; Sen, Neeladri; Heinzinger, Michael; Littmann, Maria; Kim, Stephanie; Velankar, Sameer; Steinegger, Martin; Rost, Burkhard; Orengo, Christine
EMBL's European Bioinformatics Institute (EMBL-EBI) in 2022

EMBL的欧洲生物信息学研究所 (embl-ebi) 2022年

NUCLEIC ACIDS RESEARCH
IF13.1
2022-12-0728
OAAI
Thakur, Matthew; Bateman, Alex; Brooksbank, Cath; Freeberg, Mallory; Harrison, Melissa; Hartley, Matthew; Keane, Thomas; Kleywegt, Gerard; Leach, Andrew; Levchenko, Mariia; Morgan, Sarah; McDonagh, Ellen M.; Orchard, Sandra; Papatheodorou, Irene; Velankar, Sameer; Vizcaino, Juan Antonio; Witham, Rick; Zdrazil, Barbara; McEntyre, Johanna

Research Directions

The data has not been retrieved yet.
G
Gerard J. Kleywegt
H-index:74Papers:244Citations:3.2万
M
Mihály Váradi
H-index:31Papers:111Citations:2.2万
J
Jose M Dana
H-index:14Papers:16Citations:3,194
M
Mandar Deshpande
H-index:28Papers:125Citations:1.2万
S
Shoshana J. Wodak
H-index:77Papers:301Citations:2.2万
A
Aleksandras Gutmanas
H-index:23Papers:67Citations:3,663
S
Saqib Mir
H-index:16Papers:28Citations:2,868
S
S.K. Burley
H-index:106Papers:1,272Citations:5.2万
J
John M. Berrisford
H-index:26Papers:62Citations:5,102
D
David Sehnal
H-index:18Papers:112Citations:4,301