Scientific Papers with Software Mentions

10.1016/j.cell.2017.04.010

Cryo-EM Structure of a Relaxase Reveals the Molecular Basis of DNA Unwinding during Bacterial Conjugation
Cited by: 51
Author(s): Aravindan Ilangovan, Christopher W. M. Kay, Sandro Roier, Hassane El Mkami, Enrico Salvadori, Ellen L. Zechner, Giulia Zanetti, Gabriel Waksman
Software Mentions: 1
Published: over 7 years ago

10.1016/j.cell.2016.10.005

Structure of the MIS12 Complex and Molecular Basis of Its Interaction with CENP-C at Human Kinetochores
Cited by: 120
Author(s): Arsen Petrovic, Jenny Keller, Yahui Liu, Katharina Overlack, Juliane John, Yoana N. Dimitrova, Simon Jenni, Suzan van Gerwen, Patricia Stege, Sabine Wohlgemuth, Pascaline Rombaut, Franz Herzog, Stephen C. Harrison, Ingrid R. Vetter, Andrea Musacchio
Software Mentions: 1
Published: about 8 years ago

10.1016/j.cell.2018.02.032

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance
Cited by: 33
Author(s): Anna Rubio-Cosials, Eike C. Schulz, Lotte Lambertsen, Georgy Smyshlyaev, Carlos Rojas‐Cordova, Kristoffer Forslund, Ezgi Karaca, Aleksandra Bebel, Peer Bork, O. Barábas
Software Mentions: 1
Published: over 6 years ago

10.1016/j.cell.2009.11.015

The Structural Basis for mRNA Recognition and Cleavage by the Ribosome-Dependent Endonuclease RelE
Cited by: 199
Author(s): Cajetan Neubauer, Yong‐Gui Gao, Kasper R. Andersen, C.M. Dunham, A.C. Kelley, Jendrik Hentschel, Kenn Gerdes, V. Ramakrishnan, D.E. Brodersen
Software Mentions: 1
Published: almost 15 years ago

10.1016/j.chembiol.2017.05.014

The Structure of the Guanidine-II Riboswitch
Cited by: 53
Author(s): Lin Huang, Jia Wang, David M.J. Lilley
Software Mentions: 1
Published: over 7 years ago

10.1016/j.chembiol.2018.11.001

(ADP-ribosyl)hydrolases: Structural Basis for Differential Substrate Recognition and Inhibition
Cited by: 44
Author(s): J.G.M. Rack, Antonio Ariza, Bryon Drown, Callum Henfrey, Edward Bartlett, Tomohiro Shirai, Paul J. Hergenrother, Ivan Ahel
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41421-021-00283-0

Crystal structure of the INTS3/INTS6 complex reveals the functional importance of INTS3 dimerization in DSB repair
Cited by: 9
Author(s): Jia Yu, Zhongtao Cheng, S.R. Bharath, Qingguo Sun, Nannan Su, Jun Huang, Haiwei Song
Software Mentions: 1
Published: over 3 years ago

10.1038/s41421-018-0044-z

Structural visualization of RNA polymerase III transcription machineries
Cited by: 55
Author(s): Yanping Han, Yan Cheng, Susan Fishbain, Ivaylo Ivanov, Yuan He
Software Mentions: 1
Published: over 6 years ago

10.1038/s41421-021-00284-z

Molecular insights into the human ABCB6 transporter
Cited by: 14
Author(s): Guangyuan Song, Sensen Zhang, Mengqi Tian, Laixing Zhang, Runyu Guo, Wei Zhuo, Maojun Yang
Software Mentions: 1
Published: over 3 years ago

10.1038/s41423-018-0012-4

A critical epitope in CD147 facilitates memory CD4+ T-cell hyper-activation in rheumatoid arthritis
Cited by: 22
Author(s): Na Guo, Sheng Ye, Kui Zhang, Yu Xl, Hong‐Yong Cui, Xiang-Min Yang, Lin Peng, Miaomiao Lv, Jinlin Miao, Yang Zhang, Qing Han, Rongguang Zhang, Zhi‐Nan Chen, Ping Zhu
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-14-887

Genome comparison of two Magnaporthe oryzae field isolates reveals genome variations and potential virulence effectors
Cited by: 43
Author(s): Chenxi Chen, Bi Lian, Jinnan Hu, Huan-Chen Zhai, Xingxing Wang, R. C. Venu, Erming Liu, Zhilong Wang, Meilian Chen, Baohua Wang, Guoliang Wang, Zonghua Wang, Thomas K. Mitchell
Software Mentions: 1
Published: almost 11 years ago

10.1016/j.celrep.2014.06.001

FAN1 Activity on Asymmetric Repair Intermediates Is Mediated by an Atypical Monomeric Virus-type Replication-Repair Nuclease Domain
Cited by: 22
Author(s): Simon Pennell, Anne-Cécile Déclais, Jiejin Li, L.F. Haire, W.M.A. van den Berg, José W. Saldanha, Ian A. Taylor, John Rouse, David M.J. Lilley, Stephen J. Smerdon
Software Mentions: 1
Published: over 10 years ago

10.1038/cr.2017.148

Structural basis for specific flagellin recognition by the NLR protein NAIP5
Cited by: 52
Author(s): Xuanming Yang, Fan Yang, Weiguang Wang, Ge Lin, Zhongzhi Hu, Zhifu Han, Yijun Qi, Liman Zhang, Jiawei Wang, Sen-Fang Sui, Jijie Chai
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41422-019-0237-5

Mammalian ALKBH1 serves as an N6-mA demethylase of unpairing DNA
Cited by: 62
Author(s): Min Zhang, Sen Yang, Raman Nelakanti, Wentao Zhao, Gaochao Liu, Zheng Li, Xiaohui Liu, Tao Wu, Andrew Xiao, Haitao Li
Software Mentions: 1
Published: almost 5 years ago

10.1186/1471-2164-13-542

The Caulobacter crescentus phage phiCbK: genomics of a canonical phage
Cited by: 81
Author(s): Jason J. Gill, Joel D. Berry, William K. Russell, Lauren Lessor, Diego A Escobar-Garcia, Daniel Antonio Hernández, Ashley Kane, Jennifer L. Keene, Matthew L. Maddox, Rebecca Martin, Sheba Mohan, Ashlyn M Thorn, David H. Russell, Ry Young
Software Mentions: 1
Published: about 12 years ago

10.1186/s12864-016-2589-2

The impact and origin of copy number variations in the Oryza species
Cited by: 29
Author(s): Zetao Bai, Jinfeng Chen, Yi Liao, Meijiao Wang, Liu Rong, Song Ge, Rod A. Wing, Mingsheng Chen
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-017-3643-4

Uncovering SNP and indel variations of tetraploid cottons by SLAF-seq
Cited by: 24
Author(s): Chao Shen, Xin Jin, De Zhu, Zhongxu Lin
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-019-5948-y

Genome-wide identification and expression analysis of the BURP domain-containing genes in Gossypium hirsutum
Cited by: 15
Author(s): Hongguang Sun, Hengling Wei, Hantao Wang, Pengbo Hao, Lijiao Gu, Guoyuan Liu, Liang Ma, Zhengzheng Su, Shuang Yu
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-12-639

Refinement of Bos taurus sequence assembly based on BAC-FISH experiments
Cited by: 13
Author(s): Giulia Partipilo, Pietro D’Addabbo, Giovanni Michele Lacalandra, George E. Liu, Mariano Rocchi
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12864-016-3123-2

Members of WRKY Group III transcription factors are important in TYLCV defense signaling pathway in tomato (Solanum lycopersicum)
Cited by: 64
Author(s): Ying Huang, Mengyao Li, Peng Wu, Zhihong Xu, Qing Feng, Rui Wang, Ai‐Sheng Xiong
Software Mentions: 1
Published: about 8 years ago

10.1186/s12864-016-2455-2

Dissecting genetics of cutaneous miRNA in a mouse model of an autoimmune blistering disease
Cited by: 9
Author(s): Yask Gupta, Steffen Möller, Mareike Witte, Meriem Belheouane, Tanya Sezin, Misa Hirose, Artem Vorobyev, Felix Niesar, Julia Bischof, Ralf J. Ludwig, Detlef Zillikens, Christian D. Sadik, Tobias Restle, Robert Häsler, John F. Baines, Saleh M. Ibrahim
Software Mentions: 1
Published: almost 9 years ago

10.1186/1471-2164-15-458

Genetic dynamics underlying phenotypic development of biomass yield in triticale
Cited by: 18
Author(s): Wenxin Liu, Manje Gowda, Jochen C. Reif, Volker Hahn, Arno Ruckelshausen, Elmar A. Weissmann, Hans Peter Maurer, Tobias Würschum
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2164-15-309

High density SNP and SSR-based genetic maps of two independent oil palm hybrids
Cited by: 67
Author(s): Ngoot‐Chin Ting, J. Jansen, Sean Mayes, Festo Massawe, Ravigadevi Sambanthamurthi, Leslie Cheng‐Li Ooi, Cheuk Weng Chin, Xaviar Arulandoo, Seng TzerYing, Sharifah Shahrul Rabiah Syed Alwee, Maizura Ithnin, Rajinder Singh
Software Mentions: 1
Published: over 10 years ago

10.1186/s12864-021-07821-w

The BBX gene family in Moso bamboo (Phyllostachys edulis): identification, characterization and expression profiles
Cited by: 16
Author(s): Ruifang Ma, Jialu Chen, Bin Huang, Zhinuo Huang, Zhijun Zhang
Software Mentions: 1
Published: over 3 years ago

10.1186/s12864-016-3302-1

A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition
Cited by: 9
Author(s): Zengzhi Si, Bing Du, Jinxi Huo, Shaozhen He, Qingchang Liu, Hong Zhai
Software Mentions: 1
Published: about 8 years ago

10.1186/s12864-017-4021-y

SVachra: a tool to identify genomic structural variation in mate pair sequencing data containing inward and outward facing reads
Cited by: 6
Author(s): Oliver A. Hampton, Adam C. English, Mark Wang, William Salerno, Yue Liu, Donna M. Muzny, Yi Han, David A. Wheeler, Kim C. Worley, James R. Lupski, Richard A. Gibbs
Software Mentions: 1
Published: about 7 years ago

10.1038/s41422-018-0091-x

Small molecule inhibitors reveal allosteric regulation of USP14 via steric blockade
Cited by: 79
Author(s): Yiwei Wang, Yuxuan Jiang, Shan Ding, Jiawang Li, Nguyễn Hải Sông, Yujing Ren, Danning Hong, Wu Cai, Bin Li, Feng Wang, Wei He, Jiawei Wang, Ziqing Mei
Software Mentions: 1
Published: about 6 years ago

10.1038/cr.2017.83

Dimeric structure of the uracil:proton symporter UraA provides mechanistic insights into the SLC4/23/26 transporters
Cited by: 82
Author(s): Xuelian Yu, Guanghui Yang, Chuangye Yan, Javier L. Baylon, Jing Jiang, Fuchu He, Gongxun Lu, Kazuya Hasegawa, Hideo Okumura, Tingliang Wang, Emad Tajkhorshid, Shuo Li, Nieng Yan
Software Mentions: 1
Published: over 7 years ago

10.1016/j.tcsw.2018.06.002

The role of the jaw subdomain of peptidoglycan glycosyltransferases for lipid II polymerization
Cited by: 6
Author(s): Avinash S. Punekar, Firdaus Samsudin, Adrian J. Lloyd, Christopher G. Dowson, David J. Scott, Syma Khalid, David I. Roper
Software Mentions: 1
Published: over 6 years ago

10.1080/19336950.2018.1457898

X-ray crystallography of TRP channels
Cited by: 5
Author(s): Appu Kumar Singh, L.L. McGoldrick, Kei Saotome, Alexander I. Sobolevsky
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.chembiol.2015.10.015

Unraveling the B. pseudomallei Heptokinase WcbL: From Structure to Drug Discovery
Cited by: 7
Author(s): Mirella Vivoli, Michail N. Isupov, Rebecca Nicholas, Andrew M. Hill, Andrew E. Scott, Paul Kosma, Joann L. Prior, Nicholas J. Harmer
Software Mentions: 1
Published: almost 9 years ago

10.1039/d0sc01935f

Enhancing a de novo enzyme activity by computationally-focused ultra-low-throughput screening
Cited by: 22
Author(s): Valeria A. Risso, Adrian Romero‐Rivera, Luis I. Gutierrez-Rus, Mariano Ortega‐Muñoz, Francisco Santoyo‐González, José A. Gavira, José M. Sanchez-Ruiz, Shina Caroline Lynn Kamerlin
Software Mentions: 1
Published: almost 5 years ago

10.1039/c5sc03397g

A structural view of synthetic cofactor integration into [FeFe]-hydrogenases
Cited by: 115
Author(s): Julian Esselborn, Norifumi Muraki, Kathrin Klein, Vera Engelbrecht, Nils Metzler‐Nolte, Ulf‐Peter Apfel, Eckhard Hofmann, Genji Kurisu, Thomas Happe
Software Mentions: 1
Published: almost 9 years ago

10.1039/c8sc04564j

Predicting protein–ligand binding affinity and correcting crystal structures with quantum mechanical calculations: lactate dehydrogenase A
Cited by: 10
Author(s): Iva Lukac, Hend E. Abdelhakim, Richard A. Ward, Stephen A. St-Gallay, Judith C. Madden, Andrew G. Leach
Software Mentions: 1
Published: almost 6 years ago

10.1002/cbic.201402597

Hen Egg‐White Lysozyme Crystallisation: Protein Stacking and Structure Stability Enhanced by a Tellurium(VI)‐Centred Polyoxotungstate
Cited by: 67
Author(s): Aleksandar Bijelic, Christian Molitor, S.G. Mauracher, Rami Al‐Oweini, Ulrich Kortz, Annette Rompel
Software Mentions: 1
Published: almost 10 years ago

10.1038/s42003-020-01221-8

Structural basis of redox modulation on chloroplast ATP synthase
Cited by: 22
Author(s): Jay How Yang, Dewight Williams, Eaazhisai Kandiah, Petra Fromme, Po-Lin Chiu
Software Mentions: 1
Published: about 4 years ago

10.1038/s42003-021-02362-0

Structural plasticity of mumps virus nucleocapsids with cryo-EM structures
Cited by: 9
Author(s): Saw-See Hong, Xin Su, Tianhao Li, Yuqi Qin, Na Zhang, Liuyan Yang, Lie Ma, Yun Bai, Lei Qi, Yunhui Liu, Qing-Tao Shen
Software Mentions: 1
Published: over 3 years ago

10.1038/s42003-019-0482-7

Crystal structure of human endothelin ETB receptor in complex with peptide inverse agonist IRL2500
Cited by: 27
Author(s): Chisae Nagiri, Wataru Shihoya, Asuka Inoue, Francois Marie Ngako Kadji, Junken Aoki, Osamu Nureki
Software Mentions: 1
Published: over 5 years ago

10.1038/s42003-021-01815-w

Entropy-driven binding of gut bacterial β-glucuronidase inhibitors ameliorates irinotecan-induced toxicity
Cited by: 13
Author(s): Hong-Shiang Lin, Chia-Yu Chen, Ting-Chien Lin, Lun-Fu Yeh, Wei‐Che Hsieh, Shijay Gao, Pierre-Alain Burnouf, Bing‐Mae Chen, T.J. Hsieh, P. Dashnyam, Yen-Hsi Kuo, Zhijay Tu, Steve R. Roffler, Chun‐Hung Lin
Software Mentions: 1
Published: over 3 years ago

10.1038/s42003-020-01286-5

Caffeine inhibits Notum activity by binding at the catalytic pocket
Cited by: 10
Author(s): Yuguang Zhao, Jingshan Ren, James Hillier, Wenjing Lu, E.Y. Jones
Software Mentions: 1
Published: about 4 years ago

10.1038/s42003-018-0121-8

Structural basis for promotion of duodenal iron absorption by enteric ferric reductase with ascorbate
Cited by: 25
Author(s): Menega Ganasen, Hiromi Togashi, Hanae Takeda, Hiroyuki Asakura, Takehiko Tosha, Keitaro Yamashita, Kunio Hirata, Yoshiki Nariai, Takeshi Urano, Xian‐You Yuan, Iqbal Hamza, A. Grant Mauk, Yoshitsugu Shiro, Hiroshi Sugimoto, Hitomi Sawai
Software Mentions: 1
Published: over 6 years ago

10.1038/s42003-020-01621-w

Porphyromonas gingivalis fimbrial protein Mfa5 contains a von Willebrand factor domain and an intramolecular isopeptide
Cited by: 10
Author(s): T.V. Heidler, Karin Ernits, Agnieszka Ziółkowska, Rolf Claesson, Karina Persson
Software Mentions: 1
Published: almost 4 years ago

10.1038/s42003-021-02088-z

Cryo-EM structure of mammalian RNA polymerase II in complex with human RPAP2
Cited by: 8
Author(s): Isaac Fianu, Christian Dienemann, Shintaro Aibara, S. Schilbach, Patrick Cramer
Software Mentions: 1
Published: over 3 years ago

10.1038/s42003-020-0997-y

Steric occlusion regulates proximal interactions of acyl carrier protein domain in fungal fatty acid synthase
Cited by: 5
Author(s): Jennifer W. Lou, Mohammad T. Mazhab-Jafari
Software Mentions: 1
Published: over 4 years ago

10.1038/s42003-020-0780-0

Cryo-EM study of an archaeal 30S initiation complex gives insights into evolution of translation initiation
Cited by: 24
Author(s): Pierre‐Damien Coureux, Christine Lazennec‐Schurdevin, Sophie Bourcier, Yves Mechulam, Emmanuelle Schmitt
Software Mentions: 1
Published: almost 5 years ago

10.1038/s42003-020-01121-x

Molecular mechanism of mitochondrial phosphatidate transfer by Ups1
Cited by: 4
Author(s): Jiuwei Lu, Chun Chan, Leiye Yu, Jun Fan, Fei Sun, Yujia Zhai
Software Mentions: 1
Published: about 4 years ago

10.1038/s42003-021-02156-4

Cryo-EM structure of type 1 IP3R channel in a lipid bilayer
Cited by: 45
Author(s): Mariah R. Baker, Guizhen Fan, Alexander Seryshev, Melina A. Agosto, Matthew L. Baker, Irina I. Serysheva
Software Mentions: 1
Published: over 3 years ago

10.1016/j.csbj.2020.03.004

Structure, dynamics and immunogenicity of a catalytically inactive CXC chemokine-degrading protease SpyCEP from Streptococcus pyogenes
Cited by: 16
Author(s): Sophie McKenna, E. Malito, Sarah L. Rouse, Francesca Abate, Giuliano Bensi, Emiliano Chiarot, Francesca Micoli, Francesca Mancini, Danilo Gomes Moriel, Guido Grandi, Danuta E. Mossakowska, Max Pearson, Yingqi Xu, James E. Pease, Shiranee Sriskandan, Immaculada Margarit, Matthew J. Bottomley, Stephen Matthews
Software Mentions: 1
Published: almost 5 years ago

10.1016/j.dib.2016.03.082

Structural dataset for the PPARγ V290M mutant
Cited by: 1
Author(s): Ana C. Puhl, Paul Webb, Igor Polikarpov
Software Mentions: 1
Published: over 8 years ago

10.1186/1472-6823-13-58

Sodium glucose co-transport 2 inhibitors in the treatment of type 2 diabetes mellitus: a meta-analysis of randomized double-blind controlled trials
Cited by: 66
Author(s): Asres Berhan, Alex J. Barker
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-018-5047-5

Genome-wide identification and expression analyses of the pectate lyase (PEL) gene family in cotton (Gossypium hirsutum L.)
Cited by: 29
Author(s): Hongguang Sun, Pengbo Hao, Qiang Ma, Meng Zhang, Yuan Qin, Hengling Wei, Junji Su, Hantao Wang, Lijiao Gu, Nuohan Wang, Guoyuan Liu, Shuang Yu
Software Mentions: 1
Published: about 6 years ago

10.1186/1471-2164-11-636

Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus)
Cited by: 26
Author(s): Lucile Soler, Matthew A. Conte, Takayuki Katagiri, Aimée E. Howe, Bo-Young Lee, Chris T. Amemiya, Andrew B. Stuart, Carole Dossat, Julie Poulain, Jeremy Johnson, Federica Di Palma, Kerstin Lindblad‐Toh, Jean‐François Baroiller, Hélèna D'Cotta, Catherine Ozouf−Costaz, Thomas D. Kocher
Software Mentions: 1
Published: about 14 years ago

10.1186/s12864-017-3762-y

Discrimination of candidate subgenome-specific loci by linkage map construction with an S1 population of octoploid strawberry (Fragaria × ananassa)
Cited by: 14
Author(s): Soichiro Nagano, Kenta Shirasawa, Hideki Hirakawa, Fumi Maeda, M. Ishikawa, Sachiko Isobe
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-11-599

Genomic analysis and relatedness of P2-like phages of the Burkholderia cepacia complex
Cited by: 55
Author(s): Karlene H. Lynch, Paul Stothard, Jonathan J. Dennis
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2164-15-354

Whole genome profiling of spontaneous and chemically induced mutations in Toxoplasma gondii
Cited by: 30
Author(s): Andrew Farrell, Bradley I. Coleman, Brian Benenati, Kevin M. Brown, Ira J. Blader, Gábor Marth, Marc–Jan Gubbels
Software Mentions: 1
Published: over 10 years ago

10.1186/s12864-015-2289-3

Exploring the genomic traits of fungus-feeding bacterial genus Collimonas
Cited by: 52
Author(s): Song Cui, Ruth Schmidt, Victor de Jager, D. Krzyżanowska, E. Jongedijk, Katarina Cankar, Jules Beekwilder, Anouk van der Veen, Wietse de Boer, Johannes A. van Veen, Paolina Garbeva
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12864-016-3184-2

Genome-wide investigation and expression analyses of the pentatricopeptide repeat protein gene family in foxtail millet
Cited by: 23
Author(s): Jiaming Liu, Zhao‐Shi Xu, Panpan Lu, Weiwei Li, Ming Chen, Changhong Guo, Yupo Ma
Software Mentions: 1
Published: about 8 years ago

10.1186/1471-2164-13-471

Comparative genomic analysis of Geobacter sulfurreducens KN400, a strain with enhanced capacity for extracellular electron transfer and electricity production
Cited by: 37
Author(s): Jessica Butler, Nelson D. Young, Muktak Aklujkar, Derek R. Lovley
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12864-015-1990-6

Genome-wide systematic characterization of the bZIP transcriptional factor family in tomato (Solanum lycopersicum L.)
Cited by: 96
Author(s): Dayong Li, Fuyou Fu, Huijuan Zhang, Fengming Song
Software Mentions: 1
Published: about 9 years ago

10.1016/j.devcel.2018.05.032

CLASP Suppresses Microtubule Catastrophes through a Single TOG Domain
Cited by: 88
Author(s): Amol Aher, Maurits Kok, Ashwani Sharma, Ankit Rai, Natacha Olieric, Ruddi Rodríguez-García, Eugene A. Katrukha, T. Weinert, V. Oliéric, Lukas C. Kapitein, Michel O. Steinmetz, Marileen Dogterom, Anna Akhmanova
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-14-639

Extensively duplicated and transcriptionally active recent lateral gene transfer from a bacterial Wolbachia endosymbiont to its host filarial nematode Brugia malayi
Cited by: 38
Author(s): Panagiotis Ioannidis, Kelly L. Johnston, David R. Riley, Nikhil Kumar, James R. White, Karen T Olarte, Sandra Ott, Luke J. Tallon, Jeremy M. Foster, Mark J. Taylor, Julie C. Dunning Hotopp
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2164-15-1168

NextGen sequencing reveals short double crossovers contribute disproportionately to genetic diversity in Toxoplasma gondii
Cited by: 15
Author(s): Asis Khan, Jahangheer Shaik, Michael S. Behnke, Qiuling Wang, J. P. Dubey, Hernán Lorenzi, James W. Ajioka, Benjamin M. Rosenthal, L. David Sibley
Software Mentions: 1
Published: almost 10 years ago

10.15252/embj.2018100772

Nucleotide signaling pathway convergence in a cAMP‐sensing bacterial c‐di‐GMP phosphodiesterase
Cited by: 10
Author(s): Ian T. Cadby, Sarah M. Basford, Ruth Nottingham, Richard W. Meek, Rebecca Lowry, Carey Lambert, Matthew Tridgett, Rob Till, Rashidah Ahmad, Rowena Fung, Laura Hobley, William S. Hughes, Patrick J. Moynihan, R. Elizabeth Sockett, Andrew L. Lovering
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-07330-2

Genome-wide identification of the 14–3-3 gene family and its participation in floral transition by interacting with TFL1/FT in apple
Cited by: 17
Author(s): Xiya Zuo, Shixiang Wang, Xiang Wen, Huiru Yang, Muhammad Mobeen Tahir, Shangong Zheng, Na An, Mingyu Han, Caiping Zhao, Dong Zhang
Software Mentions: 1
Published: almost 4 years ago

10.15252/embj.201798875

Mechanism of <scp>APTX</scp> nicked <scp>DNA</scp> sensing and pleiotropic inactivation in neurodegenerative disease
Cited by: 11
Author(s): Percy Tumbale, M.J. Schellenberg, Geoffrey A. Mueller, Emma Fairweather, Mandy Watson, Jessica Neville Little, J.M. Krahn, Ian D. Waddell, Robert E. London, R. Scott Williams
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-019-6262-4

Genome sequence of the model rice variety KitaakeX
Cited by: 49
Author(s): Rashmi Jain, Jerry Jenkins, Shengqiang Shu, Mawsheng Chern, Joel Martin, Dario Copetti, Phat Q. Duong, Nikki T. Pham, David Kudrna, Jayson Talag, Wendy Schackwitz, Anna Lipzen, David Dilworth, Diane Bauer, Jane Grimwood, Catherine R. Nelson, Xing Feng, Weibo Xie, Kerrie Barry, Rod A. Wing, Jeremy Schmutz, Guotian Li, Pamela C. Ronald
Software Mentions: 1
Published: almost 5 years ago

10.15252/embr.201541520

Centromere localization and function of Mis18 requires Yippee‐like domain‐mediated oligomerization
Cited by: 34
Author(s): Lakxmi Subramanian, Bethan Medina‐Pritchard, Rachael Barton, Frances Spiller, Raghavendran Kulasegaran‐Shylini, Guoda Radaviciute, Robin C. Allshire, A. Arockia Jeyaprakash
Software Mentions: 1
Published: over 8 years ago

10.15252/embr.201643374

Molecular architecture of the N‐type <scp>ATP</scp>ase rotor ring from Burkholderia pseudomallei
Cited by: 36
Author(s): Sarah Schulz, Martin Wilkes, Deryck J. Mills, Werner Kühlbrandt, Thomas Meier
Software Mentions: 1
Published: over 7 years ago

10.15252/embr.202051015

Respiratory supercomplexes enhance electron transport by decreasing cytochrome c diffusion distance
Cited by: 61
Author(s): Jens Berndtsson, Andreas Aufschnaiter, Sorbhi Rathore, Lorena Marín-Buera, Hannah Dawitz, Jutta Diessl, Verena Kohler, Antoni Barrientos, Sabrina Büttner, Flavia Fontanesi, Martin Ott
Software Mentions: 1
Published: about 4 years ago

10.1186/s12864-017-3791-6

A reference genome for Nicotiana tabacum enables map-based cloning of homeologous loci implicated in nitrogen utilization efficiency
Cited by: 219
Author(s): Kieron D. Edwards, Noe Fernandez‐Pozo, Katherine E Drake-Stowe, Matt Humphry, Andrew Evans, Aureliano Bombarely, F H Allen, Rachel Hurst, Ben White, Sheri P. Kernodle, Jennifer R. Bromley, Juan Pablo Sanchez-Tamburrino, Ramsey S. Lewis, Lukas A. Mueller
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-13-593

A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping
Cited by: 111
Author(s): Patrick Ollitrault, Javier Terol, Chunxian Chen, Claire T. Federici, Samia Lotfy, Isabelle Hippolyte, Frédérique Ollitrault, Aurélie Bérard, Aurélie Chauveau, José Cuenca, Gilles Costantino, A.Yildiz Kacar, Lisa Mu, Andrés García-Lor, Yann Froelicher, Pablo Aleza, Anne Boland, Claire Billot, Luís Navarro, François Luro, Mikeal L. Roose, Frederick G. Gmitter, Manuel Talón, Dominique Brunel
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12864-016-2368-0

De novo transcriptome analyses of host-fungal interactions in oil palm (Elaeis guineensis Jacq.)
Cited by: 66
Author(s): Chai Ling Ho, Yung-Chie Tan, Keat Ai Yeoh, Ahmad Kamal Ghazali, Wai Yan Yee, Chee Choong Hoh
Software Mentions: 1
Published: almost 9 years ago

10.1080/22221751.2019.1625727

Cisplatin protects mice from challenge of Cryptococcus neoformans by targeting the Prp8 intein
Cited by: 18
Author(s): Zhong Li, Bin Fu, Cathleen M. Green, Binbin Liu, Jing Zhang, Yuekun Lang, Sudha Chaturvedi, Marlene Belfort, Guojian Liao, Hongmin Li
Software Mentions: 1
Published: almost 6 years ago

10.1007/s00249-019-01411-1

Binding of HasA by its transmembrane receptor HasR follows a conformational funnel mechanism
Cited by: 4
Author(s): Thomas E. Exner, Stefanie Becker, Simon Becker, Audrey Boniface-Guiraud, Philippe Delepelaire, Kay Diederichs, Wolfram Welte
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12864-016-2632-3

Comparative genomics reveals Cyclospora cayetanensis possesses coccidia-like metabolism and invasion components but unique surface antigens
Cited by: 41
Author(s): Shiyou Liu, Lin Wang, Huajun Zheng, Zhixiao Xu, Dawn M. Roellig, Na Li, Michael Frace, Kevin Tang, Michael J. Arrowood, Delynn M. Moss, Longxian Zhang, Yaoyu Feng, Lihua Xiao
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-015-1435-2

Complete genome sequence and analysis of Lactobacillus hokkaidonensis LOOC260T, a psychrotrophic lactic acid bacterium isolated from silage
Cited by: 40
Author(s): Yasuhiro Tanizawa, Masanori Tohno, Eli Kaminuma, Yasukazu Nakamura, Masanori Arita
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-018-5010-5

In vivo evolution of drug-resistant Mycobacterium tuberculosis in patients during long-term treatment
Cited by: 17
Author(s): Yuhui Xu, Fei Liu, Suting Chen, Juan Wu, Yongfei Hu, Baoli Zhu, Zhaogang Sun
Software Mentions: 1
Published: about 6 years ago

10.1096/fba.2018-00039

A novel mutation alters the stability of PapA2 resulting in the complete abrogation of sulfolipids in clinical mycobacterial strains
Cited by: 9
Author(s): Vipul Panchal, Nidhi Jatana, Anchal Malik, Bhupesh Taneja, Ravikant Pal, Apoorva Bhatt, Gurdyal S. Besra, Lipi Thukral, Sarika Chaudhary, V. Pandu Ranga Rao
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-07290-7

Genome-wide identification, evolution and expression analysis of the aspartic protease gene family during rapid growth of moso bamboo (Phyllostachys edulis) shoots
Cited by: 7
Author(s): Xiaqin Wang, Xinyang Yan, Shubin Li, Jiangni Yun, Lianfeng Gu, Shuangquan Zou, Jin Zhang, Bobin Liu
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12864-018-5023-0

Analysis of genome sequence and symbiotic ability of rhizobial strains isolated from seeds of common bean (Phaseolus vulgaris)
Cited by: 10
Author(s): Alejandro Aguilar, Yolanda Mora, Araceli Dávalos, Lourdes Girard, Jaime Mora, Humberto Peralta
Software Mentions: 1
Published: about 6 years ago

10.1002/2211-5463.13214

Reviving lost binding sites: Exploring calcium‐binding site transitions between human and murine CD23
Cited by: 2
Author(s): V.F. Ilkow, Anna M. Davies, B. Dhaliwal, Andrew J. Beavil, Brian J. Sutton, James M. McDonnell
Software Mentions: 1
Published: over 3 years ago

10.3389/fcell.2021.650106

Complex Crystal Structure Determination and in vitro Anti–non–small Cell Lung Cancer Activity of Hsp90N Inhibitor SNX-2112
Cited by: 3
Author(s): Dong Zhao, Yiming Xu, Lu-Qi Cao, Feng Yu, Huan Zhou, Wei Qin, Hui-Jin Li, Chun‐Xia He, Lu Xing, Xin Zhou, Peng-Quan Li, Xin Jin, Yuan He, Jianhua He, Hui‐Ling Cao
Software Mentions: 1
Published: over 3 years ago

10.1186/1471-2164-14-706

Linkage mapping and expression analysis of miRNAs and their target genes during fiber development in cotton
Cited by: 14
Author(s): Xuemei Chen, Wenhui Gao, Jinfa Zhang, Xianlong Zhang, Zhongxu Lin
Software Mentions: 1
Published: about 11 years ago

10.3389/fendo.2018.00011

Screening for PPAR Non-Agonist Ligands Followed by Characterization of a Hit, AM-879, with Additional No-Adipogenic and cdk5-Mediated Phosphorylation Inhibition Properties
Cited by: 20
Author(s): Helder Veras Ribeiro Filho, Natália Bernardi Videira, Aline Villanova Bridi, Thais Tittanegro, Fernanda Aparecida Heleno Batista, José Geraldo de Carvalho Pereira, Paulo Sérgio Lopes de Oliveira, Marcio C. Bajgelman, Albane le Maire, Ana Carolina M. Figueira
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2020.00179

Conformational Plasticity of HLA-B27 Molecules Correlates Inversely With Efficiency of Negative T Cell Selection
Cited by: 5
Author(s): Bernhard Loll, Christine Rückert, Barbara Uchańska-Ziegler, Andreas Ziegler
Software Mentions: 1
Published: almost 5 years ago

10.3389/fimmu.2019.02047

Structure Based Prediction of Neoantigen Immunogenicity
Cited by: 61
Author(s): Timothy P. Riley, Grant L.J. Keller, Angela R. Smith, Lauren M. Davancaze, Alyssa G. Arbuiso, Jason R. Devlin, Brian M. Baker
Software Mentions: 1
Published: about 5 years ago

10.3389/fmicb.2018.01369

The Structural and Functional Basis for Recurring Sulfa Drug Resistance Mutations in Staphylococcus aureus Dihydropteroate Synthase
Cited by: 49
Author(s): Elizabeth C. Griffith, Miranda J. Wallace, Yinan Wu, Gyanendra Kumar, Stefan Gajewski, Pamela Jackson, Gregory A. Phelps, Zhong Zheng, Charles O. Rock, Richard Lee, Stephen W. White
Software Mentions: 1
Published: over 6 years ago

10.1186/s12862-017-0978-z

The skeletal proteome of the sea star Patiria miniata and evolution of biomineralization in echinoderms
Cited by: 19
Author(s): Rachel L. Flores, Brian T. Livingston
Software Mentions: 1
Published: over 7 years ago

10.1080/21505594.2018.1462060

Discovery of a mcr-1-bearing plasmid in commensal colistin-resistant Escherichia coli from healthy broilers in Faisalabad, Pakistan
Cited by: 31
Author(s): Jiali Lv, Mashkoor Mohsin, Sheng Lei, Swaminath Srinivas, Raja Talish Wiqar, Jingxia Lin, Youjun Feng
Software Mentions: 1
Published: over 6 years ago

10.1080/21505594.2019.1702797

Complete genome analysis of Vibrio mimicus strain SCCF01, a highly virulent isolate from the freshwater catfish
Cited by: 13
Author(s): Zehui Yu, Erlong Wang, Yi Geng, Kaiyu Wang, Defang Chen, Xiaoli Huang, Ping Ouyang, Zhuang Zuo, Chao Huang, Jing Fang, Lizi Yin, Hongrui Guo, Zhijun Zhong
Software Mentions: 1
Published: almost 5 years ago

10.3390/v9120361

Distribution and Inferred Evolutionary Characteristics of a Chimeric ssDNA Virus Associated with Intertidal Marine Isopods
Cited by: 9
Author(s): Kalia S. I. Bistolas, Ryan M Besemer, Lars G. Rudstam, Ian Hewson
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.ppat.1004401

A Sialic Acid Binding Site in a Human Picornavirus
Cited by: 41
Author(s): Georg Zocher, Nitesh Mistry, Martin Frank, Irmgard Hähnlein-Schick, Jens‐Ola Ekström, Niklas Arnberg, Thilo Stehle
Software Mentions: 1
Published: about 10 years ago

10.3390/v12101132

Molecular Insights into Bacteriophage Evolution toward Its Host
Cited by: 10
Author(s): Marina de Leeuw, Maayan Baron, Oshrit Ben David, Ariel Kushmaro
Software Mentions: 1
Published: about 4 years ago

10.3390/pathogens10040443

Arthrobacter woluwensis Bacteremia: A Clinical and Genomic Report
Cited by: 6
Author(s): Shuyuan Li, Chin-Chuan Kao, Yucheng GuZhongli Hu, Chih Cheng Lai, Yiping Jiang, Yan–Chiao Mao, Yao‐Ting Huang, Po‐Yu Liu
Software Mentions: 1
Published: over 3 years ago

10.3390/pathogens10060702

Endosymbiont Capture, a Repeated Process of Endosymbiont Transfer with Replacement in Trypanosomatids Angomonas spp.
Cited by: 2
Author(s): Tomáš Skalický, João M. P. Alves, Anderson C. Morais, Jana Režnarová, Anzhelika Butenko, Julius Lukeš, Myrna G. Serrano, Gregory A. Buck, Marta Maria Geraldes Teixeira, Erney P. Camargo, Mandy Sanders, James A. Cotton, Vyacheslav Yurchenko, Alexei Y. Kostygov
Software Mentions: 1
Published: over 3 years ago

10.7717/peerj.3450

Diversity analysis of gut microbiota in osteoporosis and osteopenia patients
Cited by: 136
Author(s): Jihan Wang, Yangyang Wang, Wenjie Gao, Biao Wang, Heping Zhao, Yuhong Zeng, Yanhong Ji, Dingjun Hao
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.4796

Genome-wide characterization and expression analysis of GRAS gene family in pepper (Capsicum annuumL.)
Cited by: 39
Author(s): Baoling Liu, Yan Sun, Jinai Xue, Xiaoyun Jia, Runzhi Li
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.10774

Comparative analysis of the complete plastid genomes of Mangifera species and gene transfer between plastid and mitochondrial genomes
Cited by: 6
Author(s): Ying-Feng Niu, Chengwen Gao, Jin Liu
Software Mentions: 1
Published: almost 4 years ago

10.7717/peerj.8064

Comparative genomic analysis of the PAL genes in five Rosaceae species and functional identification of Chinese white pear
Cited by: 14
Author(s): Guohui Li, Han Wang, Xi Cheng, Xueqiang Su, Yu Zhao, Tao‐Shan Jiang, Jin Qiu, Yi Lin, Yongping Cai
Software Mentions: 1
Published: almost 5 years ago

10.1007/s00425-021-03596-2

Genome-wide identification and expression analysis of the Brassica oleracea L. chitin-binding genes and response to pathogens infections
Cited by: 6
Author(s): Mingzhao Zhu, Shujin Lu, Mu Zhuang, Yangyong Zhang, Honghao Lv, Jialei Ji, Xilin Hou, Zhiyuan Fang, Yong Wang, Limei Yang
Software Mentions: 1
Published: over 3 years ago