pypi: house | Projects | Ecosyste.ms: Papers

10.1186/1471-2105-13-253

G-NEST: a gene neighborhood scoring tool to identify co-conserved, co-expressed genes
Cited by: 15
Author(s): Danielle G. Lemay, William Martin, Angie S. Hinrichs, Monique Rijnkels, J. Bruce German, Ian F Korf, Katherine S. Pollard
Software Mentions: 2
Published: about 12 years ago

10.1038/s41598-017-10826-9

Direct comparison of performance of single nucleotide variant calling in human genome with alignment-based and assembly-based approaches
Cited by: 15
Author(s): Leihong Wu, Gökhan Yavaş, Huixiao Hong, Wenming Xiao
Software Mentions: 2
Published: about 7 years ago

10.1074/jbc.RA120.013316

The major subunit of widespread competence pili exhibits a novel and conserved type IV pilin fold
Cited by: 16
Author(s): Devon Sheppard, Jamie-Lee Berry, Rémi Denise, Eduardo P. C. Rocha, Steve Matthews, Vladimir Pelicic
Software Mentions: 2
Published: over 4 years ago

10.1186/1471-2164-12-463

Genome wide gene expression regulation by HIP1 Protein Interactor, HIPPI: Prediction and validation
Cited by: 13
Author(s): Moumita Datta, Ananyo Choudhury, Ansuman Lahiri, Nitai P. Bhattacharyya
Software Mentions: 2
Published: about 13 years ago

10.1038/s41598-017-14404-x

Alexithymia and emotional reactions to odors
Cited by: 20
Author(s): Cinzia Cecchetto, Raffaella I. Rumiati, Marilena Aiello
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-017-13694-5

Modeling cadmium-induced endothelial toxicity using human pluripotent stem cell-derived endothelial cells
Cited by: 22
Author(s): Ling Tang, Jun Su, Ping Liang
Software Mentions: 2
Published: about 7 years ago

10.1186/s12916-021-02034-0

Metagenome-wide association study of gut microbiome revealed potential microbial marker set for diagnosis of pediatric myasthenia gravis
Cited by: 17
Author(s): Peng Liu, Yiqi Jiang, Shanshan Gu, Yinping Xue, Hongxia Yang, Yongzhao Li, Yaxuan Wang, Congya Yan, Peng Jia, Lin X, Guoyan Qi
Software Mentions: 2
Published: over 3 years ago

10.1186/2049-2618-1-30

Genome resolved analysis of a premature infant gut microbial community reveals a Varibaculum cambriense genome and a shift towards fermentation-based metabolism during the third week of life
Cited by: 52
Author(s): Christopher T. Brown, Itai Sharon, Brian C. Thomas, Cindy J. Castelle, Michael J. Morowitz, Jillian F. Banfield
Software Mentions: 2
Published: almost 11 years ago

10.3389/fgene.2019.00333

Noonan Syndrome in South Africa: Clinical and Molecular Profiles
Cited by: 13
Author(s): Cedrik Tekendo‐Ngongang, Gloudi Agenbag, Christian Domilongo Bope, Alina Esterhuizen, Ambroise Wonkam
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-017-16166-y

Information processing in the NF-κB pathway
Cited by: 22
Author(s): Karolina Tudelska, Joanna Markiewicz, Marek Kochańczyk, Maciej Czerkies, Wiktor Prus, Zbigniew Korwek, A. Abdi, Sławomir Błoński, Bogdan Kaźmierczak, Tomasz Lipniacki
Software Mentions: 2
Published: about 7 years ago

10.1089/adt.2020.970

A Fully Integrated Assay Panel for Early Drug Metabolism and Pharmacokinetics Profiling
Cited by: 18
Author(s): Johan Wernevik, Fredrik Bergström, Anna Novén, Johan Hulthe, Linda Fredlund, Dan Addison, Jan Holmgren, Per-Erik Strömstedt, Erika Rehnström, Thomas Lundböck
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-017-16812-5

Transcriptome Analysis of Two Species of Jute in Response to Polyethylene Glycol (PEG)- induced Drought Stress
Cited by: 40
Author(s): Zemao Yang, Zhigang Dai, Ruike Lu, Bing-Fei Wu, Qing Tang, Ying Xu, Chaohua Cheng, Jianguang Su
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-017-16846-9

Combined genetic approaches yield a 48% diagnostic rate in a large cohort of French hearing-impaired patients
Cited by: 55
Author(s): David Baux, Christel Vaché, Christophe Blanchet, Marjolaine Willems, Claude Baudoin, Mélodie Moclyn, Valérie Faugère, Renaud Touraine, Bertrand Isidor, Delphine Dupin-Deguine, Mathilde Nizon, Marie‐Françoise Vincent, Sandra Mercier, C. Calais, Gema García‐García, Z. Azher, Linda M. Lambert, Yaumara Perdomo-Trujillo, Fabienne Giuliano, Mireille Claustres, M. Kœnig, M. Mondain, Anne‐Françoise Roux
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pgen.1003897

Ash1l Methylates Lys36 of Histone H3 Independently of Transcriptional Elongation to Counteract Polycomb Silencing
Cited by: 68
Author(s): Hiroyuki Miyazaki, Ken Higashimoto, Yukari Yada, Takaho A. Endo, Jafar Sharif, Toshiharu Komori, Masashi Matsushima, Haruhiko Koseki, Manabu Nakayama, Hidenobu Soejima, Hiroshi Handa, Susumu Hirose, Kusuki Nishioka
Software Mentions: 2
Published: about 11 years ago

10.3390/v12111270

Comparative Analysis of the Circular and Highly Asymmetrical Marseilleviridae Genomes
Cited by: 12
Author(s): Léo Blanca, Eugène Christo-Foroux, Sofia Rigou, Matthieu Legendre
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pgen.1001157

Balancing Selection Maintains a Form of ERAP2 that Undergoes Nonsense-Mediated Decay and Affects Antigen Presentation
Cited by: 209
Author(s): Aida M. Andrés, Megan Y. Dennis, Warren W. Kretzschmar, Jennifer L. Cannons, Shih-Queen Lee-Lin, Belén Hurlé, Nisc Comparative Sequencing Program, Pamela L. Schwartzberg, Scott Williamson, Carlos D. Bustamante, Rasmus Nielsen, Andrew G. Clark, Eric D. Green
Software Mentions: 2
Published: about 14 years ago

10.1093/database/baz133

The human DEPhOsphorylation Database DEPOD: 2019 update
Cited by: 39
Author(s): Nikhil P Damle, Maja Köhn
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pgen.1000039

Recruitment to the Nuclear Periphery Can Alter Expression of Genes in Human Cells
Cited by: 506
Author(s): Lee Finlan, Duncan Sproul, Inga Thomson, Shelagh Boyle, E. A. Kerr, Paul Perry, Bauke Ylstra, Jonathan R. Chubb, Wendy A. Bickmore
Software Mentions: 2
Published: over 16 years ago

10.1038/s41598-018-29250-8

GM-CSF driven myeloid cells in adipose tissue link weight gain and insulin resistance via formation of 2-aminoadipate
Cited by: 19
Author(s): Deanna Plubell, Alexandra M Fenton, Phillip A. Wilmarth, Paige Bergstrom, Yuqi Zhao, Jessica Minnier, Jay W. Heinecke, Xia Yang, Nathalie Pamir
Software Mentions: 2
Published: over 6 years ago

10.3390/nu10111691

A Distinct Pattern of Circulating Amino Acids Characterizes Older Persons with Physical Frailty and Sarcopenia: Results from the BIOSPHERE Study
Cited by: 70
Author(s): Riccardo Calvani, Anna Picca, Federico Marini, Alessandra Biancolillo, Jacopo Gervasoni, Silvia Persichilli, Aniello Primiano, Hélio José Coelho-Júnior, Maurizio Bossola, Andrea Urbani, Francesco Landi, Roberto Bernabei, Emanuele Marzetti
Software Mentions: 1
Published: about 6 years ago

10.1186/s40478-019-0856-6

Methylene blue inhibits Caspase-6 activity, and reverses Caspase-6-induced cognitive impairment and neuroinflammation in aged mice
Cited by: 21
Author(s): Libin Zhou, Joseph Flores, Anastasia Noël, Olivier Beauchet, P. Jesper Sjöström, Andréa C. LeBlanc
Software Mentions: 1
Published: almost 5 years ago

10.1080/0284186X.2019.1653496

The impact of proton LET/RBE modeling and robustness analysis on base-of-skull and pediatric craniopharyngioma proton plans relative to VMAT
Cited by: 11
Author(s): A. Gutiérrez, V. Rompokos, K. Li, Carl L. Gillies, D. D’Souza, Francesca Soldà, Naomi Fersht, Yu Shan Chang, G. Royle, R. Amos, Tracy Underwood
Software Mentions: 1
Published: over 5 years ago

10.18632/aging.202427

Integrative transcriptomic and metabonomic profiling analyses reveal the molecular mechanism of Chinese traditional medicine huankuile suspension on TNBS-induced ulcerative colitis
Cited by: 2
Author(s): Zheng-lan Han, Hanyan Wang, Dongmei Guo, Jingping Zhang
Software Mentions: 1
Published: almost 4 years ago

10.18632/aging.101603

Quantitative characterization of biological age and frailty based on locomotor activity records
Cited by: 29
Author(s): Timothy V. Pyrkov, Evgeny Getmantsev, Boris Zhurov, Konstantin Avchaciov, Mikhail A. Pyatnitskiy, L. I. Men’shikov, Kristina Khodova, Andrei V. Gudkov, П. О. Федичев
Software Mentions: 1
Published: about 6 years ago

10.3945/ajcn.116.131797

Protein- and zinc-deficient diets modulate the murine microbiome and metabolic phenotype
Cited by: 78
Author(s): Jordi Mayneris‐Perxachs, David T. Bolick, Joy Leng, Gregory L. Medlock, Glynis L. Kolling, Jason A. Papin, Richard L. Guerrant
Software Mentions: 1
Published: about 8 years ago

10.1007/s00216-020-02839-7

Comparison of phytochemical composition of Ginkgo biloba extracts using a combination of non-targeted and targeted analytical approaches
Cited by: 12
Author(s): Bradley J. Collins, Season Kerns, Kristin Aillon, Geoffrey A. Mueller, Cynthia V. Rider, Eugene F. DeRose, Robert E. London, James M. Harnly, Suramya Waidyanatha
Software Mentions: 1
Published: about 4 years ago

10.3390/ani11041122

The Utility of Intraventricular Pressure Gradient for Early Detection of Chemotherapy-Induced Subclinical Cardiac Dysfunction in Dogs
Cited by: 9
Author(s): Katsuhiro Matsuura, Kenjirou Shiraishi, Ahmed S. Mandour, Kazushige Sato, Kazumi Shimada, Seijirow Goya, Tomohiko Yoshida, Pitipat Kitpipatkun, Lina Hamabe, Akiko Uemura, Zeki Yılmaz, Mayumi Ifuku, Takashi Iso, Ken Takahashi, Ryou Tanaka
Software Mentions: 1
Published: over 3 years ago

10.3390/antibiotics10050596

Pan-Resistome Insights into the Multidrug Resistance of Acinetobacter baumannii
Cited by: 8
Author(s): Diego Lucas Neres Rodrigues, Francielly Morais-Rodrigues, Raquel Hurtado, Roselane Gonçalves dos Santos, Daniela Camargos Costa, Debmalya Barh, Preetam Ghosh, Khalid J. Alzahrani, Siomar C. Soares, Rommel Thiago Jucá Ramos, Aristóteles Goés-Neto, Vasco Azevedo, Flávia Figueira Aburjaile
Software Mentions: 1
Published: over 3 years ago

10.3390/antib7030025

Molecular Recognition between Aβ-Specific Single-Domain Antibody and Aβ Misfolded Aggregates
Cited by: 10
Author(s): Mingzhen Zhang, Jie Zheng, Ruth Nussinov, Buyong Ma
Software Mentions: 1
Published: over 6 years ago

10.1128/AEM.01496-16

Transmission of Staphylococcus aureus from Humans to Green Monkeys in The Gambia as Revealed by Whole-Genome Sequencing
Cited by: 29
Author(s): Madikay Senghore, Sion C. Bayliss, Brenda Kwambana-Adams, Ebenezer Foster-Nyarko, Jainaba Manneh, Michel Dione, Henry Badji, Chinelo Ebruke, Emma L. Doughty, Harry A. Thorpe, Anna J. Jasinska, Christopher A. Schmitt, Jennifer Danzy Cramer, Trudy R. Turner, George M. Weinstock, Nelson B. Freimer, Mark J. Pallen, Edward J. Feil, Martín Antonio
Software Mentions: 1
Published: about 8 years ago

10.1186/1471-2091-13-21

Characterization of methionine oxidation and methionine sulfoxide reduction using methionine-rich cysteine-free proteins
Cited by: 47
Author(s): Xinwen Liang, Alaattin Kaya, Yan Zhang, Dung Tien Le, Deame Hua, Vadim N. Gladyshev
Software Mentions: 1
Published: about 12 years ago

10.1186/1471-2105-11-62

A novel scoring function for discriminating hyperthermophilic and mesophilic proteins with application to predicting relative thermostability of protein mutants
Cited by: 38
Author(s): Yunqi Li, C. Russell Middaugh, Jianwen Fang
Software Mentions: 1
Published: almost 15 years ago

10.1186/s12859-016-1458-y

ARA-PEPs: a repository of putative sORF-encoded peptides in Arabidopsis thaliana
Cited by: 37
Author(s): Rashmi R. Hazarika, Barbara De Coninck, Lidia R. Yamamoto, Laura R. Martin, Bruno P. A. Cammue, Vera van Noort
Software Mentions: 1
Published: almost 8 years ago

10.1186/1471-2105-12-S8-S11

Detecting experimental techniques and selecting relevant documents for protein-protein interactions from biomedical literature
Cited by: 28
Author(s): Xinglong Wang, Rafał Rak, Angelo C. Restificar, Chikashi Nobata, CJ Rupp, Riza Theresa Batista-Navarro, Raheel Nawaz, Sophia Ananiadou
Software Mentions: 1
Published: about 13 years ago

10.1186/s12859-020-03881-z

Propedia: a database for protein–peptide identification based on a hybrid clustering algorithm
Cited by: 56
Author(s): Pedro Martins, Lucianna Helene Santos, Diego Mariano, Felippe C. Queiroz, Luana Luiza Bastos, Isabela de Souza Gomes, Pedro Fischer, Rafael E. O. Rocha, Simonton Andrade Silveira, Leonardo Henrique França de Lima, Mariana T.Q. de Magalhães, M. G. A. Oliveira, Raquel Cardoso de Melo‐Minardi
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12915-014-0061-9

The Tudor domain protein Tapas, a homolog of the vertebrate Tdrd7, functions in the piRNA pathway to regulate retrotransposons in germline of Drosophila melanogaster
Cited by: 36
Author(s): Veena S. Patil, Anand Alladi, Alisha Chakrabarti, Toshie Kai
Software Mentions: 1
Published: about 10 years ago

10.1186/s12885-018-4040-3

Metabolomic profiling identifies distinct phenotypes for ASS1 positive and negative GBM
Cited by: 18
Author(s): Lina Mörén, Richard Perryman, Tim Crook, Julia Langer, Kevin O’Neill, Nelofer Syed, Henrik Antti
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12885-016-2172-x

Molecular association of glucose-6-phosphate isomerase and pyruvate kinase M2 with glyceraldehyde-3-phosphate dehydrogenase in cancer cells
Cited by: 15
Author(s): Madhusweta Das, Arup K. Bag, Shekhar Saha, Alok Ghosh, Sumit K. Dey, Provas Das, Chitra Mandal, Somrita Ray, Saikat Chakrabarti, Manju Ray, Siddhartha S. Jana
Software Mentions: 1
Published: over 8 years ago

10.1186/s12885-019-5751-9

Monitoring of circulating tumor DNA and its aberrant methylation in the surveillance of surgical lung Cancer patients: protocol for a prospective observational study
Cited by: 24
Author(s): Guannan Kang, Kezhong Chen, Fan Yang, Shannon Chuai, Heng Zhao, Kai Zhang, Bingsi Li, Zhihong Zhang, Jun Wang
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2148-8-101

The phylogeny of the mammalian heme peroxidases and the evolution of their diverse functions
Cited by: 33
Author(s): Noeleen B. Loughran, Brendan O’Connor, Ciarán Ó’Fágáin, Mary J. O’Connell
Software Mentions: 1
Published: over 16 years ago

10.1186/s12864-017-3681-y

Single-base resolution methylomes of upland cotton (Gossypium hirsutum L.) reveal epigenome modifications in response to drought stress
Cited by: 55
Author(s): Xuke Lu, Xiaoge Wang, Xiugui Chen, Na Shu, Junjuan Wang, Delong Wang, Shuai Wang, Weili Fan, Lixue Guo, Xiaoning Guo, Wuwei Ye
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-017-4054-2

Identification and analysis of alternative splicing events in Phaseolus vulgaris and Glycine max
Cited by: 27
Author(s): Luis P. Íñiguez, Mario Ramı́rez, W. Brad Barbazuk, Georgina Hernández
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-14-77

Characterisation of the wheat (triticum aestivum L.) transcriptome by de novo assembly for the discovery of phosphate starvation-responsive genes: gene expression in Pi-stressed wheat
Cited by: 101
Author(s): Youko Oono, Fuminori Kobayashi, Yoshihiro Kawahara, Takayuki Yazawa, Hirokazu Handa, Takeshi Itoh, Takashi Matsumoto
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-14-519

Whole-genome resequencing of Hanwoo (Korean cattle) and insight into regions of homozygosity
Cited by: 57
Author(s): Kyung-Tai Lee, Won‐Hyong Chung, Sung-Yeoun Lee, Jung‐Woo Choi, Jiwoong Kim, Dajeong Lim, Seung Hwan Lee, Gul Won Jang, Bumsoo Kim, Yun Ho Choy, Xiaoping Liao, Paul Stothard, S. S. Moore, Sang‐Heon Lee, Sung‐Min Ahn, Namshin Kim, Tae-Hun Kim
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-10-S1-S13

PDA: an automatic and comprehensive analysis program for protein-DNA complex structures
Cited by: 21
Author(s): RyangGuk Kim, Jun‐tao Guo
Software Mentions: 1
Published: almost 16 years ago

10.1186/s12864-016-2673-7

Whole-genome optical mapping reveals a mis-assembly between two rRNA operons of Corynebacterium pseudotuberculosis strain 1002
Cited by: 10
Author(s): Diego Mariano, Thiago de Jesus Sousa, Felipe Luiz Pereira, Flávia Figueira Aburjaile, Debmalya Barh, Flávia Souza Rocha, Anne Cybelle Pinto, Syed Shah Hassan, Tessália Diniz Luerce Saraiva, Fernanda Alves Dorella, Alex F. Carvalho, Carlos Augusto Gomes Leal, Henrique César Pereira Figueiredo, Artur M. S. Silva, Rommel Thiago Jucá Ramos, Vasco Azevedo
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-018-5106-y

Full-length transcriptome sequences of ephemeral plant Arabidopsis pumila provides insight into gene expression dynamics during continuous salt stress
Cited by: 48
Author(s): Lifei Yang, Yuhuan Jin, Wei Huang, Qi Sun, Fang Liu, Xianzhong Huang
Software Mentions: 1
Published: about 6 years ago

10.1186/s12864-016-3340-8

Genomic insights from whole genome sequencing of four clonal outbreak Campylobacter jejuni assessed within the global C. jejuni population
Cited by: 23
Author(s): Clifford G. Clark, Chrystal Berry, Matthew Walker, A. Petkau, Dillon Barker, Cai Guan, Aleisha Reimer, Eduardo N. Taboada
Software Mentions: 1
Published: almost 8 years ago

10.1186/1471-2164-15-678

The Babesia bovis gene and promoter model: an update from full-length EST analysis
Cited by: 7
Author(s): Junya Yamagishi, Hiroyuki Wakaguri, Naoki Yokoyama, Riu Yamashita, Yutaka Suzuki, Xuenan Xuan, Ikuo Igarashi
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2164-15-1007

Comparative genomics of closely related Salmonella enterica serovar Typhi strains reveals genome dynamics and the acquisition of novel pathogenic elements
Cited by: 19
Author(s): Kien-Pong Yap, Han Ming Gan, Cindy Shuan Ju Teh, Lay Ching Chai, Kwai Lin Thong
Software Mentions: 1
Published: about 10 years ago

10.1186/s12864-017-4371-5

Purification of nanogram-range immunoprecipitated DNA in ChIP-seq application
Cited by: 32
Author(s): Jian Zhong, Zhenqing Ye, Samuel W. Lenz, Chad R. Clark, Adil E. Bharucha, Gianrico Farrugia, Keith D. Robertson, Zhiguo Zhang, Tamás Ördög, Jeong Heon Lee
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12864-018-4650-9

Compositional and mutational rate heterogeneity in mitochondrial genomes and its effect on the phylogenetic inferences of Cimicomorpha (Hemiptera: Heteroptera)
Cited by: 27
Author(s): Huanhuan Yang, Ling Teng, Kai Dang, Wenjun Bu
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-5-97

The association of Alu repeats with the generation of potential AU-rich elements (ARE) at 3' untranslated regions.
Cited by: 32
Author(s): Hyeong Jun An, Doheon Lee, Kwang Hyung Lee, Jong Bhak
Software Mentions: 1
Published: almost 20 years ago

10.1186/1471-2164-15-S9-S19

The bacterial proteogenomic pipeline
Cited by: 19
Author(s): Julian Uszkoreit, Nicole Plohnke, Sascha Rexroth, Katrin Marcus, Martin Eisenacher
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12864-018-5231-7

Recombination-independent rapid convergent evolution of the gastric pathogen Helicobacter pylori
Cited by: 5
Author(s): Sujay Chattopadhyay, Benjamin M. Peter, Vladimir N. Minin, Douglas E. Berg, Evgeni V. Sokurenko
Software Mentions: 1
Published: about 6 years ago

10.1186/s12864-019-5479-6

Molecular characterization of carbendazim resistance of Fusarium species complex that causes sugarcane pokkah boeng disease
Cited by: 20
Author(s): Shiqiang Xu, Jihua Wang, Haixuan Wang, Yixue Bao, Yisha Li, Muralidharan Govindaraju, Wei Yao, Baoshan Chen, Muqing Zhang
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-9-566

Genomic islands from five strains of Burkholderia pseudomallei
Cited by: 91
Author(s): Apichai Tuanyok, Benjamin R. Leadem, Raymond K. Auerbach, Stephen M. Beckstrom-Sternberg, James S. Beckstrom-Sternberg, Mark Mayo, Vanaporn Wuthiekanun, Thomas Brettin, William C. Nierman, Sharon J. Peacock, Bart J. Currie, David M. Wagner, Paul Keim
Software Mentions: 1
Published: almost 16 years ago

10.1186/1471-2164-15-S9-S18

Predicting sumoylation sites using support vector machines based on various sequence features, conformational flexibility and disorder
Cited by: 16
Author(s): Ahmet Sinan Yavuz, Uğur Sezerman
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12864-019-6380-z

An improved catalogue of putative synaptic genes defined exclusively by temporal transcription profiles through an ensemble machine learning approach
Cited by: 3
Author(s): Flavio Pazos Obregón, Martín Palazzo, Pablo Soto, Gustavo Guerberoff, Patricio Yankilevich, Rafael Cantera
Software Mentions: 1
Published: almost 5 years ago

10.1186/1471-2334-13-285

Compartmentalized, functional role of angiogenin during spotted fever group rickettsia-induced endothelial barrier dysfunction: evidence of possible mediation by host tRNA-derived small noncoding RNAs
Cited by: 45
Author(s): Bin Gong, Yong Sun Lee, Inhan Lee, Thomas R. Shelite, Nawapol Kunkeaw, Guiyun Xu, Kwanbok Lee, Sung Ho Jeon, Betty H. Johnson, Qing Chang, Tuha Ha, Nicole L. Mendell, Xiaodong Cheng, Donald H. Bouyer, Paul J. Boor, Thomas G. Ksiazek, David H. Walker
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2334-13-339

Rapid and robust phylotyping of spa t003, a dominant MRSA clone in Luxembourg and other European countries
Cited by: 11
Author(s): David M. Engelthaler, Erin Kelley, Elizabeth M. Driebe, Jolene R. Bowers, Carl Eberhard, Jesse S Trujillo, Frédéric Decruyenaere, James M. Schupp, Joël Mossong, Paul Keim, Jos Even
Software Mentions: 1
Published: over 11 years ago

10.1186/s12881-018-0525-9

Expanded carrier screening and preimplantation genetic diagnosis in a couple who delivered a baby affected with congenital factor VII deficiency
Cited by: 2
Author(s): Wen‐Bin He, Yue-Qiu Tan, Xiao Hu, Wen Li, Bo Xiong, Keli Luo, Fei Gong, Guangxiu Lu, Ge Lin, Juan Du
Software Mentions: 1
Published: almost 7 years ago

10.1186/1756-6649-9-4

Average arterial input function for quantitative dynamic contrast enhanced magnetic resonance imaging of neck nodal metastases
Cited by: 42
Author(s): Amita Shukla‐Dave, Nancy Lee, Hilda E. Stambuk, Wang Ya, Wei Huang, Howard T. Thaler, Snehal G. Patel, Jatin P. Shah, Jason A. Koutcher
Software Mentions: 1
Published: over 15 years ago

10.1186/s12866-015-0470-0

Characterization of pseudorabies virus transcriptome by Illumina sequencing
Cited by: 32
Author(s): Péter Oláh, Dóra Tombácz, Nándor Póka, Zsolt Csabai, István Prazsák, Zsolt Boldogkői
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2180-6-24

The Subviral RNA Database: a toolbox for viroids, the hepatitis delta virus and satellite RNAs research
Cited by: 71
Author(s): Lynda Rocheleau, Martin Pelchat
Software Mentions: 1
Published: over 18 years ago

10.1186/s12866-019-1655-8

Genomic and evolutionary features of two AHPND positive Vibrio parahaemolyticus strains isolated from shrimp (Penaeus monodon) of south-west Bangladesh
Cited by: 15
Author(s): Shawon Ahmmed, A. A. Khan, Md. Mostavi Enan Eshik, Nusrat Jahan Punom, Abul B.M.M.K. Islam, Mohammad Shamsur Rahman
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12866-021-02212-3

A high-throughput screening assay based on automated microscopy for monitoring antibiotic susceptibility of Mycobacterium tuberculosis phenotypes
Cited by: 1
Author(s): Sadaf Kalsum, Blanka Andersson, Jyotirmoy Das, Thomas Schön, Maria Lerm
Software Mentions: 1
Published: over 3 years ago

10.1186/1471-2377-10-77

Combination of diffusion tensor and functional magnetic resonance imaging during recovery from the vegetative state
Cited by: 52
Author(s): Davinia Fernández‐Espejo, Carme Junqué, D. Alan Cruse, Montserrat Bernabeu, Teresa Roig-Rovira, Neus Fàbregas, Eva Rivas, J.M. Mercader
Software Mentions: 1
Published: about 14 years ago

10.1186/s12887-019-1904-x

Study protocol of a randomized controlled trial of home-based computerized executive function training for children with cerebral palsy
Cited by: 7
Author(s): María García-Galant, Montse Blasco, Lee B. Reid, Kerstin Pannek, David Leiva, Olga Laporta-Hoyos, Júlia Ballester‐Plané, Júlia Miralbell, Xavier Caldú, Xènia Alonso, Esther Toro-Tamargo, Mar Meléndez-Plumed, Francisca Gimeno, Marc Coronas, Emili Soro-Camats, Roslyn N. Boyd, Roser Pueyo
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12870-018-1269-6

Low pyrrolizidine alkaloid levels in perennial ryegrass is associated with the absence of a homospermidine synthase gene
Cited by: 5
Author(s): G. P. Gill, C. Bryant, Mikhaïl Fokín, Jan Huege, Karl Fraser, Chris S. Jones, Mingshu Cao, Marty J. Faville
Software Mentions: 1
Published: over 6 years ago

10.1186/s12870-015-0562-x

Genome sequencing of herb Tulsi (Ocimum tenuiflorum) unravels key genes behind its strong medicinal properties
Cited by: 73
Author(s): Atul Kumar Upadhyay, Anita Chacko, A. Gandhimathi, Pritha Ghosh, Harini Krishnan, Agnel Praveen Joseph, Anurag Joshi, Snehal D. Karpe, Sushmita Kaushik, Nagesh A. Kuravadi, Chandana Shankara Lingu, Jarjapu Mahita, Ramya Malarini, Sony Malhotra, M. Malini, Oommen K. Mathew, Eshita Mutt, Mahantesha Bn Naika, Nitish Sathyanarayanan, Shaik Naseer Pasha, Upadhyayula S. Raghavender, Anantharamanan Rajamani, S Shilpa, Prashant Shingate, Harprit Singh, Anshul Sukhwal, Margaret S. Sunitha, Manojkumar Sumathi, Sridhar Ramaswamy, Malali Gowda, Ramanathan Sowdhamini
Software Mentions: 1
Published: about 9 years ago

10.1186/s12870-021-03059-6

Investigation of long non-coding RNAs as regulatory players of grapevine response to powdery and downy mildew infection
Cited by: 14
Author(s): Garima Bhatia, Santosh Kumar Upadhyay, Anuradha Upadhyay, Kashmir Singh
Software Mentions: 1
Published: over 3 years ago

10.1186/s12870-019-2015-4

Haplotype block analysis of an Argentinean hexaploid wheat collection and GWAS for yield components and adaptation
Cited by: 43
Author(s): Silvana Marisol Luján Basile, Ignacio Abel Ramírez, Juan Manuel Crescente, María Belén Conde, Melina Demichelis, Pablo Eduardo Abbate, William J. Rogers, Ana Clara Pontaroli, Marcelo Helguera, Leonardo Sebastián Vanzetti
Software Mentions: 1
Published: almost 5 years ago

10.1186/1471-2229-11-169

Transcriptome analysis of ectopic chloroplast development in green curd cauliflower (Brassica oleracea L. var. botrytis)
Cited by: 24
Author(s): Xiangjun Zhou, Zhangjun Fei, Theodore W. Thannhauser, Li Li
Software Mentions: 1
Published: almost 13 years ago

10.1186/1756-0500-2-192

A unique genetic code change in the mitochondrial genome of the parasitic nematode Radopholus similis
Cited by: 62
Author(s): Joachim Jacob, Bartel Vanholme, Thomas Van Leeuwen, Godelieve Gheysen
Software Mentions: 1
Published: almost 16 years ago

10.1186/s13104-015-1464-6

Genome expansion in bacteria: the curious case of Chlamydia trachomatis
Cited by: 3
Author(s): Jon Bohlin
Software Mentions: 1
Published: about 9 years ago

10.1186/s13104-015-1166-0

PCSK5 mutation in a patient with the VACTERL association
Cited by: 12
Author(s): Yukio Nakamura, Shingo Kikugawa, Shoji Seki, Masahiko Takahata, Norimasa Iwasaki, Hidetomi Terai, M. Matsubara, Fumio Fujioka, Hidehito Inagaki, Tatsuya Kobayashi, Takeshi Kimura, Hiroki Kurahashi, Hiroyuki Kato
Software Mentions: 1
Published: over 9 years ago

10.1186/1752-0509-6-S2-S2

IntPath--an integrated pathway gene relationship database for model organisms and important pathogens
Cited by: 42
Author(s): Hufeng Zhou, Jingjing Jin, Haojun Zhang, Bo Yi, Michał Woźniak, Limsoon Wong
Software Mentions: 1
Published: almost 12 years ago

10.1186/1752-0509-6-28

Topological analysis of protein co-abundance networks identifies novel host targets important for HCV infection and pathogenesis
Cited by: 52
Author(s): Jason McDermott, Deborah L. Diamond, Courtney D. Corley, Angela L. Rasmussen, Michael G. Katze, Katrina M. Waters
Software Mentions: 1
Published: over 12 years ago

10.1093/bioinformatics/btx687

MutaNET: a tool for automated analysis of genomic mutations in gene regulatory networks
Cited by: 0
Author(s): Markus Hollander, Mohamed Hamed, Volkhard Helms, Kerstin Neininger
Software Mentions: 1
Published: about 7 years ago

10.6026/97320630014315

Comparative analysis of prokaryotic and eukaryotic transcription factors using machine-learning techniques
Cited by: 1
Author(s): Nilkanta Chowdhury, Angshuman Bagchi
Software Mentions: 1
Published: over 6 years ago

10.1186/s13293-019-0264-4

Neurochemical sex differences in adult ADHD patients: an MRS study
Cited by: 11
Author(s): Dominique Endres, Ludger Tebartz van Elst, Simon Maier, Bernd Feige, Peter Goll, Simon A. Meyer, Swantje Matthies, Katharina Domschke, Thomas Lange, Esther Sobanski, Alexandra Philipsen, Kathrin Nickel, Evgeniy Perlov
Software Mentions: 1
Published: about 5 years ago

10.3390/biom10081178

Alanyl-Glutamine Restores Tight Junction Organization after Disruption by a Conventional Peritoneal Dialysis Fluid
Cited by: 16
Author(s): Mária Bartošová, Rebecca Herzog, David Ridinger, Eszter Lévai, Hanna Jenei, Conghui Zhang, Guadalupe González-Mateo, Iva Marinović, Thilo Hackert, Felix Bestvater, Michael Hausmann, Manuel López Cabrera, Klaus Kratochwill, Sotirios G. Zarogiannis, Claus Peter Schmitt
Software Mentions: 1
Published: over 4 years ago

10.3390/biom10060903

The Arg/N-Degron Pathway—A Potential Running Back in Fine-Tuning the Inflammatory Response?
Cited by: 3
Author(s): Dominique Leboeuf, Maxim Pyatkov, Timofei S. Zatsepin, Konstantin Piatkov
Software Mentions: 1
Published: over 4 years ago

10.3390/biom10050732

New Insights into Key Determinants for Adenosine 1 Receptor Antagonists Selectivity Using Supervised Molecular Dynamics Simulations
Cited by: 5
Author(s): Giovanni Bolcato, Maicol Bissaro, Giuseppe Deganutti, Mattia Sturlese, Stefano Moro
Software Mentions: 1
Published: over 4 years ago

10.1042/BSR20210511

Full-length transcriptome assembly of <i>andrias davidianus</i> (amphibia: caudata) skin via hybrid sequencing
Cited by: 3
Author(s): Yu Bai, Yonglu Meng, Jianlin Luo, Hui Wang, Guoyong Li, Can Li
Software Mentions: 1
Published: over 3 years ago

10.1186/s13068-016-0497-y

Comprehensive molecular characterization of Methylobacterium extorquens AM1 adapted for 1-butanol tolerance
Cited by: 31
Author(s): Bo Hu, Yi Yang, David A. C. Beck, Qian Wen Wang, Wen Jing Chen, Jing Yang, Mary E. Lidstrom, Song Yang
Software Mentions: 1
Published: over 8 years ago

10.1186/s13068-017-1001-z

Optimizing anaerobic growth rate and fermentation kinetics in Saccharomyces cerevisiae strains expressing Calvin-cycle enzymes for improved ethanol yield
Cited by: 44
Author(s): Ioannis Papapetridis, Maaike Goudriaan, María Vázquez Vitali, Nikita A. de Keijzer, Marcel van den Broek, Antonius J. A. van Maris, Jack T. Pronk
Software Mentions: 1
Published: almost 7 years ago

10.1093/braincomms/fcab044

Mild traumatic brain injury is associated with dysregulated neural network functioning in children and adolescents
Cited by: 5
Author(s): Kristina Safar, Jing Zhang, Zahra Emami, Avideh Gharehgazlou, George M. Ibrahim, Benjamin T. Dunkley
Software Mentions: 1
Published: over 3 years ago

10.1093/braincomms/fcaa049

Activity or connectivity? A randomized controlled feasibility study evaluating neurofeedback training in Huntington’s disease
Cited by: 10
Author(s): Marina Papoutsi, Jörg Magerkurth, Oliver Josephs, Sophia E. Pépés, Temi Ibitoye, Ralf Reilmann, NP Hunt, Edwin Payne, Nikolaus Weiskopf, Douglas R. Langbehn, Geraint Rees, Sarah J. Tabrizi
Software Mentions: 1
Published: almost 5 years ago

10.1089/brain.2020.0776

Multilayer Connector Hub Mapping Reveals Key Brain Regions Supporting Expressive Language
Cited by: 9
Author(s): Brady J. Williamson, Manlio De Domenico, Darren S. Kadis
Software Mentions: 1
Published: almost 4 years ago

10.1186/bcr2220

Tamoxifen induces pleiotrophic changes in mammary stroma resulting in extracellular matrix that suppresses transformed phenotypes
Cited by: 65
Author(s): Rhonda Hattar, Ori Maller, Shauntae M. McDaniel, Kirk C. Hansen, Karla Hedman, Traci R. Lyons, Scott Lucia, R. Storey Wilson, Pepper Schedin
Software Mentions: 1
Published: almost 16 years ago

10.1007/s11538-021-00911-6

On the Comparison of Incompatibility of Split Systems Across Different Numbers of Taxa
Cited by: 0
Author(s): Michael Hendriksen, Nils Kapust
Software Mentions: 1
Published: over 3 years ago

10.1155/2020/6839103

Blood and Bronchoalveolar Lavage Fluid Metagenomic Next-Generation Sequencing in Pneumonia
Cited by: 37
Author(s): Chen Xu, Shuizi Ding, Lei Cheng, Jieli Qin, Ting Guo, Danhui Yang, Min Yang, Jie Qi, Wenjuan He, Min Sup Song, Yan Zhang, Huihui Zeng, Qingwu Qin, Longbin Yang, Yingjiao Long, Yan Chen, Bingyin Ma, Ruoyun Ouyang, Ping Chen, Hong Luo
Software Mentions: 1
Published: over 4 years ago

10.1002/cam4.2103

Methylation analysis of <i>Gasdermin E</i> shows great promise as a biomarker for colorectal cancer
Cited by: 50
Author(s): Joe Ibrahim, Ken Op de Beeck, Erik Fransén, Lieselot Croes, Matthias Beyens, Arvid Suls, Wim Vanden Berghe, Marc Peeters, Guy Van Camp
Software Mentions: 1
Published: over 5 years ago

10.1002/cam4.738

Genome‐wide analysis of long noncoding <scp>RNA</scp> (lnc <scp>RNA</scp> ) expression in colorectal cancer tissues from patients with liver metastasis
Cited by: 60
Author(s): Dong Chen, Qiang Sun, Xiaofei Cheng, Lufei Zhang, Wei Song, Dongkai Zhou, Jie Lin, Weilin Wang
Software Mentions: 1
Published: over 8 years ago

10.26508/lsa.202000941

Sequencing of a central nervous system tumor demonstrates cancer transmission in an organ transplant
Cited by: 1
Author(s): Marie‐Claude Gingras, Aniko Sabo, Maria F. Cardenas, Abbas Rana, Sadhna Dhingra, Qingchang Meng, Jianhong Hu, Donna M. Muzny, Harshavardhan Doddapaneni, Lesette Perez, Viktoriya Korchina, Caitlin Nessner, Xiuping Liu, Hsu Chao, John A. Goss, Richard A. Gibbs
Software Mentions: 1
Published: over 3 years ago

10.1002/mrm.22340

In vivo detection of PARACEST agents with relaxation correction
Cited by: 20
Author(s): Craig K. Jones, Alex X. Li, Mojmı́r Suchý, Robert Hudson, Ravi S. Menon, Robert Bartha
Software Mentions: 1
Published: over 14 years ago

10.3390/md18100503

Identification of Conomarphin Variants in the Conus eburneus Venom and the Effect of Sequence and PTM Variations on Conomarphin Conformations
Cited by: 2
Author(s): Corazon Ericka Mae M Itang, Jokent T. Gaza, Dan Jethro M Masacupan, Dessa Camille R Batoctoy, Yu‐Ju Chen, Ricky B. Nellas, Eizadora T. Yu
Software Mentions: 1
Published: about 4 years ago

10.3390/md15110364

High-Throughput Identification of Antimicrobial Peptides from Amphibious Mudskippers
Cited by: 24
Author(s): Yunhai Yi, Xinxin You, Chao Bian, Shixi Chen, Zhao Lv, Limei Qiu, Qiong Shi
Software Mentions: 1
Published: almost 7 years ago

Projects: pypi: house

Papers Mentioning house 960