cran: COUNT | Projects | Ecosyste.ms: Papers

10.3390/genes12030444

Genome Analysis of Endotrypanum and Porcisia spp., Closest Phylogenetic Relatives of Leishmania, Highlights the Role of Amastins in Shaping Pathogenicity
Cited by: 9
Author(s): Amanda T S Albanaz, Evgeny S. Gerasimov, Jeffrey Jon Shaw, Jovana Sádlová, Julius Lukeš, Petr Volf, Frederik Opperdoes, Alexei Y. Kostygov, Anzhelika Butenko, Vyacheslav Yurchenko
Software Mentions: 8
Published: over 3 years ago

10.1093/gigascience/giab060

ISA API: An open platform for interoperable life science experimental metadata
Cited by: 13
Author(s): David Johnson, Dominique Batista, Keeva Cochrane, Robert P. Davey, Anthony Etuk, Alejandra González-Beltrán, Kenneth Haug, Massimiliano Izzo, Martin Larralde, Thomas N. Lawson, Alice Minotto, Pablo Moreno-Ger, Venkata Chandrasekhar Nainala, Claire O’Donovan, Luca Pireddu, Pierrick Roger, Felix Shaw, Christoph Steinbeck, Ralf Weber, Susanna-Assunta Sansone, Philippe Rocca-Serra
Software Mentions: 7
Published: about 3 years ago

10.1007/s40037-018-0438-5

#MedEd: exploring the relationship between altmetrics and traditional measures of dissemination in health professions education
Cited by: 38
Author(s): Lauren A. Maggio, Todd C. Leroux, Holly Meyer, Anthony R. Artino
Software Mentions: 6
Published: over 6 years ago

10.1186/1471-2105-12-136

ArrayInitiative - a tool that simplifies creating custom Affymetrix CDFs
Cited by: 2
Author(s): Chris Overall, Denis Carr, Ehsan Tabari, Kevin J. Thompson, Juliane Weller
Software Mentions: 4
Published: over 13 years ago

10.3389/fmicb.2021.683814

Comparative Genomic Insights Into the Taxonomic Classification, Diversity, and Secondary Metabolic Potentials of Kitasatospora, a Genus Closely Related to Streptomyces
Cited by: 10
Author(s): Yisong Li, Meng Wang, Zhuo Sun, Bin-Bin Xie
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-021-07432-5

Comparative genomics reveals broad genetic diversity, extensive recombination and nascent ecological adaptation in Micrococcus luteus
Cited by: 12
Author(s): Yisong Li, Zhuo Sun, Jin-Cheng Rong, Bin-Bin Xie
Software Mentions: 4
Published: almost 4 years ago

10.1093/gbe/evaa216

<i>Portiera</i> Gets Wild: Genome Instability Provides Insights into the Evolution of Both Whiteflies and Their Endosymbionts
Cited by: 12
Author(s): Diego Santos-García, Natividad Mestre-Rincon, David Ouvrard, Einat Zchori-Fein, Shai Morin
Software Mentions: 4
Published: about 4 years ago

10.1186/s12864-019-6126-y

Comparative genomics of Leishmania (Mundinia)
Cited by: 24
Author(s): Anzhelika Butenko, Alexei Y. Kostygov, Jovana Sádlová, Yuliya Kleschenko, Tomáš Bečvář, Lucie Podešvová, Diego H. Macedo, David Žihala, Julius Lukeš, Paul A. Bates, Petr Volf, Frederik Opperdoes, Vyacheslav Yurchenko
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2020.01192

Comparative Genomic Analysis Reveals the Metabolism and Evolution of the Thermophilic Archaeal Genus Metallosphaera
Cited by: 7
Author(s): Pei Wang, Liang Zhi Li, Yipeng Qin, Zong Lin Liang, Xiu Tong Li, Hua Yin, Li Jun Liu, Shuang‐Jiang Liu, Cheng‐Ying Jiang
Software Mentions: 4
Published: over 4 years ago

10.1007/s00425-015-2434-x

Uncovering novel loci for mesocotyl elongation and shoot length in indica rice through genome-wide association mapping
Cited by: 38
Author(s): Qing Lu, Mengchen Zhang, Xiaojun Niu, Caihong Wang, Qun Xu, Feng Yue, Shan Wang, Xiaoping Yuan, Hao Yu, Yiping Wang, Xinghua Wei
Software Mentions: 3
Published: almost 9 years ago

10.3389/fmicb.2020.612257

Diversity and Genomic Characterization of a Novel Parvarchaeota Family in Acid Mine Drainage Sediments
Cited by: 20
Author(s): Zhen-Hao Luo, Qi Li, Yan Lai, Hao Chen, Bin Liao, Li-Nan Huang
Software Mentions: 3
Published: almost 4 years ago

10.1186/1471-2156-11-86

Discovering joint associations between disease and gene pairs with a novel similarity test
Cited by: 3
Author(s): Wan-Yu Lin, Wen‐Chung Lee
Software Mentions: 3
Published: about 14 years ago

10.3389/fmicb.2021.639995

Interplay of Various Evolutionary Modes in Genome Diversification and Adaptive Evolution of the Family Sulfolobaceae
Cited by: 2
Author(s): Rachana Banerjee, Narendrakumar M. Chaudhari, Abhishake Lahiri, Anupam Gautam, Debaleena Bhowmik, Chitra Dutta, Sujay Chattopadhyay, Daniel H. Huson, Sandip Paul
Software Mentions: 3
Published: over 3 years ago

10.1093/gbe/evu211

Phylogenomics and Evolutionary Dynamics of the Family Actinomycetaceae
Cited by: 22
Author(s): Kelei Zhao, Wujiao Li, Chunlan Kang, Lianming Du, Ting Huang, Xiuyue Zhang, Min Wu, Bisong Yue
Software Mentions: 2
Published: about 10 years ago

10.1128/mBio.00350-21

Casting Light on the Adaptation Mechanisms and Evolutionary History of the Widespread Sumerlaeota
Cited by: 10
Author(s): Yun Fang, Yang Yuan, Jun Liu, Geng Wu, Jian Yang, Zheng-Shuang Hua, Jibin Han, Xiying Zhang, Wenjun Li, Hongchen Jiang
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2020.00961

Diversity and Evolutionary Dynamics of Antiphage Defense Systems in Ralstonia solanacearum Species Complex
Cited by: 11
Author(s): José A. García del Castillo, Henry Secaira-Morocho, Stephanie Maldonado, Katlheen N. Sarmiento
Software Mentions: 2
Published: over 4 years ago

10.3389/fpls.2020.00484

Evolution and Functional Divergence of the Fructokinase Gene Family in Populus
Cited by: 4
Author(s): Weijie Xu, Yiyang Zhao, Sisi Chen, Jianbo Xie, Deqiang Zhang
Software Mentions: 2
Published: over 4 years ago

10.1093/database/bav127

ncRNA orthologies in the vertebrate lineage
Cited by: 17
Author(s): Miguel Pignatelli, Albert J. Vilella, Matthieu Muffato, Leo I. Gordon, Simon White, Paul Flicek, Javier Herrero
Software Mentions: 2
Published: almost 9 years ago

10.1128/mSystems.00867-20

Insights into the Metabolism and Evolution of the Genus <i>Acidiphilium</i> , a Typical Acidophile in Acid Mine Drainage
Cited by: 24
Author(s): Liangzhi Li, Zhenghua Liu, Min Zhang, Delong Meng, Xueduan Liu, Pei Wang, Xiu-Tong Li, Zhen Jiang, Shuiping Zhong, Cheng‐Ying Jiang, Huaqun Yin
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12864-018-4531-2

Comparative genomic analysis reveals the evolution and environmental adaptation strategies of vibrios
Cited by: 56
Author(s): Heyu Lin, Min Yu, Xiaolei Wang, Xiaohua Zhang
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12864-019-5751-9

Genomic evidence of the illumination response mechanism and evolutionary history of magnetotactic bacteria within the Rhodospirillaceae family
Cited by: 7
Author(s): Yinzhao Wang, Giorgio Casaburi, Wei Lin, Ying Liu, Fengping Wang, Yongxin Pan
Software Mentions: 2
Published: over 5 years ago

10.1128/mSystems.00602-21

Comparative Genomics Provides Insights into the Genetic Diversity and Evolution of the DPANN Superphylum
Cited by: 6
Author(s): Liangzhi Li, Zhenghua Liu, Zhi Zhou, Min Zhang, Delong Meng, Xueduan Liu, Ye Huang, Xiu-Tong Li, Zhen Jiang, Shuiping Zhong, Łukasz Drewniak, Zhi Yang, Qian Li, Yongjun Liu, Xiaolong Nan, Biguang Jiang, Cheng‐Ying Jiang, Huaqun Yin
Software Mentions: 1
Published: about 3 years ago

10.7554/eLife.33014

The kinetoplastid-infecting Bodo saltans virus (BsV), a window into the most abundant giant viruses in the sea
Cited by: 64
Author(s): Christoph Deeg, Cheryl-Emiliane T. Chow, Curtis A. Suttle
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms21218407

High Stroma T-Cell Infiltration is Associated with Better Survival in Stage pT1 Bladder Cancer
Cited by: 10
Author(s): Suzanne Belia Hulsen, Eleonora Lippolis, Fulvia Ferrazzi, Wolfgang Otto, Luitpold Distel, Rainer Fietkau, Stefan Denzinger, Johannes Breyer, Maximilian Burger, Simone Bertz, Markus Eckstein, Annette Ebner, Arndt Hartmann, Carol-Immanuel Geppert
Software Mentions: 1
Published: about 4 years ago

10.1186/1471-2407-9-292

Distribution of immune cells in head and neck cancer: CD8+ T-cells and CD20+B-cells in metastatic lymph nodes are associated with favourable outcome in patients with oro- and hypopharyngeal carcinoma
Cited by: 152
Author(s): Dominik Pretscher, Luitpold Distel, Gerhard G. Grabenbauer, Michael Wittlinger, Maike Buettner, Gerald Niedobitek
Software Mentions: 1
Published: over 15 years ago

10.1186/s12885-017-3317-2

Prognostic significance of tumor infiltrating immune cells in oral squamous cell carcinoma
Cited by: 114
Author(s): Juan Fang, Xiaoxu Li, Dawei Ma, Xiangqi Liu, Yi‐Chen Chen, Yun Wang, Vivian Wai Yan Lui, Juan Xia, Bin Cheng, Wang Zhi
Software Mentions: 1
Published: over 7 years ago

10.1186/s12862-017-0942-y

Reconstruction of the evolution of microbial defense systems
Cited by: 41
Author(s): Pere Puigbò, Kira S. Makarova, David M. Kristensen, Yuri I. Wolf, Eugene V. Koonin
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-019-6346-1

Stratified reconstruction of ancestral Escherichia coli diversification
Cited by: 22
Author(s): José Marı́a González-Alba, Fernando Baquero, Rafael Cantón, Juan Carlos Galán
Software Mentions: 1
Published: almost 5 years ago

10.1186/s13062-015-0102-5

Horizontally transferred genes cluster spatially and metabolically
Cited by: 13
Author(s): Alexander Dilthey, Martin J. Lercher
Software Mentions: 1
Published: almost 9 years ago

10.1186/1745-6150-6-59

Extensive intron gain in the ancestor of placental mammals
Cited by: 16
Author(s): Dušan Kordiš
Software Mentions: 1
Published: almost 14 years ago

10.1186/1745-6150-7-46

Updated clusters of orthologous genes for Archaea: a complex ancestor of the Archaea and the byways of horizontal gene transfer
Cited by: 135
Author(s): Yuri I. Wolf, Kira S. Makarova, Natalya Yutin, Eugene V. Koonin
Software Mentions: 1
Published: almost 13 years ago

10.1186/1743-422X-10-106

Mimiviridae: clusters of orthologous genes, reconstruction of gene repertoire evolution and proposed expansion of the giant virus family
Cited by: 93
Author(s): Natalya Yutin, Philippe Colson, Didier Raoult, Eugene V. Koonin
Software Mentions: 1
Published: over 11 years ago

10.7717/peerj.8811

Predictive value of CONUT score combined with serum CA199 levels in postoperative survival of patients with pancreatic ductal adenocarcinoma: a retrospective study
Cited by: 11
Author(s): Ankang Wang, Bo Sun, Min Wang, Hao Shi, Zhiwei Huang, Tao He, Qiu Li, Jiaqi Deng, Wenguang Fu, Jiang Yu
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pgen.1004363

Predicting the Minimal Translation Apparatus: Lessons from the Reductive Evolution of Mollicutes
Cited by: 107
Author(s): Henri Grosjean, Michelyne Breton, Pascal Sirand‐Pugnet, Florence Tardy, François Thiaucourt, Christine Citti, Aurélien Barré, Satoko Yoshizawa, Dominique Fourmy, Valérie de Crécy‐Lagard, Alain Blanchard
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0071435

Characterization and Evolution of Conserved MicroRNA through Duplication Events in Date Palm (Phoenix dactylifera)
Cited by: 23
Author(s): Yong Xiao, Wei Xia, Yaodong Yang, Annaliese S. Mason, Xintao Lei, Zhiying Ma
Software Mentions: 1
Published: over 11 years ago

10.1039/c7sc01052d

Learning reduced kinetic Monte Carlo models of complex chemistry from molecular dynamics
Cited by: 20
Author(s): Qiong Yang, Carlos Sing‐Long, Evan J. Reed
Software Mentions: 1
Published: almost 8 years ago

10.3389/fgene.2021.618517

Evolution of Protein-Mediated Biomineralization in Scleractinian Corals
Cited by: 14
Author(s): Tal Zaquin, Assaf Malik, Jeana L. Drake, Hollie M. Putnam, Tali Mass
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2017.01940

Genome of Ca. Pandoraea novymonadis, an Endosymbiotic Bacterium of the Trypanosomatid Novymonas esmeraldas
Cited by: 25
Author(s): Alexei Y. Kostygov, Anzhelika Butenko, Anna Nenarokova, Daria Tashyreva, Pavel Flegontov, Julius Lukeš, Vyacheslav Yurchenko
Software Mentions: 1
Published: about 7 years ago

10.3389/fmicb.2020.01530

Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier
Cited by: 9
Author(s): Yongqin Liu, Liang Shen, Yonghui Zeng, Tingting Xing, Bin Xu, Ninglian Wang
Software Mentions: 1
Published: over 4 years ago

10.3389/fmicb.2016.01942

Evolution and Phylogeny of Large DNA Viruses, Mimiviridae and Phycodnaviridae Including Newly Characterized Heterosigma akashiwo Virus
Cited by: 15
Author(s): Fumito Maruyama, Shoko Ueki
Software Mentions: 1
Published: almost 8 years ago

10.1093/gbe/evx062

A Locus Encoding Variable Defense Systems against Invading DNA Identified in Streptococcus suis
Cited by: 15
Author(s): Masatoshi Okura, Takashi Nozawa, Takayasu Watanabe, Kazunori Murase, Ichirô Nakagawa, Daisuke Takamatsu, Makoto Osaki, Tsutomu Sekizaki, Marcelo Gottschalk, Shigeyuki Hamada, Fumito Maruyama
Software Mentions: 1
Published: over 7 years ago

10.1186/s40981-019-0282-6

Geriatric Nutritional Risk Index and Controlling Nutritional Status Score can predict postoperative 180-day mortality in hip fracture surgeries
Cited by: 11
Author(s): Atsushi Kotera
Software Mentions: 1
Published: about 5 years ago

10.1038/srep23704

Genome of Leptomonas pyrrhocoris: a high-quality reference for monoxenous trypanosomatids and new insights into evolution of Leishmania
Cited by: 71
Author(s): Pavel Flegontov, Anzhelika Butenko, Sergei Firsov, Natalya Kraeva, Marek Eliáš, Mark C. Field, Dmitry A. Filatov, Olga Flegontova, Evgeny S. Gerasimov, Jana Hlaváčová, Aygul Ishemgulova, Andrew P. Jackson, Steven Kelly, Alexei Y. Kostygov, Maria D. Logacheva, Dmitri Maslov, Frederik Opperdoes, Amanda O’Reilly, Jovana Sádlová, Tereza Ševčíková, Divya Venkatesh, Čestmı́r Vlček, Petr Volf, Jan Votýpka, Kristína Záhonová, Vyacheslav Yurchenko, Julius Lukeš
Software Mentions: 1
Published: over 8 years ago

10.1038/srep36116

Evolutionary study of Yersinia genomes deciphers emergence of human pathogenic species
Cited by: 10
Author(s): Shi Tan, İlhan Tan, Mui Fern Tan, Avirup Dutta, Siew Woh Choo
Software Mentions: 1
Published: about 8 years ago

Projects: cran: COUNT

Papers Mentioning COUNT 44