Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: house

https://packages.ecosyste.ms/registries/pypi.org/packages/house

A lib to persist blobs by their sha256
10 versions
Latest release: almost 7 years ago
752 downloads last month

Papers Mentioning house 960

10.3390/ijms20081958
The Effects of Epigallocatechin Gallate (EGCG) on Pulmonary Fibroblasts of Idiopathic Pulmonary Fibrosis (IPF)—A Next-Generation Sequencing and Bioinformatic Approach
Cited by: 25
Author(s): Ming‐Ju Tsai, Wei‐An Chang, Ssu‐Hui Liao, Kai‐Chih Chang, Chau‐Chyun Sheu, Po‐Lin Kuo
Software Mentions: 2
Published: over 5 years ago
10.1186/s13007-019-0536-3
A protocol for laser microdissection (LMD) followed by transcriptome analysis of plant reproductive tissue in phylogenetically distant angiosperms
Cited by: 10
Author(s): Kimmo I Kivivirta, Denise Herbert, Matthias Lange, Knut Beuerlein, Janine Altmüller, Annette Becker
Software Mentions: 2
Published: almost 5 years ago
10.3389/fgene.2020.00317
The Evolution of an Invasive Plant, Sorghum halepense L. (‘Johnsongrass’)
Cited by: 27
Author(s): Andrew H. Paterson, Wenqian Kong, Robyn Johnston, Pheonah Nabukalu, Guohong Albert Wu, William L. Poehlman, Valorie H. Goff, Krista Isaacs, Tae‐Ho Lee, Hui Guo, Dong Zhao, U. Uzay Sezen, Megan Kennedy, Diane Bauer, F. Alex Feltus, Eva Weltzien, H. Frederick W. Rattunde, Jacob N. Barney, Kerrie Barry, T. S. Cox, Michael J. Scanlon
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pone.0236483
Classification of Takifugu rubripes, T. chinensis and T. pseudommus by genotyping-by-sequencing
Cited by: 2
Author(s): Yeon Jung Park, Mi Nan Lee, Jae Koo Noh, Eun Soo Noh, Jung Ha Kang, Jung Youn Park, Eun Mi Kim
Software Mentions: 2
Published: about 4 years ago
10.1371/journal.pone.0036986
Connectivity of Default-Mode Network Is Associated with Cerebral Edema in Hepatic Encephalopathy
Cited by: 26
Author(s): Wei Che Lin, Tun-Wei Hsu, Chao Long Chen, Changwei W. Wu, Cheng Hsien Lu, Hsiu-Ling Chen, Shau Hsuan Li, Pin Yang Yeh, Yu Cheng, Ching Po Lin
Software Mentions: 2
Published: over 12 years ago
10.1002/evl3.81
Positive and balancing selection on<i>SLC18A1</i>gene associated with psychiatric disorders and human-unique personality traits
Cited by: 14
Author(s): Daiki X. Sato, Masakado Kawata
Software Mentions: 2
Published: about 6 years ago
10.3390/metabo10050190
JUMPm: A Tool for Large-Scale Identification of Metabolites in Untargeted Metabolomics
Cited by: 6
Author(s): Xusheng Wang, Ji-Hoon Cho, P. Suresh, Yuxin Li, Drew R. Jones, Timothy I. Shaw, Haidong Tan, Boer Xie, Junmin Peng
Software Mentions: 2
Published: over 4 years ago
10.12688/f1000research.9765.1
Complete genome of Pieris rapae, a resilient alien, a cabbage pest, and a source of anti-cancer proteins
Cited by: 44
Author(s): Jinhui Shen, Qian Cong, Lisa N. Kinch, Dominika Borek, Zbyszek Otwinowski
Software Mentions: 2
Published: about 8 years ago
10.1111/tpj.14895
Plant breeding involving genetic engineering does not result in unacceptable unintended effects in rice relative to conventional cross‐breeding
Cited by: 21
Author(s): Qingsong Liu, Xiaowei Yang, Vered Tzin, Yufa Peng, Jörg Romeis, Yunhe Li
Software Mentions: 2
Published: over 4 years ago
10.1111/febs.14175
An engineered photoswitchable mammalian pyruvate kinase
Cited by: 26
Author(s): Stefanie Gehrig, Jamie A. Macpherson, Paul C. Driscoll, Alastair Symon, Stephen R. Martin, James I. MacRae, Jens Kleinjung, Franca Fraternali, Dimitrios Anastasiou
Software Mentions: 2
Published: over 7 years ago
10.1111/1751-7915.13305
Comparative proteomic analysis of four biotechnological strains<i>Lactococcus lactis</i>through label-free quantitative proteomics
Cited by: 10
Author(s): Wanderson M. Silva, Cassiana Severiano de Sousa, Lívia Costa de Oliveira, Siomar C. Soares, Gustavo H. M. F. Souza, Guilherme Campos Tavares, Cristiana Perdigão Resende, Edson Luiz Folador, Felipe L. Pereira, Henrique César Pereira Figueiredo, Vasco Azevedo
Software Mentions: 2
Published: about 6 years ago
10.1371/journal.pone.0038413
Preserved Self-Awareness following Extensive Bilateral Brain Damage to the Insula, Anterior Cingulate, and Medial Prefrontal Cortices
Cited by: 99
Author(s): Carissa L. Philippi, Justin S. Feinstein, Sahib S. Khalsa, António R. Damásio, Daniel Tranel, Gregory Landini, Kenneth Williford, David Rudrauf
Software Mentions: 2
Published: over 12 years ago
10.3389/fpls.2018.00661
Genotype-Specific Growth and Proteomic Responses of Maize Toward Salt Stress
Cited by: 20
Author(s): Ana L C Soares, Christoph‐Martin Geilfus, Sébastien Carpentier
Software Mentions: 2
Published: over 6 years ago
10.3389/fpls.2017.00088
Isolation, Characterization and Transcriptome Analysis of a Cytokinin Receptor Mutant Osckt1 in Rice
Cited by: 18
Author(s): Wona Ding, Tong HuiShan, Wenjuan Zheng, Jing Ye, Zhichong Pan, B. Zhang, Shihua Zhu
Software Mentions: 2
Published: almost 8 years ago
10.3390/cancers11020190
Intratumoural Heterogeneity Underlies Distinct Therapy Responses and Treatment Resistance in Glioblastoma
Cited by: 36
Author(s): Seçkin Akgül, Ann‐Marie Patch, Rochelle C.J. D’Souza, Pamela Mukhopadhyay, Kátia Nones, Sarah Kempe, Stephen H. Kazakoff, Rosalind L. Jeffree, Brett W. Stringer, John V. Pearson, Nicola Waddell, Bryan W. Day
Software Mentions: 2
Published: almost 6 years ago
10.1002/2211-5463.13245
EvoProDom: evolutionary modeling of protein families by assessing translocations of protein domains
Cited by: 0
Author(s): Gon Carmi, Alessandro Gorohovski, Milana Frenkel‐Morgenstern
Software Mentions: 2
Published: over 3 years ago
10.1111/pbi.12825
Comprehensive description of genomewide nucleotide and structural variation in short-season soya bean
Cited by: 41
Author(s): Davoud Torkamaneh, Jérôme Laroche, Aurélie Tardivel, Louise S. O’Donoughue, Elroy R. Cober, Istvan Rajcan, François Belzile
Software Mentions: 2
Published: about 7 years ago
10.3389/fpls.2017.00795
Comparative Analysis of Transcriptomes in Rhizophoraceae Provides Insights into the Origin and Adaptive Evolution of Mangrove Plants in Intertidal Environments
Cited by: 25
Author(s): Wuxia Guo, Haidan Wu, Zhang Zhang, Chao Yang, Ling Hu, Xianggang Shi, Shuguang Jian, Suhua Shi, Yelin Huang
Software Mentions: 2
Published: over 7 years ago
10.1002/2211-5463.12925
Cracking of jujube fruits is associated with differential expression of metabolic genes
Cited by: 5
Author(s): Yaling Liu, Peng-Fei Zhang, Yaping Geng, Xinglong Xie, Pengfei Wen
Software Mentions: 2
Published: over 4 years ago
10.3389/fpls.2020.00646
Method for the Identification of Plant DNA in Food Using Alignment-Free Analysis of Sequencing Reads: A Case Study on Lupin
Cited by: 7
Author(s): Kairi Raime, Kaarel Krjutškov, Maido Remm
Software Mentions: 2
Published: over 4 years ago
10.1186/s12934-018-1039-z
One-step affinity purification of fusion proteins with optimal monodispersity and biological activity: application to aggregation-prone HPV E6 proteins
Cited by: 3
Author(s): Anna Bonhoure, Auguste Demenge, Camille Kostmann, Leticia San José, Eva De la Cal, Pilar Armisén, Yves Nominé, Gilles Travé
Software Mentions: 2
Published: almost 6 years ago
10.1016/j.ajhg.2017.03.008
PLAA Mutations Cause a Lethal Infantile Epileptic Encephalopathy by Disrupting Ubiquitin-Mediated Endolysosomal Degradation of Synaptic Proteins
Cited by: 37
Author(s): Andrew G. Hall, Michael S. Nahorski, Lyndsay M. Murray, Ranad Shaheen, Emma M. Perkins, Kosala N. Dissanayake, Yosua Kristaryanto, Ross A. Jones, Julie Vogt, Manon Rivagorda, Mark T. Handley, Girish R. Mali, Tooba Quidwai, Dinesh C. Soares, Margaret Keighren, Lisa McKie, Richard L. Mort, Noor Gammoh, Amaya García-Muñoz, Tracey Davey, Matthieu Vermeren, Diana Chapman Walsh, Peter S. Budd, Irene Aligianis, Eissa Faqeih, Alan J. Quigley, Ian J. Jackson, Yogesh Kulathu, Mandy Jackson, Richard R. Ribchester, Alex von Kriegsheim, Fowzan S. Alkuraya, C. Geoffrey Woods, Eamonn R. Maher, Pleasantine Mill
Software Mentions: 2
Published: over 7 years ago
10.1016/j.molmet.2017.07.013
Cdkal1, a type 2 diabetes susceptibility gene, regulates mitochondrial function in adipose tissue
Cited by: 42
Author(s): Colin Palmer, Raphael J. Bruckner, João A. Paulo, Lawrence Kazak, Jonathan Z. Long, Amir I. Mina, Zhaoming Deng, Katherine B. LeClair, Jessica A. Hall, Shangyu Hong, Peter-James H. Zushin, Kyle Smith, Steven P. Gygi, Susan J. Hagen, David E. Cohen, Alexander S. Banks
Software Mentions: 2
Published: about 7 years ago
10.1038/s41419-021-03992-2
Distinct roles of Fto and Mettl3 in controlling development of the cerebral cortex through transcriptional and translational regulations
Cited by: 8
Author(s): Kunzhao Du, Zhen Zhang, Zhiwei Zeng, Jinliang Tang, Trevor Lee, Tao Sun
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2016.01842
Identification and Analysis of NaHCO3 Stress Responsive Genes in Wild Soybean (Glycine soja) Roots by RNA-seq
Cited by: 26
Author(s): Jinlong Zhang, Jiaxue Wang, Wei Jiang, Juge Liu, Songnan Yang, Junyi Gai, Yan Li
Software Mentions: 2
Published: almost 8 years ago
10.1186/1471-2164-14-916
Comparative inner ear transcriptome analysis between the Rickett’s big-footed bats (Myotis ricketti) and the greater short-nosed fruit bats (Cynopterus sphinx)
Cited by: 23
Author(s): Dong Dong, Ming Lei, Yang Liu, Shuyi Zhang
Software Mentions: 2
Published: almost 12 years ago
10.18632/oncotarget.22846
Circular RNAs: clinical relevance in cancer
Cited by: 49
Author(s): Zhijie Xu, Yuanliang Yan, Shuangshuang Zeng, Shuang Dai, Xi Chen, Jie Wei, Zhicheng Gong
Software Mentions: 2
Published: almost 7 years ago
10.1111/pbi.13422
Superior haplotypes for haplotype‐based breeding for drought tolerance in pigeonpea (<i>Cajanus cajan</i> L.)
Cited by: 52
Author(s): Pallavi Sinha, Vikas K. Singh, Rachit K. Saxena, Aamir W. Khan, Ragavendran Abbai, Annapurna Chitikineni, Aarthi Desai, Johiruddin Molla, Hari D. Upadhyaya, Arvind Kumar, Rajeev K. Varshney
Software Mentions: 2
Published: over 4 years ago
10.1038/s41419-021-03436-x
Alternative splicing of ceramide synthase 2 alters levels of specific ceramides and modulates cancer cell proliferation and migration in Luminal B breast cancer subtype
Cited by: 16
Author(s): Trishna Pani, Kajal Rajput, Animesh Kar, Harsh Sharma, Rituparna Basak, Nihal Medatwal, Sandhini Saha, Gagan Dev, Satish Kumar, Shweta Gupta, Arnab Mukhopadhyay, Dipankar Malakar, Tushar Kanti Maiti, Aneeshkumar G. Arimbasseri, Svs Deo, Ravi Datta Sharma, Avinash Bajaj, Ujjaini Dasgupta
Software Mentions: 2
Published: almost 4 years ago
10.1111/jns.12228
Clinical and genetic diversities of Charcot-Marie-Tooth disease with<i>MFN2</i>mutations in a large case study
Cited by: 31
Author(s): Masahiro Ando, Akihiro Hashiguchi, Yuji Okamoto, Akinobu Yoshimura, Yoshihiro Hiramatsu, Jun‐Hui Yuan, Yujiro Higuchi, Jun Mitsui, Hiroyuki Ishiura, Atsushi Umemura, Koichi Maruyama, Takeshi Matsushige, Shinichi Morishita, Masanori Nakagawa, Shoji Tsuji, Hiroshi Takashima
Software Mentions: 2
Published: over 7 years ago
10.1074/mcp.RA117.000393
Lysine Succinylation Contributes to Aflatoxin Production and Pathogenicity in Aspergillus flavus
Cited by: 42
Author(s): Silin Ren, Mingkun Yang, Yuewei Yue, Feng Ge, Yu Li, Xiaodong Guo, Jia Zhang, Feng Zhang, Xiaowei Nie, Shihua Wang
Software Mentions: 2
Published: over 6 years ago
10.3390/antibiotics10091059
Taxonomic and Functional Distribution of Bacterial Communities in Domestic and Hospital Wastewater System: Implications for Public and Environmental Health
Cited by: 2
Author(s): Ramganesh Selvarajan, Timothy Sibanda, Jeevan Pandian, Kevin Mearns
Software Mentions: 2
Published: about 3 years ago
10.1186/s12862-017-0924-0
Late Danubian mitochondrial genomes shed light into the Neolithisation of Central Europe in the 5th millennium BC
Cited by: 13
Author(s): Maciej Chyleński, Anna Juras, E Ehler, Helena Malmström, Janusz Piontek, Mattias Jakobsson, Arkadiusz Marciniak, Mirosława Dabert
Software Mentions: 2
Published: over 7 years ago
10.1186/s12920-021-01040-8
Characterization of DNA lesions associated with cell-free DNA by targeted deep sequencing
Cited by: 2
Author(s): Seung-Ho Shin, Woong-Yang Park, Donghyun Park
Software Mentions: 2
Published: over 3 years ago
10.1016/j.tcsw.2021.100050
CreA-mediated repression of gene expression occurs at low monosaccharide levels during fungal plant biomass conversion in a time and substrate dependent manner
Cited by: 10
Author(s): Mao Peng, Claire Khosravi, Ronnie J.M. Lubbers, Roland S. Kun, María Victoria Aguilar Pontes, Evy Battaglia, Cindy Chen, Sacha Dalhuijsen, Paul Daly, Anna Lipzen, Vivian Ng, Juying Yan, Mei Wang, Jaap Visser, Igor V. Grigoriev, Miia Mäkelä, Ronald P. de Vries
Software Mentions: 2
Published: almost 3 years ago
10.1186/s12967-017-1171-2
Longitudinal analysis of serum oxylipin profile as a novel descriptor of the inflammatory response to surgery
Cited by: 14
Author(s): Arnaud M. Wolfer, Alasdair Scott, Claudia Rueb, Mathieu Gaudin, Ara Darzi, Jeremy K. Nicholson, Elaine Holmes, James Kinross
Software Mentions: 2
Published: over 7 years ago
10.3389/fphar.2017.00088
Analyses of mRNA Profiling through RNA Sequencing on a SAMP8 Mouse Model in Response to Ginsenoside Rg1 and Rb1 Treatment
Cited by: 11
Author(s): Shuai Zhang, Dina Zhu, Hong Li, Haijing Zhang, Feng Cheng, Wensheng Zhang
Software Mentions: 2
Published: over 7 years ago
10.3390/cells10010081
Extracellular DNA Correlates with Intestinal Inflammation in Chemically Induced Colitis in Mice
Cited by: 18
Author(s): Martin Marônek, Barbora Gromová, Róbert Lipták, Barbora Konečná, Michal Pastorek, Barbora Čechová, Mária Haršányová, Jaroslav Budiš, Dávid Smoľak, Ján Radvánszky, Tomáš Szemeš, Jana Harsányiová, Alžbeta Trančiková, Roman Gardlík
Software Mentions: 2
Published: almost 4 years ago
10.1186/s13628-018-0048-y
Role of protein interactions in stabilizing canonical DNA features in simulations of DNA in crowded environments
Cited by: 6
Author(s): Aslı Yıldırım, Nathalie Brenner, Robert Sutherland, Michael Feig
Software Mentions: 2
Published: almost 6 years ago
10.3390/cells10092477
Detection of Novel Potential Regulators of Stem Cell Differentiation and Cardiogenesis through Combined Genome-Wide Profiling of Protein-Coding Transcripts and microRNAs
Cited by: 1
Author(s): Rui S. R. Machado, Agapios Sachinidis, Matthias E. Futschik
Software Mentions: 2
Published: about 3 years ago
10.3390/cells8050477
A Novel lnc-RNA, Named lnc-ORA, Is Identified by RNA-Seq Analysis, and Its Knockdown Inhibits Adipogenesis by Regulating the PI3K/AKT/mTOR Signaling Pathway
Cited by: 39
Author(s): Rui Cai, Guorong Tang, Que Zhang, Wenlong Yong, Wanrong Zhang, Junying Xiao, Chunhong Wei, Congfen He, Gongshe Yang, Wei Pang
Software Mentions: 2
Published: over 5 years ago
10.7717/peerj.11447
Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation
Cited by: 41
Author(s): Akbar Adjie Pratama, Benjamin Bolduc, Ahmed A. Zayed, Zhi-Ping Zhong, Jiarong Guo, Dean Vik, M. Consuelo Gazitúa, James Wainaina, Simon Roux, Matthew B. Sullivan
Software Mentions: 2
Published: over 3 years ago
10.1186/s13020-020-00365-3
Genomic analyses reveal evolutionary and geologic context for the plateau fungus Ophiocordyceps sinensis
Cited by: 6
Author(s): Jie Liu, Liyun Guo, Zongwei Li, Zhe Zhou, Zhen Li, Qian Li, Xiaochen Bo, Shengqi Wang, Junli Wang, Shuang‐Cheng Ma, Jian Zheng, Ying Yang
Software Mentions: 2
Published: about 4 years ago
10.1186/s13148-019-0657-6
DNA methylome profiling of granulosa cells reveals altered methylation in genes regulating vital ovarian functions in polycystic ovary syndrome
Cited by: 53
Author(s): Pooja Sagvekar, Pankaj Kumar, Vijay Mangoli, Shashvat Desai, Srabani Mukherjee
Software Mentions: 2
Published: over 5 years ago
10.1371/journal.pone.0068175
The Effects of Threonine Phosphorylation on the Stability and Dynamics of the Central Molecular Switch Region of 18.5-kDa Myelin Basic Protein
Cited by: 36
Author(s): Kenrick A. Vassall, Kyrylo Bessonov, Miguel De Avila, Eugenia Polverini, George Harauz
Software Mentions: 2
Published: over 11 years ago
10.1186/1471-2164-10-282
Analysis of salivary transcripts and antigens of the sand fly Phlebotomus arabicus
Cited by: 64
Author(s): Jitka Hostomská, Věra Volfová, Jianbing Mu, Mark Garfield, Iva Rohoušová, Petr Volf, Jesús G. Valenzuela, Ryan C. Jochim
Software Mentions: 2
Published: over 15 years ago
10.1186/1559-0275-8-1
Proteomic profiling of the mesenteric lymph after hemorrhagic shock: Differential gel electrophoresis and mass spectrometry analysis
Cited by: 19
Author(s): Ashley A. Zurawel, Ernest E. Moore, Erik D. Peltz, Janeen R. Jordan, Sagar S. Damle, Monika Dzieciątkowska, Anirban Banerjee, Kirk C. Hansen
Software Mentions: 2
Published: almost 14 years ago
10.3389/fphar.2019.01331
Transcriptome Analyses of the Anti-Proliferative Effects of 20(S)-Ginsenoside Rh2 on HepG2 Cells
Cited by: 13
Author(s): Ji Zhang, Weibo Li, Qiaoyun Yuan, Jing Zhou, Jianmei Zhang, Yufeng Cao, Guangbo Fu, Weicheng Hu
Software Mentions: 2
Published: about 5 years ago
10.21203/rs.3.rs-77124/v1
Structure and Drug Binding of the SARS-CoV-2 Envelope Protein in Phospholipid Bilayers
Cited by: 3
Author(s): Venkata S. Mandala, Matthew J. McKay, A. Shcherbakov, Aurelio J. Dregni, Antonios Kolocouris, Mei Hong
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-015-1846-0
Skipper genome sheds light on unique phenotypic traits and phylogeny
Cited by: 36
Author(s): Qian Cong, Dominika Borek, Zbyszek Otwinowski, Nick V. Grishin
Software Mentions: 2
Published: about 9 years ago
10.1371/journal.pone.0143339
Cortical Components of Reaction-Time during Perceptual Decisions in Humans
Cited by: 32
Author(s): Jacek Dmochowski, Anthony M. Norcia
Software Mentions: 2
Published: almost 9 years ago
10.7717/peerj.11326
Comparative transcriptome analysis reveals key insights into male sterility in <i>Salvia miltiorrhiza</i> Bunge
Cited by: 9
Author(s): Yan Yu, Yuanyuan Jiang, Long Wang, Yichao Wu, Jinqiu Liao, Mingzhi Zhong, Ruiwu Yang, Xingfu Chen, Qingmiao Li, Li Zhang
Software Mentions: 2
Published: over 3 years ago
10.1186/s12920-019-0531-6
Increased diagnostic yield by reanalysis of data from a hearing loss gene panel
Cited by: 15
Author(s): Yu Sun, Jiale Xiang, Yidong Liu, Sen Chen, Jintao Yu, Jiguang Peng, Zijing Liu, Lisha Chen, Jun Sun, Yun Yang, Yaping Yang, Yulin Zhou, Zhiyu Peng
Software Mentions: 2
Published: over 5 years ago
10.1371/journal.pone.0141579
Fixing Formalin: A Method to Recover Genomic-Scale DNA Sequence Data from Formalin-Fixed Museum Specimens Using High-Throughput Sequencing
Cited by: 105
Author(s): Sarah M. Hykin, Ke Bi, Jimmy A. McGuire
Software Mentions: 2
Published: about 9 years ago
10.1038/s41597-019-0195-2
The sequence and de novo assembly of Takifugu bimaculatus genome using PacBio and Hi-C technologies
Cited by: 25
Author(s): Zhixiong Zhou, Bo Liu, Baohua Chen, You Shi, Fei Pu, Haili Bai, Leibin Li, Peng Xu
Software Mentions: 2
Published: about 5 years ago
10.1186/1471-2164-15-S8-S1
Impact of analytic provenance in genome analysis
Cited by: 12
Author(s): Shatavia S. Morrison, Roman Pyzh, Myung Shin Jeon, Carmen Amaro, Francisco J. Roig, Craig Baker‐Austin, James D. Oliver, Cynthia Gibas
Software Mentions: 2
Published: about 10 years ago
10.1371/journal.ppat.1009254
Strain-specific genome evolution in Trypanosoma cruzi, the agent of Chagas disease
Cited by: 45
Author(s): Wei Wang, Duo Peng, Rodrigo P. Baptista, Yiran Li, Jessica C. Kissinger, Rick L. Tarleton
Software Mentions: 2
Published: almost 4 years ago
10.1038/srep11418
Profiling molecular and behavioral circadian rhythms in the non-symbiotic sea anemone Nematostella vectensis
Cited by: 36
Author(s): Matan Oren, Ann M. Tarrant, Shahar Alon, Noa Simon‐Blecher, Idan Elbaz, Lior Appelbaum, Oren Levy
Software Mentions: 2
Published: over 9 years ago
10.1038/srep13343
Lys39-Lysophosphatidate Carbonyl Oxygen Interaction Locks LPA1 N-terminal Cap to the Orthosteric Site and partners Arg124 During Receptor Activation
Cited by: 17
Author(s): Olaposi Idowu Omotuyi, Jun Nagai, Hiroshi Ueda
Software Mentions: 2
Published: over 9 years ago
10.3390/pathogens9121078
Computational Analysis of African Swine Fever Virus Protein Space for the Design of an Epitope-Based Vaccine Ensemble
Cited by: 13
Author(s): Albert Ros-Lucas, Florencia Correa‐Fiz, Laia Bosch-Camós, Fernando Rodrı́guez, Julio Alonso-Padilla
Software Mentions: 2
Published: almost 4 years ago
10.1038/srep14446
Transcriptome and gene expression analysis of DHA producer Aurantiochytrium under low temperature conditions
Cited by: 52
Author(s): Zhenhua Ma, Yuxiang Tan, Guizhong Cui, Yingang Feng, Qiu Cui, Xiaojin Song
Software Mentions: 2
Published: about 9 years ago
10.3389/fninf.2017.00017
Evaluation of Field Map and Nonlinear Registration Methods for Correction of Susceptibility Artifacts in Diffusion MRI
Cited by: 114
Author(s): Sijia Wang, Daniel J. Peterson, J. Christopher Gatenby, Wenbin Li, Thomas J. Grabowski, Tara M. Madhyastha
Software Mentions: 2
Published: over 7 years ago
10.1038/srep15183
Action of multiple intra-QTL genes concerted around a co-localized transcription factor underpins a large effect QTL
Cited by: 54
Author(s): Shalabh Dixit, Akshaya Kumar Biswal, Aung Myat Min, Amelia Henry, R. Oane, Manish L. Raorane, Toshisangba Longkumer, Isaiah Catalino M. Pabuayon, Sumanth K. Mutte, Adithi R. Vardarajan, Berta Miró, Ganesan Govindan, Blesilda Albano-Enriquez, Mandy Pueffeld, Nese Sreenivasulu, Inez H. Slamet‐Loedin, Kalaipandian Sundarvelpandian, Yun-Long Tsai, Saurabh Raghuvanshi, Yue‐Ie C. Hsing, Arvind Kumar, Ajay Kohli
Software Mentions: 2
Published: about 9 years ago
10.1038/srep18662
Sequence and gene expression evolution of paralogous genes in willows
Cited by: 12
Author(s): Srilakshmy L. Harikrishnan, Pascal Pucholt, Sofia Berlin
Software Mentions: 2
Published: almost 9 years ago
10.1186/1756-0500-5-11
De novo identification of viral pathogens from cell culture hologenomes
Cited by: 6
Author(s): Ashok Patowary, Rajendra K. Chauhan, Meghna Singh, Shamsudheen Kv, Vinita Periwal, Kushwaha Kp, Gajanand N Sapkal, Vijay P. Bondre, Milind M. Gore, Sridhar Sivasubbu, Vinod Scaria
Software Mentions: 2
Published: almost 13 years ago
10.1007/s00401-016-1629-y
Deep sequencing reveals persistence of cell-associated mumps vaccine virus in chronic encephalitis
Cited by: 39
Author(s): Sofia Morfopoulou, Edward T. Mee, Sarah M. Connaughton, Julianne R. Brown, Kimberly Gilmour, W.K. Chong, W. Paul Duprex, Deborah Ferguson, Michael Hubank, J. Ciaran Hutchinson, Marios Kaliakatsos, Stephen McQuaid, Simon Paine, Vincent Plagnol, Christopher Ruis, Alex Virasami, Hong Zhan, Thomas S. Jacques, Silke Schepelmann, Waseem Qasim, Judith Breuer
Software Mentions: 2
Published: about 8 years ago
10.1038/srep20238
Analyses of Long Non-Coding RNA and mRNA profiling using RNA sequencing during the pre-implantation phases in pig endometrium
Cited by: 128
Author(s): Yueying Wang, Shuai Xue, Xiaoran Liu, Huan Liu, Tao Hu, Xiaotian Qiu, Jinlong Zhang, Minggang Lei
Software Mentions: 2
Published: almost 9 years ago
10.1038/srep24863
Complete genomes of Hairstreak butterflies, their speciation and nucleo-mitochondrial incongruence
Cited by: 42
Author(s): Qian Cong, Jinhui Shen, Dominika Borek, Robert K. Robbins, Zbyszek Otwinowski, Nick V. Grishin
Software Mentions: 2
Published: over 8 years ago
10.3389/fnana.2017.00085
A Connectomic Analysis of the Human Basal Ganglia Network
Cited by: 58
Author(s): Alberto Cacciola, Alessandro Calamuneri, Demetrio Milardi, Enricomaria Mormina, Gaetana Chillemi, Silvia Marıno, Antonino Naro, Giuseppina Rizzo, Giuseppe Anastasi, Angelo Quartarone
Software Mentions: 2
Published: about 7 years ago
10.1128/MRA.00881-19
Coding-Complete Genome Sequence of a Pollen-Associated Virus Belonging to the <i>Secoviridae</i> Family Recovered from a Japanese Apricot ( <i>Prunus mume</i> ) Metagenome Data Set
Cited by: 2
Author(s): Andrea M. Fetters, Paul G. Cantalupo, Tia‐Lynn Ashman, James M. Pipas
Software Mentions: 2
Published: about 5 years ago
10.3389/fmolb.2020.609088
Surprisingly Fast Interface and Elbow Angle Dynamics of Antigen-Binding Fragments
Cited by: 10
Author(s): Monica L. Fernández‐Quintero, Katharina B. Kroell, Martin C. Heiss, Johannes R. Loeffler, Patrick K. Quoika, Franz Waibl, Alexander Bujotzek, Ekkehard Moessner, Guy Georges, Klaus R. Liedl
Software Mentions: 2
Published: almost 4 years ago
10.1038/srep28130
Distinct transcriptome profiles reveal gene expression patterns during fruit development and maturation in five main cultivated species of pear (Pyrus L.)
Cited by: 48
Author(s): Mingyue Zhang, Cheng Xue, Li Xu, Honghe Sun, Mengfan Qin, Shaoling Zhang, Wu Jun
Software Mentions: 2
Published: over 8 years ago
10.1186/s12864-015-2036-9
High-throughput mRNA and miRNA profiling of epithelial-mesenchymal transition in MDCK cells
Cited by: 26
Author(s): Priyank Shukla, Claus Vogl, Barbara Wallner, Doris Rigler, Mathias Müller, Sabine Macho-Maschler
Software Mentions: 2
Published: about 9 years ago
10.1186/1471-2164-15-682
Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing
Cited by: 30
Author(s): Christopher Cowled, Cameron R. Stewart, Vladimir A Likić, Marc R. Friedländer, Mary Tachedjian, Kristie A. Jenkins, Mark Tizard, Pauline Cottee, Glenn A. Marsh, Peng Zhou, Michelle L. Baker, Andrew G.D. Bean, Lin‐Fa Wang
Software Mentions: 2
Published: almost 11 years ago
10.1002/mgg3.665
<i>BRPF1</i>‐associated intellectual disability, ptosis, and facial dysmorphism in a multiplex family
Cited by: 17
Author(s): Naomi Pode‐Shakked, Ortal Barel, Ben Pode‐Shakked, Aviva Eliyahu, Amihood Singer, Omri Nayshool, Nitzan Kol, Annick Raas‐Rothschild, Elon Pras, Mordechai Shohat
Software Mentions: 2
Published: over 5 years ago
10.1038/srep30709
Characterization of long non-coding RNA transcriptome in high-energy diet induced nonalcoholic steatohepatitis minipigs
Cited by: 30
Author(s): Ji‐Han Xia, Leilei Xin, Wei Zhu, Li Li, Chenxiao Li, Yanfang Wang, Yulian Mu, Shulin Yang, Kui Li
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pntd.0005962
Quantitative multiplexed proteomics of Taenia solium cysts obtained from the skeletal muscle and central nervous system of pigs
Cited by: 12
Author(s): José Navarrete-Perea, Marta Isasa, João A. Paulo, Ricardo Corral-Corral, Jeanette Flores-Bautista, Beatriz Hernández-Téllez, Raúl J. Bobes, Gladis Fragoso, Edda Sciutto, Xavier Soberón, Steven P. Gygi, Juan Pedro Laclette
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0035888
CRISPR Interference Directs Strand Specific Spacer Acquisition
Cited by: 338
Author(s): Daan C. Swarts, Cas Mosterd, Mark W. J. van Passel, Stan J. J. Brouns
Software Mentions: 2
Published: over 12 years ago
10.1038/srep34420
Single-cell SNP analyses and interpretations based on RNA-Seq data for colon cancer research
Cited by: 13
Author(s): Jiahuan Chen, Qian Zhou, Yangfan Wang, Kang Ning
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.ppat.1004112
The Contribution of Viral Genotype to Plasma Viral Set-Point in HIV Infection
Cited by: 45
Author(s): Emma B. Hodcroft, Jarrod D. Hadfield, Esther Fearnhill, Andrew Phillips, David Dunn, Siobhan O′Shea, Deenan Pillay, Andrew J. Leigh Brown
Software Mentions: 2
Published: over 10 years ago
10.1038/srep36595
Predicting Subtype Selectivity for Adenosine Receptor Ligands with Three-Dimensional Biologically Relevant Spectrum (BRS-3D)
Cited by: 13
Author(s): Shan He, Bing Hu, Zheng-Kun Kuang, Dong Wang, De-Xin Kong
Software Mentions: 2
Published: about 8 years ago
10.1038/srep36009
Transcriptome analysis uncovers key regulatory and metabolic aspects of soybean embryonic axes during germination
Cited by: 57
Author(s): Daniel Bellieny-Rabelo, Eduardo Alves Gamosa de Oliveira, Elane da Silva Ribeiro, Evenilton Pessoa Costa, Antônia Elenir Amâncio Oliveira, Thiago M. Venancio
Software Mentions: 2
Published: about 8 years ago
10.3389/fmolb.2020.00162
The Voltage-Dependent Deactivation of the KvAP Channel Involves the Breakage of Its S4 Helix
Cited by: 2
Author(s): Olivier Bignucolo, Simon Bernèche
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.ppat.1003877
Alphavirus Mutator Variants Present Host-Specific Defects and Attenuation in Mammalian and Insect Models
Cited by: 90
Author(s): Kathryn Rozen-Gagnon, Kenneth A. Stapleford, Vanesa Mongelli, Hervé Blanc, Anna‐Bella Failloux, Maria‐Carla Saleh, Marco Vignuzzi
Software Mentions: 2
Published: almost 11 years ago
10.1038/srep40254
Crystal Structure of StnA for the Biosynthesis of Antitumor Drug Streptonigrin Reveals a Unique Substrate Binding Mode
Cited by: 5
Author(s): Tianle Qian, Jing Wo, Yan Zhang, Quanwei Song, Guoqiang Feng, Ray Luo, Shuangjin Lin, Geng Wu, Haifeng Chen
Software Mentions: 2
Published: almost 8 years ago
10.1186/1756-3305-7-151
Identification and characterization of alternative splicing in parasitic nematode transcriptomes
Cited by: 6
Author(s): Sahar Abubucker, Samantha N. McNulty, Bruce A. Rosa, Makedonka Mitreva
Software Mentions: 2
Published: over 10 years ago
10.1038/srep42094
Combined analysis of mRNA and miRNA identifies dehydration and salinity responsive key molecular players in citrus roots
Cited by: 42
Author(s): Rui Xie, Jin Zhang, Yue Ma, Xiaoting Pan, Cuicui Dong, Shijin Pang, Shuang-Hui He, Lie Deng, Shilai Yi, Yongqiang Zheng, Qiang Lv
Software Mentions: 2
Published: almost 8 years ago
10.3389/fmicb.2018.02524
Expression Patterns, Genomic Conservation and Input Into Developmental Regulation of the GGDEF/EAL/HD-GYP Domain Proteins in Streptomyces
Cited by: 31
Author(s): Mahmoud M. Al‐Bassam, Julian Haist, Sara Alina Neumann, Sandra Lindenberg, Natalia Tschowri
Software Mentions: 2
Published: about 6 years ago
10.1186/s12870-021-03024-3
Genome-wide identification and functional analysis of U-box E3 ubiquitin ligases gene family related to drought stress response in Chinese white pear (Pyrus bretschneideri)
Cited by: 18
Author(s): Chunmeng Wang, Bobo Song, Yuqin Dai, Shaoling Zhang, Xiaosan Huang
Software Mentions: 2
Published: over 3 years ago
10.1038/srep44504
Fine-tuning the extent and dynamics of binding cleft opening as a potential general regulatory mechanism in parvulin-type peptidyl prolyl isomerases
Cited by: 7
Author(s): András Czajlik, Bertalan Kovács, Perttu Permi, Zoltán Gáspári
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pgen.1006985
CTCF counter-regulates cardiomyocyte development and maturation programs in the embryonic heart
Cited by: 45
Author(s): Melisa Gómez-Velázquez, Claudio Badía-Careaga, Ana Victoria Lechuga‐Vieco, Rocío Nieto-Arellano, Juan J. Tena, Isabel Rollán, Alba Álvarez, Carlos Torroja, Eva F. Caceres, Anna Roy, Niels Galjart, Paul Delgado-Olguı́n, Fátima Sánchez‐Cabo, José Antonio Enrı́quez, José Luis Gómez‐Skarmeta, Miguel Manzanares
Software Mentions: 2
Published: about 7 years ago
10.1038/s41598-017-02469-7
Sensorimotor adaptation as a behavioural biomarker of early spinocerebellar ataxia type 6
Cited by: 6
Author(s): Muriel Panouillères, Raed A. Joundi, Sonia Benitez-Riveiro, Binith Cheeran, Christopher R. Butler, Andrea H. Németh, R. Chris Miall, Ned Jenkinson
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-017-02404-w
mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
Cited by: 13
Author(s): Kun Sun, Huating Wang, Hao Sun
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-017-04178-7
Integrating genome and transcriptome profiling for elucidating the mechanism of muscle growth and lipid deposition in Pekin ducks
Cited by: 16
Author(s): Liyuan Wang, Xiangxiang Li, Jun Ma, Yawen Zhang, Hao Zhang
Software Mentions: 2
Published: over 7 years ago
10.1111/jcmm.15852
EPDR1 correlates with immune cell infiltration in hepatocellular carcinoma and can be used as a prognostic biomarker
Cited by: 11
Author(s): Ruochan Chen, Yiya Zhang
Software Mentions: 2
Published: about 4 years ago
10.1155/2021/6673010
Genotyping by Sequencing-Based Discovery of SNP Markers and Construction of Linkage Map from F5 Population of Pepper with Contrasting Powdery Mildew Resistance Trait
Cited by: 6
Author(s): Abinaya Manivannan, Sena Choi, Tae-Hwan Jun, Eun-Young Yang, Jinhee Kim, Eun-Su Lee, Hye-Eun Lee, Do-Sun Kim, Yul-Kyun Ahn
Software Mentions: 2
Published: over 3 years ago
10.1371/journal.pgen.1006853
Integrative analysis of genomic alterations in triple-negative breast cancer in association with homologous recombination deficiency
Cited by: 35
Author(s): Masahito Kawazu, Shinya Kojima, Toshihide Ueno, Yasushi Totoki, Hiromi Nakamura, Akiko Kunita, Wei Qü, Junichi Yoshimura, Manabu Soda, Takahiko Yasuda, Natsuko Hama, Mihoko Saito‐Adachi, Kazuhito Sato, Shinji Kohsaka, Eirin Sai, Masako Ikemura, Shigeru Yamamoto, Tomoko Ogawa, Masashi Fukayama, Keiichiro Tada, Yasuyuki Seto, Shinichi Morishita, Shoichi Hazama, Tatsuhiro Shibata, Yuichi Yamashita, Hiroyuki Mano
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pgen.1004288
Genome-Wide Profiling of Yeast DNA:RNA Hybrid Prone Sites with DRIP-Chip
Cited by: 188
Author(s): Yujia Alina Chan, Maria J. Aristizabal, Phoebe Y. T. Lu, Zongli Luo, Akil Hamza, Michæl S. Kobor, Peter C. Stirling, Philip Hieter
Software Mentions: 2
Published: over 10 years ago
10.1038/s41598-017-08138-z
A transcriptome atlas of rabbit revealed by PacBio single-molecule long-read sequencing
Cited by: 75
Author(s): Shiyi Chen, Feilong Deng, Xianbo Jia, Li Cao, Songjia Lai
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pone.0246302
Evaluation of two automated low-cost RNA extraction protocols for SARS-CoV-2 detection
Cited by: 15
Author(s): Fernando Lázaro-Perona, Carlos Rodríguez-Antolín, Marina Alguacil-Guillén, Almudena Gutiérrez-Arroyo, Jesús Mingorance, Julio García-Rodríguez
Software Mentions: 2
Published: almost 4 years ago