pypi: STAMP | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2020.00571

Composition, Predicted Functions and Co-occurrence Networks of Rhizobacterial Communities Impacting Flowering Desert Events in the Atacama Desert, Chile
Cited by: 17
Author(s): Marcia Astorga-Eló, Qian Zhang, Giovanni Larama, Alexandra Stoll, Michael J. Sadowsky, Milko A. Jorquera
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0217001

Faecal microbiota shift during weaning transition in piglets and evaluation of AO blood types as shaping factor for the bacterial community profile
Cited by: 26
Author(s): Vincenzo Motta, Diana Luise, Paolo Bosi, Paolo Trevisi
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1002638

High Resolution Genome Wide Binding Event Finding and Motif Discovery Reveals Transcription Factor Spatial Binding Constraints
Cited by: 255
Author(s): Yuchun Guo, Shaun Mahony, David K. Gifford
Software Mentions: 5
Published: almost 12 years ago

10.1186/s40168-020-00980-0

The pleiotropic effects of prebiotic galacto-oligosaccharides on the aging gut
Cited by: 33
Author(s): Jason W. Arnold, Jeffery Roach, Salvador Fabela, Emily Moorfield, Shengli Ding, R. Eric Blue, Sue F. Dagher, Scott T. Magness, Rita Tamayo, José M. Bruno-Bárcena, M. Andrea Azcárate-Peril
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2020.00308

Characterization of the Gut Microbiota of the Antarctic Heart Urchin (Spatangoida) Abatus agassizii
Cited by: 13
Author(s): Guillaume Schwob, Léa Cabrol, Élie Poulin, Julieta Orlando
Software Mentions: 5
Published: about 4 years ago

10.7554/eLife.53600

MEIS-mediated suppression of human prostate cancer growth and metastasis through HOXB13-dependent regulation of proteoglycans
Cited by: 30
Author(s): Calvin VanOpstall, Padma Srikanth, Hannah Brechka, Marc Gillard, Sophia Lamperis, Baizhen Zhu, Roger Brown, Raj Bhanvadia, Donald Vander Griend
Software Mentions: 5
Published: almost 4 years ago

10.3389/fmicb.2016.01703

Alteration of Fecal Microbiota Profiles in Juvenile Idiopathic Arthritis. Associations with HLA-B27 Allele and Disease Status
Cited by: 53
Author(s): Monica Di Paola, Duccio Cavalieri, Davide Albanese, M. Sordo, Massimo Pindo, Claudio Donati, Ilaria Pagnini, Teresa Giani, Gabriele Simonini, Alessia Paladini, Paolo Lionetti, Carlotta De Filippo, Rolando Cimaz
Software Mentions: 5
Published: over 7 years ago

10.3389/fmicb.2018.02382

Chronic Physical Disturbance Substantially Alters the Response of Biological Soil Crusts to a Wetting Pulse, as Characterized by Metatranscriptomic Sequencing
Cited by: 23
Author(s): Blaire Steven, Jayne Belnap, Cheryl R. Kuske
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.6162

Diversity analysis of the rhizospheric and endophytic bacterial communities of <i>Senecio vulgaris</i> L. (Asteraceae) in an invasive range
Cited by: 20
Author(s): Dandan Cheng, Zhongsai Tian, Liang Feng, Lin Xu, Hongmei Wang
Software Mentions: 5
Published: over 5 years ago

10.1128/mSphere.00005-17

Divergent Relationships between Fecal Microbiota and Metabolome following Distinct Antibiotic-Induced Disruptions
Cited by: 28
Author(s): Jocelyn M. Choo, Tokuwa Kanno, Nur Masirah M. Zain, Lex E. X. Leong, Guy C. J. Abell, Julie Keeble, Kenneth D. Bruce, A. James Mason, Geraint B. Rogers
Software Mentions: 5
Published: about 7 years ago

10.1128/mSystems.00007-18

Asymptomatic Intestinal Colonization with Protist <i>Blastocystis</i> Is Strongly Associated with Distinct Microbiome Ecological Patterns
Cited by: 86
Author(s): Miriam Nieves-Ramı́rez, Oswaldo Partida-Rodríguez, Isabelle Laforest‐Lapointe, Lisa A. Reynolds, Eric Brown, A. Valdez-Salazar, P. Morán-Silva, Liliana Rojas-Velázquez, Evan Morien, Laura Wegener Parfrey, Mingliang Jin, Jens Walter, Javier Torres, Marie‐Claire Arrieta, C. Ximénez-García, B. Brett Finlay
Software Mentions: 5
Published: almost 6 years ago

10.7717/peerj.9205

Human milk microbiota associated with early colonization of the neonatal gut in Mexican newborns
Cited by: 27
Author(s): Karina Corona-Cervantes, Igrid García-González, Loan Edel Villalobos-Flores, Fernando Hernández-Quiroz, Alberto Piña-Escobedo, Carlos Hoyo‐Vadillo, Martín Noé Rangel-Calvillo, Jaime García‐Mena
Software Mentions: 5
Published: almost 4 years ago

10.1038/s41598-021-90489-9

Auxiliary rapid identification of pathogenic and antagonistic microorganisms associated with Coptis chinensis root rot by high-throughput sequencing
Cited by: 7
Author(s): Hailang Liao, Ling Huang, Na Li, Wenjia Ke, Yiqing Xiang, Yuntong Ma
Software Mentions: 5
Published: almost 3 years ago

10.3389/fimmu.2017.00655

Lactobacillus johnsonii N6.2 Modulates the Host Immune Responses: A Double-Blind, Randomized Trial in Healthy Adults
Cited by: 66
Author(s): Guillermo Marcial, Amanda Ford, Michael J. Haller, Salvador A. Gezan, Natalie A. Harrison, David Cai, Julie Meyer, Daniel J. Perry, Mark A. Atkinson, Clive Wasserfall, Timothy J. Garrett, Claudio F. González, Todd M. Brusko, Wendy J. Dahl, Graciela L. Lorca
Software Mentions: 5
Published: almost 7 years ago

10.1007/s00248-019-01435-2

The Bacterial Flora Associated with the Polyphagous Aphid Aphis gossypii Glover (Hemiptera: Aphididae) Is Strongly Affected by Host Plants
Cited by: 26
Author(s): Shifen Xu, Li‐Yun Jiang, Ge‐Xia Qiao, Jing Chen
Software Mentions: 5
Published: over 4 years ago

10.1038/s41598-021-86070-z

A flexible microfluidic system for single-cell transcriptome profiling elucidates phased transcriptional regulators of cell cycle
Cited by: 7
Author(s): Karen Davey, Daniel Wong, Filip A. Konopacki, Eugene Kwa, Tony Ly, Heike Fiegler, Christopher R. Sibley
Software Mentions: 5
Published: about 3 years ago

10.1371/journal.pone.0244724

Geography as non-genetic modulation factor of chicken cecal microbiota
Cited by: 8
Author(s): Natalia Daniela Pin Viso, Enzo A. Redondo, Juan María Díaz Carrasco, Leandro M. Redondo, Javier García, Mariano E. Fernández‐Miyakawa, Marisa Diana Farber
Software Mentions: 5
Published: over 3 years ago

10.1186/1471-2105-13-317

A Monte Carlo-based framework enhances the discovery and interpretation of regulatory sequence motifs
Cited by: 18
Author(s): Phillip Seitzer, Elizabeth G. Wilbanks, David Larsen, Marc T. Facciotti
Software Mentions: 4
Published: over 11 years ago

10.3389/fcimb.2020.00485

Gut Microbiota-Metabolome Changes in Children With Diarrhea by Diarrheagenic E. coli
Cited by: 16
Author(s): Pablo Gallardo, Mariana Izquierdo, Roberto Vidal, Francisco Soto, Juan C. Ossa, Mauricio J. Farfán
Software Mentions: 4
Published: over 3 years ago

10.1186/1471-2105-13-176

The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding
Cited by: 9
Author(s): Karl Kornacker, Morten Rye, Tony Håndstad, Finn Drabløs
Software Mentions: 4
Published: almost 12 years ago

10.1038/s41598-018-26423-3

Probiotic supplementation and associated infant gut microbiome and health: a cautionary retrospective clinical comparison
Cited by: 68
Author(s): Candice Quin, Mehrbod Estaki, Deanna M. Vollman, Jacqueline A. Barnett, S K Gill
Software Mentions: 4
Published: almost 6 years ago

10.3389/fcimb.2021.533528

Changes in the Human Gut Microbiota Associated With Colonization by Blastocystis sp. and Entamoeba spp. in Non-Industrialized Populations
Cited by: 23
Author(s): Gaël Even, Ana Lokmer, Jules Rodrigues, Christophe Audebert, Éric Viscogliosi, Laure Ségurel, Magali Chabé
Software Mentions: 4
Published: about 3 years ago

10.3389/fcimb.2018.00361

Comparative Analysis of the Microbial Profiles in Supragingival Plaque Samples Obtained From Twins With Discordant Caries Phenotypes and Their Mothers
Cited by: 11
Author(s): Yuqiao Zheng, Meng Zhang, Jin Li, Yuhong Li, Fei Teng, Han Jiang, Minquan Du
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-33950-6

Diversity of macaque microbiota compared to the human counterparts
Cited by: 37
Author(s): Zigui Chen, Yun Kit Yeoh, Michael K. Hui, Pak-Kin Wong, Max Kam-Kwan Chan, Margaret Ip, Jun Yu, Robert D. Burk, Francis K.L. Chan, Paul Kay Sheung Chan
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-64570-8

Structure and membership of gut microbial communities in multiple fish cryptic species under potential migratory effects
Cited by: 16
Author(s): My Hanh Le, Daryi Wang
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-019-43305-4

Soil amendments with ethylene precursor alleviate negative impacts of salinity on soil microbial properties and productivity
Cited by: 28
Author(s): Hongwei Liu, Muhammad Yahya Khan, Lília C. Carvalhais, Manuel Delgado‐Baquerizo, Lijuan Yan, Mark Crawford, Paul G. Dennis, Brajesh K. Singh
Software Mentions: 4
Published: about 5 years ago

10.1186/s12859-017-1849-8

MetaComp: comprehensive analysis software for comparative meta-omics including comparative metagenomics
Cited by: 11
Author(s): Peng Zhai, Longshu Yang, Xiao Guo, Zhe Wang, Jiangtao Guo, Xiaoqi Wang, Huaiqiu Zhu
Software Mentions: 4
Published: over 6 years ago

10.3389/fcell.2020.570484

Fine Particulate Matter Exposure Alters Pulmonary Microbiota Composition and Aggravates Pneumococcus-Induced Lung Pathogenesis
Cited by: 18
Author(s): Yu Wen Chen, Shiao Wen Li, Chia Der Lin, Mei Huang, Hwai Jeng Lin, Chia Yin Chin, Yi Ru Lai, Cheng Hsun Chiu, Chia Yu Yang, Chih Ho Lai
Software Mentions: 4
Published: over 3 years ago

10.7717/peerj.4075

Gene and genome-centric analyses of koala and wombat fecal microbiomes point to metabolic specialization for Eucalyptus digestion.
Cited by: 17
Author(s): Miriam E. Shiffman, Rochelle M. Soo, Paul G. Dennis, Mark Morrison, Gene W. Tyson, Philip Hugenholtz
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-017-00896-0

Arsenic metabolism in high altitude modern stromatolites revealed by metagenomic analysis
Cited by: 55
Author(s): Daniel Kurth, Ariel Fernando Amadío, Omar Federico Ordoñez, Virginia Helena Albarracín, Wolfgang Gärtner, Marı́a Eugenia Farı́as
Software Mentions: 4
Published: about 7 years ago

10.1186/s12864-016-2482-z

Overlapping cell population expression profiling and regulatory inference in C. elegans
Cited by: 6
Author(s): Joshua T. Burdick, Travis Walton, Elicia Preston, Amanda L. Zacharias, Arjun Raj, John I. Murray
Software Mentions: 4
Published: about 8 years ago

10.1038/s41598-017-00650-6

Microbial Functional Capacity Is Preserved Within Engineered Soil Formulations Used In Mine Site Restoration
Cited by: 34
Author(s): Deepak Kumaresan, Adam T. Cross, Benjamin Moreira‐Grez, Khalil Kariman, Paul Nevill, Jason C. Stevens, Richard J. N. Allcock, Anthony G. O'Donnell, Kingsley W. Dixon, Andrew S. Whiteley
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-017-01126-3

Bioinformatic Approaches Including Predictive Metagenomic Profiling Reveal Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments
Cited by: 106
Author(s): Arghya Mukherjee, Bobby Chettri, James S. Langpoklakpam, Pijush Basak, Aravind Prasad, Ashis K. Mukherjee, Maitree Bhattacharyya, Arvind Singh, Dhrubajyoti Chattopadhyay
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-017-16007-y

Warming, shading and a moth outbreak reduce tundra carbon sink strength dramatically by changing plant cover and soil microbial activity
Cited by: 31
Author(s): Mathilde Borg Dahl, Anders Priemé, Asker Brejnrod, Peter Brusvang, Magnus Lund, Josephine Nymand, Magnus Kramshøj, H. Ro‐Poulsen, Merian Skouw Haugwitz
Software Mentions: 4
Published: over 6 years ago

10.1002/ece3.7842

Characteristics and metabolic patterns of soil methanogenic archaea communities in the high‐latitude natural forested wetlands of China
Cited by: 3
Author(s): Di Wu, Caihong Zhao, Hui Bai, Fude Feng, Xin Sui, Sun Guo-rong
Software Mentions: 4
Published: almost 3 years ago

10.1002/ece3.6299

Interspecific comparison of the fecal microbiota structure in three Arctic migratory bird species
Cited by: 13
Author(s): Hyunjun Cho, Won Young Lee
Software Mentions: 4
Published: about 4 years ago

10.1186/s40104-021-00617-8

Effects of supplemental xylanase and xylooligosaccharides on production performance and gut health variables of broiler chickens
Cited by: 27
Author(s): Amit Kumar Singh, Birendra Mishra, M.R. Bedford
Software Mentions: 4
Published: over 2 years ago

10.1038/srep16807

Application of density gradient for the isolation of the fecal microbial stool component and the potential use thereof
Cited by: 40
Author(s): Arancha Hevia, Susana Delgado, Abelardo Margollés, Borja Sánchez
Software Mentions: 4
Published: over 8 years ago

10.1038/s42003-021-02524-0

Pulmonary immune cell trafficking promotes host defense against alcohol-associated Klebsiella pneumonia
Cited by: 10
Author(s): Derrick R. Samuelson, Min Gu, Judd E. Shellito, Patricia E. Molina, Christopher M. Taylor, Meng Luo, David A. Welsh
Software Mentions: 4
Published: over 2 years ago

10.1093/gbe/evu073

An Expanded Genomic Representation of the Phylum Cyanobacteria
Cited by: 260
Author(s): Rochelle M. Soo, Connor T. Skennerton, Yuji Sekiguchi, Michael Imelfort, Samuel J. Paech, Paul G. Dennis, Jason A. Steen, Donovan H. Parks, Gene W. Tyson, Philip Hugenholtz
Software Mentions: 4
Published: about 10 years ago

10.1016/j.jaci.2017.08.041

Associations between infant fungal and bacterial dysbiosis and childhood atopic wheeze in a nonindustrialized setting
Cited by: 159
Author(s): Marie‐Claire Arrieta, Andrea Arévalo, Leah T. Stiemsma, Pedro A. Dimitriu, Martha Chico, Sofia Loor, Maritza Vaca, Rozlyn C.T. Boutin, Evan Morien, Mingliang Jin, Stuart E. Turvey, Jens Walter, Laura Wegener Parfrey, Philip J. Cooper, B. Brett Finlay
Software Mentions: 4
Published: almost 6 years ago

10.1186/1471-2164-15-155

Dynamic reorganization of the AC16 cardiomyocyte transcriptome in response to TNFα signaling revealed by integrated genomic analyses
Cited by: 36
Author(s): Xin Luo, Minho Chae, Raga Krishnakumar, Charles G. Danko, W. Lee Kraus
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0257961

Bacterial community structure of early-stage biofilms is dictated by temporal succession rather than substrate types in the southern coastal seawater of India
Cited by: 15
Author(s): T.J. Sushmitha, Meora Rajeev, P. Sriyutha Murthy, Sangita Ganesh, Subba Rao Toleti, Shunmugiah Karutha Pandian
Software Mentions: 4
Published: over 2 years ago

10.1371/journal.pone.0187625

RNA-Seq analysis reveals insight into enhanced rice Xa7-mediated bacterial blight resistance at high temperature
Cited by: 46
Author(s): Stephen P. Cohen, Hongxia Liu, Cristiana T. Argueso, Andy Pereira, Casiana Vera Cruz, Valérie Verdier, Jan E. Leach
Software Mentions: 4
Published: over 6 years ago

10.1186/gb-2012-13-10-r88

Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity
Cited by: 72
Author(s): Alok K. Tewari, Galip Gürkan Yardımcı, Yoichiro Shibata, Nathan C. Sheffield, Lingyun Song, Barry S. Taylor, Stoyan Georgiev, Gerhard A. Coetzee, Uwe Ohler, Terrence S. Furey, Gregory E. Crawford, Phillip G. Febbo
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0232437

In-field bioreactors demonstrate dynamic shifts in microbial communities in response to geochemical perturbations
Cited by: 3
Author(s): Regina L. Wilpiszeski, Caitlin M. Gionfriddo, Ann M. Wymore, Ji Won Moon, Kenneth A. Lowe, Mircea Podar, Sa’ad Rafie, Matthew W. Fields, Terry C. Hazen, Xiaoxuan Ge, Farris L. Poole, Michael W. W. Adams, Romy Chakraborty, Yuhang Fan, Joy D. Van Nostrand, Jizhong Zhou, Adam P. Arkin, Dwayne A. Elias
Software Mentions: 4
Published: over 3 years ago

10.1111/1751-7915.13353

Microbial communities in swine lungs and their association with lung lesions
Cited by: 24
Author(s): Tao Huang, Mingpeng Zhang, Xinkai Tong, Jiaqi Chen, Guorong Yan, Shouguo Fang, Yuanmei Guo, Bin Yang, Shijun Xiao, Congying Chen, Lusheng Huang, Huashui Ai
Software Mentions: 4
Published: over 5 years ago

10.3389/fvets.2021.679368

Effects of Bacillus amyloliquefaciens Instead of Antibiotics on Growth Performance, Intestinal Health, and Intestinal Microbiota of Broilers
Cited by: 13
Author(s): Baikui Wang, Yuguang Zhou, Li Tang, Zihan Zeng, Li Gong, Yanping Wu, Weifen Li
Software Mentions: 4
Published: almost 3 years ago

10.1111/1751-7915.12751

The dynamics of the bacterial communities developed in maize silage
Cited by: 66
Author(s): Javad Gharechahi, Zohreh Akhavan Kharazian, Sajjad Sarikhan, Gholamreza Salehi Jouzani, Mahnaz Aghdasi, Ghasem Hosseini Salekdeh
Software Mentions: 4
Published: almost 7 years ago

10.1016/j.xcrm.2021.100280

Modifying gut integrity and microbiome in children with severe acute malnutrition using legume-based feeds (MIMBLE): A pilot trial
Cited by: 11
Author(s): Nuala Calder, Kevin Walsh, Peter Olupot–Olupot, Tonny Ssenyondo, Rita Muhindo, Ayub Mpoya, Jerusa Brignardello, Xuedan Wang, Eleanor McKay, Douglas Morrison, Elaine Holmes, Gary Frost, Kathryn Maitland
Software Mentions: 4
Published: about 3 years ago

10.3390/microorganisms8040513

Relationships between Gut Microbiota, Metabolome, Body Weight, and Glucose Homeostasis of Obese Dogs Fed with Diets Differing in Prebiotic and Protein Content
Cited by: 15
Author(s): Emmanuelle Apper, Lisa Privet, Bernard Taminiau, Cindy Le Bourgot, Ljubica Svilar, Jean‐Charles Martin, Marianne Diez
Software Mentions: 4
Published: about 4 years ago

10.1111/1462-2920.14808

Volatile‐mediated antagonism of soil bacterial communities against fungi
Cited by: 39
Author(s): Yong Li, Paolina Garbeva, Xiaojiao Liu, Paulien J. A. Klein Gunnewiek, Anna Clocchiatti, Maria P. J. Hundscheid, Xingxiang Wang, Wietse de Boer
Software Mentions: 4
Published: over 4 years ago

10.1186/gb-2010-11-3-r29

Genome-wide functional analysis of human 5' untranslated region introns
Cited by: 69
Author(s): Can Cenik, Adnan Derti, Joseph Mellor, Gabriel F. Berriz, Frederick P. Roth
Software Mentions: 4
Published: over 14 years ago

10.1038/srep18061

Probiotic treatment reduces appetite and glucose level in the zebrafish model
Cited by: 80
Author(s): Silvia Falcinelli, Ana Rodiles, Suraj Unniappan, Simona Picchietti, Giorgia Gioacchini, Daniel L. Merrifield, Oliana Carnevali
Software Mentions: 4
Published: over 8 years ago

10.1007/s11306-017-1270-3

The dental calculus metabolome in modern and historic samples
Cited by: 43
Author(s): Irina M. Velsko, Katherine A. Overmyer, Camilla Speller, Lauren Klaus, Matthew J. Collins, Louise Loe, Laurent Frantz, Krithivasan Sankaranarayanan, Cecil M. Lewis, Juan Bautista Rodriguez Martinez, Eros Chaves, Joshua J. Coon, Greger Larson, Christina Warinner
Software Mentions: 4
Published: over 6 years ago

10.3390/membranes11020100

Prediction of the Long-Term Effect of Iron on Methane Yield in an Anaerobic Membrane Bioreactor Using Bayesian Network Meta-Analysis
Cited by: 1
Author(s): Dawei Yu, Yushuai Liang, Rathmalgodage Thejani Nilusha, Tharindu Ritigala, Yuansong Wei
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2015.01500

Dynamics of Bacterial Community Composition in the Malaria Mosquito's Epithelia
Cited by: 68
Author(s): Majoline T. Tchioffo, Anne Boissière, Luc Abate, Sandrine E. Nsango, Albert N. Bayibéki, Parfait Awono-Ambene, Richard Christen, Geoffrey Gimonneau, Isabelle Morlais
Software Mentions: 4
Published: over 8 years ago

10.3390/microorganisms9030561

New Insights into Microbial Diversity of the Traditional Packed Table Olives Aloreña de Málaga through Metataxonomic Analysis
Cited by: 10
Author(s): Elio López-García, Antonio Benítez-Cabello, Javier Ramiro-García, Verónica Romero‐Gil, Francisco Rodríguez‐Gómez, Francisco Noé Arroyo‐López
Software Mentions: 4
Published: about 3 years ago

10.1371/journal.pone.0238632

Meconium microbiome and its relation to neonatal growth and head circumference catch-up in preterm infants
Cited by: 13
Author(s): Ana Carolina Terrazzan Nutricionist, Renato S. Procianoy, Luiz Fernando Würdig Roesch, Andrea Corso, Priscila Caroline Thiago Dobbler, Rita de Cássia dos Santos Silveira
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2018.01201

Microbial Community Structure and Associations During a Marine Dinoflagellate Bloom
Cited by: 93
Author(s): Jin Zhou, Mindy L. Richlen, Taylor R. Sehein, David M. Kulis, Donald M. Anderson, Zhonghua Cai
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2020.556118

Beneficial Effects of Mixing Kentucky Bluegrass With Red Fescue via Plant-Soil Interactions in Black Soil of Northeast China
Cited by: 6
Author(s): Fang Xie, Gaoyun Zhang, Qianjiao Zheng, Kemeng Liu, Xiujie Yin, Xiaoyang Sun, Shah Saud, Zhan Shi, Runli Yuan, Wenjing Deng, Lu Zhang, Guowen Cui, Yajun Chen
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0146447

Transcriptome Analysis of Honeybee (Apis Mellifera) Haploid and Diploid Embryos Reveals Early Zygotic Transcription during Cleavage
Cited by: 30
Author(s): Camilla Valente Pires, Flávia Cristina de Paula Freitas, Alexandre S. Cristino, Peter K. Dearden, Zilá Luz Paulino Simões
Software Mentions: 4
Published: over 8 years ago

10.3389/fmicb.2021.644540

Motor Stereotypic Behavior Was Associated With Immune Response in Macaques: Insight From Transcriptome and Gut Microbiota Analysis
Cited by: 3
Author(s): Xuan Pan, Fangyuan Liu, Yang Song, Hongrun Wang, Lingyun Wang, Hong Qiu, Megan Price, Jing Li
Software Mentions: 4
Published: almost 3 years ago

10.1371/journal.pone.0209313

Mangroves in the Galapagos islands: Distribution and dynamics
Cited by: 16
Author(s): Nicolás Moity, Byron Delgado, Pelayo Salinas‐de‐León
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2015.00966

Metagenomic analysis reveals that modern microbialites and polar microbial mats have similar taxonomic and functional potential
Cited by: 39
Author(s): Richard Allen White, Ian M. Power, Gregory M. Dipple, Gordon Southam, Curtis A. Suttle
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0231759

Links between the rumen microbiota, methane emissions and feed efficiency of finishing steers offered dietary lipid and nitrate supplementation
Cited by: 19
Author(s): J M Bowen, Paul Cormican, S.J. Lister, Matthew S. McCabe, Carol-Anne Duthie, R. Roehe, Richard J. Dewhurst
Software Mentions: 4
Published: about 4 years ago

10.3389/fmicb.2018.00945

Lactation Stage-Dependency of the Sow Milk Microbiota
Cited by: 47
Author(s): Wei Chen, Jiandui Mi, Ning Lv, Jin‐Ming Gao, Jun Cheng, Ruizhu Wu, Jingyun Ma, Tian Lan, Xindi Liao
Software Mentions: 4
Published: about 6 years ago

10.3390/microorganisms7100393

The Impact of Bioinformatics Pipelines on Microbiota Studies: Does the Analytical “Microscope” Affect the Biological Interpretation?
Cited by: 15
Author(s): Léa Siegwald, Ségolène Caboche, Gaël Even, Éric Viscogliosi, Christophe Audebert, Magali Chabé
Software Mentions: 4
Published: over 4 years ago

10.3389/fmicb.2017.01979

Diet, Environments, and Gut Microbiota. A Preliminary Investigation in Children Living in Rural and Urban Burkina Faso and Italy
Cited by: 177
Author(s): Carlotta De Filippo, Monica Di Paola, Matteo Ramazzotti, Davide Albanese, Giuseppe Pieraccini, Elena Banci, Franco Miglietta, Duccio Cavalieri, Paolo Lionetti
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2021.684903

Periphytic Biofilm Formation on Natural and Artificial Substrates: Comparison of Microbial Compositions, Interactions, and Functions
Cited by: 15
Author(s): Lingzhan Miao, Chengqian Wang, Tanveer M. Adyel, Jiaqi Zhao, Ning Yan, Jun Wu, Jun Hou
Software Mentions: 4
Published: almost 3 years ago

10.3390/microorganisms9030476

Grazing Affects Bacterial and Fungal Diversities and Communities in the Rhizosphere and Endosphere Compartments of Leymus chinensis through Regulating Nutrient and Ion Distribution
Cited by: 14
Author(s): Yurong Yang, Siying Chen, Xuefeng Wu, Sajid Iqbal Syed, Irfan Ullah Shah Syed, Beitong Huang, Pingting Guan, Deli Wang
Software Mentions: 4
Published: about 3 years ago

10.3390/microorganisms9030530

The Adult Phenylketonuria (PKU) Gut Microbiome
Cited by: 16
Author(s): Viviana J. Mancilla, Allison E. Mann, Yan Zhang, Michael S. Allen
Software Mentions: 4
Published: about 3 years ago

10.3389/fmicb.2018.01363

Persistence of Cellulolytic Bacteria Fibrobacter and Treponema After Short-Term Corn Stover-Based Dietary Intervention Reveals the Potential to Improve Rumen Fibrolytic Function
Cited by: 66
Author(s): Xiao Xie, Chunlei Yang, Le Luo Guan, Jiakun Wang, Mingyuan Xue, Jian X. Liu
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2020.584699

PUMAA: A Platform for Accessible Microbiome Analysis in the Undergraduate Classroom
Cited by: 8
Author(s): Keith Mitchell, Jiem R. Ronas, Christopher Dao, Amanda C. Freise, Serghei Mangul, Casey Shapiro, Jordan Moberg Parker
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0186435

Identification of cis-regulatory sequences reveals potential participation of lola and Deaf1 transcription factors in Anopheles gambiae innate immune response
Cited by: 14
Author(s): Bernardo Pérez-Zamorano, Sandra Rosas‐Madrigal, Oscar Arturo Migueles Lozano, Manuel Castillo Méndez, Verónica Valverde-Garduño
Software Mentions: 4
Published: over 6 years ago

10.1186/1752-0509-8-55

TGF-β stimulation in human and murine cells reveals commonly affected biological processes and pathways at transcription level
Cited by: 29
Author(s): Khalid Abnaof, Nikhil Mallela, Gudrun Walenda, Steffen K. Meurer, Kristin Seré, Qiong Lin, Boudewijn J. J. Smeets, Kurt Hoffmann, Wolfgang Wagner, Martin Zenke, Ralf Weiskirchen, Holger Fröhlich
Software Mentions: 4
Published: over 10 years ago

10.1186/s40168-021-01046-5

Androgen-induced gut dysbiosis disrupts glucolipid metabolism and endocrinal functions in polycystic ovary syndrome
Cited by: 39
Author(s): Qixin Han, Juan Wang, Weiping Li, Zi‐Jiang Chen, Yanzhi Du
Software Mentions: 4
Published: about 3 years ago

10.3389/fmicb.2020.01981

Rumen Microbiome Composition Is Altered in Sheep Divergent in Feed Efficiency
Cited by: 62
Author(s): Steven McLoughlin, Charles Spillane, Noel A. Claffey, Pamela M. Smith, Tommy O’Rourke, M.G. Diskin, Sinéad M. Waters
Software Mentions: 4
Published: over 3 years ago

10.1186/1752-0509-3-93

Dissecting the fission yeast regulatory network reveals phase-specific control elements of its cell cycle
Cited by: 11
Author(s): Pierre R. Bushel, Nicholas A. Heard, Roee Gutman, Liwen Liu, Shyamal D. Peddada, Saumyadipta Pyne
Software Mentions: 4
Published: over 14 years ago

10.1186/s12915-021-01122-0

Single-cell analysis of cell fate bifurcation in the chordate Ciona
Cited by: 4
Author(s): Konner Winkley, Wendy Reeves, Michael Veeman
Software Mentions: 4
Published: over 2 years ago

10.1186/s40168-018-0408-5

Integrated multi-omic analysis of host-microbiota interactions in acute oak decline
Cited by: 44
Author(s): Martin Broberg, James Doonan, Filip Mundt, Sandra Denman, James E. McDonald
Software Mentions: 4
Published: over 6 years ago

10.1128/AEM.02673-20

The Effects of Soil Depth on the Structure of Microbial Communities in Agricultural Soils in Iowa (United States)
Cited by: 53
Author(s): Jingjie Hao, Yen Ning Chai, Lucas Dantas Lopes, Raziel A. Ordóñez, Emily E. Wright, Sotirios Archontoulis, Daniel P. Schachtman
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2019.02474

Enhanced Microbial Interactions and Deterministic Successions During Anoxic Decomposition of Microcystis Biomass in Lake Sediment
Cited by: 7
Author(s): Yufan Wu, Peng Xing, Shuang‐Jiang Liu, Qinglong L. Wu
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0048996

Statistical Object Data Analysis of Taxonomic Trees from Human Microbiome Data
Cited by: 17
Author(s): Patricio S. La Rosa, Berkley Shands, Elena Deych, Yanjiao Zhou, Erica Sodergren, George M. Weinstock, William D. Shannon
Software Mentions: 4
Published: over 11 years ago

10.3390/microorganisms7020035

The Purple Sea Urchin Strongylocentrotus purpuratus Demonstrates a Compartmentalization of Gut Bacterial Microbiota, Predictive Functional Attributes, and Taxonomic Co-Occurrence
Cited by: 17
Author(s): Joseph A. Hakim, Julie B. Schram, Aaron W. E. Galloway, Casey D. Morrow, Michael R. Crowley, Stephen A. Watts, Asim K. Bej
Software Mentions: 4
Published: over 5 years ago

10.1186/s40168-017-0363-6

Pancreatic cyst fluid harbors a unique microbiome
Cited by: 53
Author(s): Shan Li, Gwenny M. Fuhler, Nahush Bn, Tony Jose, Marco J. Bruno, Maikel P. Peppelenbosch, Sergey R. Konstantinov
Software Mentions: 4
Published: over 6 years ago

10.1186/s40168-020-00835-8

Metabarcoding reveals distinct microbiotypes in the giant clam Tridacna maxima
Cited by: 21
Author(s): Isis Guibert, Gaël Lecellier, Gergely Torda, Xavier Pochon, Véronique Berteaux‐Lecellier
Software Mentions: 4
Published: about 4 years ago

10.3389/fmicb.2018.00869

Taxon-Function Decoupling as an Adaptive Signature of Lake Microbial Metacommunities Under a Chronic Polymetallic Pollution Gradient
Cited by: 20
Author(s): Bachar Cheaib, Malo Le Boulch, Pierre-Luc Mercier, Nicolas Derôme
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2018.00093

Microbial Communities and Diversities in Mudflat Sediments Analyzed Using a Modified Metatranscriptomic Method
Cited by: 17
Author(s): Yonggang Yan, Qin Jiang, Jian-Gong Wang, Ting Zhu, Bin Zou, Qiongfen Qiu, Zhe‐Xue Quan
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0227724

Gut-derived Flavonifractor species variants are differentially enriched during in vitro incubation with quercetin
Cited by: 6
Author(s): Gina Paola Rodriguez-Castaño, Federico E. Rey, Alejandro Caro‐Quintero, Alejandro Acosta-González
Software Mentions: 4
Published: over 3 years ago

10.1186/s40168-018-0610-5

The bacterial community significantly promotes cast iron corrosion in reclaimed wastewater distribution systems
Cited by: 30
Author(s): Guijuan Zhang, Bing Li, Jie Liu, Mingqiang Luan, Yao Long, Xiaotao Jiang, Ke Yu, Yuntao Guan
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2021.682989

Microbiome and Metabolomics Reveal the Effects of Different Feeding Systems on the Growth and Ruminal Development of Yaks
Cited by: 26
Author(s): Chun Hua Huang, Fei Ge, Xixi Yao, Xian Guo, Pengjia Bao, Xiaoming Ma, Xiaoyun Wu, Min Kyung Chu, Ping Yan, Chunnian Liang
Software Mentions: 4
Published: almost 3 years ago

10.1186/1471-2229-14-29

Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
Cited by: 76
Author(s): Martiniano María Ricardi, Ricardo Mendoza González, Silin Zhong, Pía Guadalupe Domínguez, Tomás Duffy, Pablo Turjanski, Juan D. Salgado Salter, Karina Alleva, Fernando Carrari, James J. Giovannoni, José M. Estevez, Norberto D. Iusem
Software Mentions: 4
Published: over 10 years ago

10.1186/s12941-021-00428-9

The impact of urine microbiota in patients with lower urinary tract symptoms
Cited by: 15
Author(s): Hsiang Ying Lee, Jiunn‐Wei ‐W Wang, Yung Shun Juan, Ching Chia Li, Chung‐Jung Liu, Sung Yong Cho, Hsin Chih Yeh, Kuang Shun Chueh, Wen Jeng Wu, Deng‐Chyang Wu
Software Mentions: 4
Published: about 3 years ago

10.3389/fmicb.2018.00251

Recovering Genomics Clusters of Secondary Metabolites from Lakes Using Genome-Resolved Metagenomics
Cited by: 27
Author(s): Rafael R. C. Cuadrat, Danny Ionescu, Alberto M. R. Dávila, Hans‐Peter Grossart
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1008936

Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?
Cited by: 15
Author(s): Jon Kapla, Ismael Rodríguez‐Espigares, Flavio Ballante, Jana Selent, Jens Carlsson
Software Mentions: 4
Published: about 3 years ago

10.1186/s12866-020-02002-3

Lifestyle modifications result in alterations in the gut microbiota in obese children
Cited by: 21
Author(s): Ky Young Cho
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2021.589948

Trace Metal Contamination Impacts Predicted Functions More Than Structure of Marine Prokaryotic Biofilm Communities in an Anthropized Coastal Area
Cited by: 19
Author(s): Clément Coclet, Cédric Garnier, Sébastien D’Onofrio, Guy Durrieu, Emilie Pasero, Christophe Le Poupon, Dario Omanović, Jean-Ulrich Mullot, Benjamin Misson, Jean‐François Briand
Software Mentions: 4
Published: about 3 years ago

10.3389/fmicb.2014.00223

Characterizing the avian gut microbiota: membership, driving influences, and potential function
Cited by: 297
Author(s): David W. Waite, Michael W. Taylor
Software Mentions: 4
Published: about 10 years ago

10.3389/fmicb.2020.588264

Pretreatment of Rapeseed Meal Increases Its Recalcitrant Fiber Fermentation and Alters the Microbial Community in an in vitro Model of Swine Large Intestine
Cited by: 5
Author(s): Long Cheng, Koen Venema
Software Mentions: 4
Published: over 3 years ago

Projects: pypi: STAMP

Papers Mentioning STAMP 1,190