bioconductor: DESeq2 | Projects | Ecosyste.ms: Papers

10.3390/vaccines8030353

Mucosal Vaccination with UV-Inactivated Chlamydia suis in Pre-Exposed Outbred Pigs Decreases Pathogen Load and Induces CD4 T-Cell Maturation into IFN-γ+ Effector Memory Cells
Cited by: 7
Author(s): Amanda Figueiredo Amaral, Khondaker S Rahman, Andrew R. Kick, Lizette M. Cortes, James Robertson, Bernhard Kaltenboeck, Volker Gerdts, Catherine M. O’Connell, Taylor B. Poston, Xiaojing Zheng, Chuwen Liu, Sam Y Omesi, Toni Darville, Tobias Käser
Software Mentions: 1
Published: about 5 years ago

10.3390/vaccines7040143

Early IgG Response to Foot and Mouth Disease Vaccine Formulated with a Vegetable Oil Adjuvant
Cited by: 6
Author(s): Xuemei Cui, Yong Wang, Babar Maqbool, Yuan Lu, Shikun He, Cenrong Zhang, Wei Xu, Songhua Hu
Software Mentions: 1
Published: almost 6 years ago

10.1177/2055217320978511

CD8+ T cell gene expression analysis identifies differentially expressed genes between multiple sclerosis patients and healthy controls
Cited by: 2
Author(s): Ina Skaara Brorson, Anna Eriksson, Ingvild Sørum Leikfoss, Valeria Vitelli, E. G. Celius, Torben Lüders, Tone Berge, Hanne F. Harbo, Hilde Nilsen, Steffan D. Bos
Software Mentions: 1
Published: almost 5 years ago

10.1038/s41385-020-00366-3

Intestinal-derived ILCs migrating in lymph increase IFNγ production in response to Salmonella Typhimurium infection
Cited by: 24
Author(s): Verena Kästele, Johannes U Mayer, Edward S. Lee, Natalie Papazian, John Cole, Vuk Cerovic, Gabrielle T. Belz, Michio Tomura, Gérard Eberl, Carl S. Goodyear, Rose A. Maciewicz, Daniel M. Wall, Tom Cupedo, David R. Withers, Simon Milling
Software Mentions: 1
Published: about 4 years ago

10.1186/s12864-020-06884-5

Identification of candidate genes and regulatory factors related to growth rate through hypothalamus transcriptome analyses in broiler chickens
Cited by: 9
Author(s): Katarzyna Piórkowska, Kacper Żukowski, Katarzyna Połtowicz, Joanna Nowak, Katarzyna Ropka‐Molik, Natalia Derebecka, Joanna Wesoły, Dorota Wojtysiak
Software Mentions: 1
Published: about 5 years ago

10.1016/j.omto.2021.07.005

Elevated Stratifin promotes cisplatin-based chemotherapy failure and poor prognosis in non-small cell lung cancer
Cited by: 5
Author(s): Yu‐Shui Ma, Likun Hou, Shihua Yao, Ji‐Bin Liu, Xuechen Yu, Yi Shi, Xiaoli Yang, Wei Wu, Chunyan Wu, Gengxi Jiang, Da Fu
Software Mentions: 1
Published: almost 4 years ago

10.1016/j.omtn.2020.03.011

circRNA Profiling Reveals an Abundant circFUT10 that Promotes Adipocyte Proliferation and Inhibits Adipocyte Differentiation via Sponging let-7
Cited by: 48
Author(s): Rui Jiang, Hui Li, Jianhong Yang, Xuemei Shen, Chengchuang Song, Chengchuang Song, Xiaogang Wang, Yongzhen Huang, Xianyong Lan, Chuzhao Lei, Hong Chen
Software Mentions: 1
Published: about 5 years ago

10.1128/mSystems.00855-20

Role of VapBC12 Toxin-Antitoxin Locus in Cholesterol-Induced Mycobacterial Persistence
Cited by: 15
Author(s): Sakshi Talwar, Manitosh Pandey, Chandresh Sharma, Rintu Kutum, Josephine Lum, Daniel Carbajo, Renu Goel, Michael Poidinger, Debasis Dash, Amit Singhal, Amit Pandey
Software Mentions: 1
Published: over 4 years ago

10.1128/mSystems.00842-20

Discovery of Euryhaline Phycoerythrobilin-Containing Synechococcus and Its Mechanisms for Adaptation to Estuarine Environments
Cited by: 5
Author(s): Xiaomin Xia, Puiyin Lee, Shunyan Cheung, Yanhong Lu, Hongbin Liu
Software Mentions: 1
Published: over 4 years ago

10.1128/mSystems.00230-20

Twists and Turns in the Salicylate Catabolism of Aspergillus terreus , Revealing New Roles of the 3-Hydroxyanthranilate Pathway
Cited by: 6
Author(s): Tiago M. Martins, Celso Martins, Paula Guedes, Cristina Silva Pereira
Software Mentions: 1
Published: over 4 years ago

10.1016/j.omtm.2019.05.015

Enhancing Lentiviral and Alpharetroviral Transduction of Human Hematopoietic Stem Cells for Clinical Application
Cited by: 37
Author(s): Juliane W. Schott, Diego León-Rico, Carolina B. Ferreira, Karen F. Buckland, Giorgia Santilli, Myriam Armant, Axel Schambach, Alessia Cavazza, Adrian J. Thrasher
Software Mentions: 1
Published: almost 6 years ago

10.1002/msb.135068

Alternative polyadenylation diversifies post‐transcriptional regulation by selective <scp>RNA</scp> –protein interactions
Cited by: 86
Author(s): Ishaan Gupta, Sandra Clauder‐Münster, Bernd Klaus, Aino I Järvelin, Raeka S. Aiyar, Vladimír Beneš, Stefan Wilkening, Wolfgang Huber, Vicent Pelechano, Lars M. Steinmetz
Software Mentions: 1
Published: over 11 years ago

10.3390/nu12103221

A High Protein Calorie Restriction Diet Alters the Gut Microbiome in Obesity
Cited by: 32
Author(s): Tien S. Dong, Kayti Luu, Venu Lagishetty, Farzaneh Sedighian, Sung Oh Woo, Benjamin W. Dreskin, William Katzka, Candace Chang, Yi Zhou, Nerea Arias-Jayo, Julianne C. Yang, Aaron I. Ahdoot, Zhaoping Li, Joseph R. Pisegna, Jonathan P. Jacobs
Software Mentions: 1
Published: almost 5 years ago

10.15252/msb.20156628

Tristetraprolin binding site atlas in the macrophage transcriptome reveals a switch for inflammation resolution
Cited by: 67
Author(s): Vitaly Sedlyarov, Jörg Fallmann, Florian Ebner, Jakob Huemer, Lucy Sneezum, Maša Ivin, Kristina Kreiner, Andrea Tanzer, Claus Vogl, Ivo L. Hofacker, Pavel Kovarik
Software Mentions: 1
Published: about 9 years ago

10.15252/msb.202110239

A systems‐level study reveals host‐targeted repurposable drugs against SARS‐CoV‐2 infection
Cited by: 18
Author(s): Fangyuan Chen, Qingya Shi, Fen Pei, Andreas Vogt, Rebecca A. Porritt, Gustavo García, Alejandro Raúl Gratacós Gómez, Mary Hongying Cheng, Mark E. Schurdak, Bing Liu, Stephen Y. Chan, Vaithilingaraja Arumugaswami, Andrew M. Stern, D. Lansing Taylor, Moshe Arditi, İvet Bahar
Software Mentions: 1
Published: almost 4 years ago

10.15252/msb.20145844

Negative feedback buffers effects of regulatory variants
Cited by: 33
Author(s): Daniel M. Bader, Stefan Wilkening, Gen Lin, Manu M. Tekkedil, K.-A. Dietrich, Lars M. Steinmetz, Julien Gagneur
Software Mentions: 1
Published: over 10 years ago

10.15252/msb.20188293

Characterizing meiotic chromosomes' structure and pairing using a designer sequence optimized for Hi‐C
Cited by: 59
Author(s): Héloïse Muller, Vittore F. Scolari, Nicolas Agier, Aurèle Piazza, Agnès Thierry, Guillaume Mercy, Stéphane Descorps-Declère, Luciana Lazar‐Stefanita, Olivier Espéli, Bertrand Llorente, Gilles Fischer, Julien Mozziconacci, Romain Koszul
Software Mentions: 1
Published: about 7 years ago

10.1128/mSystems.00802-21

Microbiota Perturbation or Elimination Can Inhibit Normal Development and Elicit a Starvation-Like Response in an Omnivorous Model Invertebrate
Cited by: 11
Author(s): Arturo Vera‐Ponce de León, Benjamin C. Jahnes, Alejandro Otero-Bravo, Zakee L. Sabree
Software Mentions: 1
Published: almost 4 years ago

10.1128/mSystems.00622-21

Recurrent Vulvovaginal Candidiasis: a Dynamic Interkingdom Biofilm Disease of Candida and Lactobacillus
Cited by: 29
Author(s): Emily McKloud, Christopher Delaney, Leighann Sherry, Ryan Kean, Shanice Williams, Rebecca Metcalfe, Rachael Thomas, Riina Rautemaa‐Richardson, Konstantinos Gerasimidis, Christopher J. Nile, Craig Williams, Gordon Ramage
Software Mentions: 1
Published: almost 4 years ago

10.1128/mSystems.00250-21

Microaerobic Lifestyle at Nanomolar O 2 Concentrations Mediated by Low-Affinity Terminal Oxidases in Abundant Soil Bacteria
Cited by: 7
Author(s): Daniela Trojan, Emilio García‐Robledo, Dimitri V. Meier, Bela Hausmann, Niels Peter Revsbech, Stephanie A. Eichorst, Dagmar Woebken
Software Mentions: 1
Published: almost 4 years ago

10.3390/jpm11090923

αβ-T Cells Engineered to Express γδ-T Cell Receptors Can Kill Neuroblastoma Organoids Independent of MHC-I Expression
Cited by: 4
Author(s): Josephine G M Strijker, Ronja Pscheid, Esther Drent, Jessica J. F. van der Hoek, Bianca Koopmans, Kimberley Ober, Sander R. van Hooff, Waleed M. Kholosy, Annelisa M. Cornel, Chris Coomans, Andrea Bisso, Marleen M. van Loenen, Jan J. Molenaar, Judith Wienke
Software Mentions: 1
Published: almost 4 years ago

10.15252/msb.20166969

Single‐cell sequencing maps gene expression to mutational phylogenies in <scp>PDGF</scp> ‐ and <scp>EGF</scp> ‐driven gliomas
Cited by: 86
Author(s): Sören Müller, Siyuan John Liu, Elizabeth Di Lullo, Martina Malatesta, Alex A. Pollen, Tomasz J. Nowakowski, Gary Kohanbash, Manish K. Aghi, Arnold R. Kriegstein, Daniel A. Lim, Aaron A. Diaz
Software Mentions: 1
Published: over 8 years ago

10.1038/s41380-019-0480-7

Morphine coordinates SST and PV interneurons in the prelimbic cortex to disinhibit pyramidal neurons and enhance reward
Cited by: 36
Author(s): Chuanhai Jiang, Xueying Wang, Qiumin Le, Peipei Li, Lei Cao, Zhilin Wang, Guanhong He, Ping Zheng, Feifei Wang, Lan Ma
Software Mentions: 1
Published: almost 6 years ago

10.3390/jpm11090827

PTGDR2 Expression in Peripheral Blood as a Potential Biomarker in Adult Patients with Asthma
Cited by: 5
Author(s): Asunción Garcı́a-Sánchez, Miguel Estravís, Marı́a Jesús Martı́n, Jacqueline Pérez‐Pazos, Cristina Martín‐García, María Gil-Melcón, Jacinto Ramos‐González, Ibon Eguíluz-Gracia, Juan Carlos Triviño, María Isidoro‐García, Ignacio Dávila, Catalina Sanz
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12864-019-5493-8

Genome-wide transcriptome analysis reveals the molecular mechanism of high temperature-induced floral abortion in Litchi chinensis
Cited by: 13
Author(s): Hao Líu, Congcong Wang, Houbin Chen, Biyan Zhou
Software Mentions: 1
Published: over 6 years ago

10.1093/hmg/ddx294

DJ-1 is a redox sensitive adapter protein for high molecular weight complexes involved in regulation of catecholamine homeostasis
Cited by: 18
Author(s): Dominik Piston, Lydia Álvarez, V. Bansal, Daniela Gargano, Zhi Yao, György Szabadkai, Mark Odell, M. Rhyan Puno, Benny Björkblom, Jodi Maple‐Grødem, Peter T. Breuer, Oliver Kaut, Jan Petter Larsen, Stefan Bonn, Simon Geir Møller, Ullrich Wüllner, Anthony H.V. Schapira, Matthew E. Gegg
Software Mentions: 1
Published: about 8 years ago

10.1038/s41380-018-0274-3

Epigenetic intersection of BDNF Val66Met genotype with premenstrual dysphoric disorder transcriptome in a cross-species model of estradiol add-back
Cited by: 13
Author(s): Jordan Marrocco, Nathan R. Einhorn, Gordon H Petty, Howard Li, Neelima Dubey, Jessica F. Hoffman, Karen F. Berman, David Goldman, Francis S. Lee, Peter J. Schmidt, Bruce S. McEwen
Software Mentions: 1
Published: almost 7 years ago

10.1093/hmg/ddw149

Altered RNA metabolism due to a homozygousRBM7mutation in a patient with spinal motor neuropathy
Cited by: 22
Author(s): Michele Giunta, Simon Edvardson, Yaobo Xu, Markus Schuelke, Aurora Gómez-Durán, Veronika Boczonadi, Orly Elpeleg, Juliane S. Müller, Rita Horvath
Software Mentions: 1
Published: about 9 years ago

10.1093/hmg/ddaa212

Altered Capicua expression drives regional Purkinje neuron vulnerability through ion channel gene dysregulation in spinocerebellar ataxia type 1
Cited by: 16
Author(s): Ravi Chopra, David D. Bushart, John P Cooper, Dhananjay Yellajoshyula, Logan M. Morrison, Haoran Huang, Hillary P. Handler, Luke J. Man, Warunee Dansithong, Daniel R. Scoles, Stefan M. Pulst, Harry T. Orr, Vikram G. Shakkottai
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12864-017-4400-4

Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)
Cited by: 33
Author(s): Kisun Pokharel, Jaana Peippo, Mervi Honkatukia, Arja Seppälä, Johanna Rautiainen, Nasser Ghanem, Tuula-Marjatta Hamama, M.A. Crowe, Magnus Andersson, Menghua Li, Juha Kantanen
Software Mentions: 1
Published: over 7 years ago

10.1111/mpp.12841

Small RNAs from the plant pathogenic fungus Sclerotinia sclerotiorum highlight host candidate genes associated with quantitative disease resistance
Cited by: 54
Author(s): Mark Derbyshire, Malick Mbengue, Marielle Barascud, Olivier Navaud, Sylvain Raffaele
Software Mentions: 1
Published: almost 6 years ago

10.1111/mpp.12933

MfOfd1 is crucial for stress responses and virulence in the peach brown rot fungus Monilinia fructicola
Cited by: 5
Author(s): Mingming Zhang, Zuo-Qian Wang, Xiao Xu, Song Huang, Wei-Xiao Yin, Chaoxi Luo
Software Mentions: 1
Published: over 5 years ago

10.1038/s41396-018-0077-1

Peatland Acidobacteria with a dissimilatory sulfur metabolism
Cited by: 121
Author(s): Bela Hausmann, Claus Pelikan, Craig W. Herbold, Stephan Köstlbacher, Mads Albertsen, Stephanie A. Eichorst, Tijana Glavina del Rio, Martin Huemer, Per Halkjær Nielsen, Thomas Rattei, Ulrich Stingl, Susannah G. Tringe, Daniela Trojan, Cécilia Wentrup, Dagmar Woebken, Michael Pester, Alexander Loy
Software Mentions: 1
Published: over 7 years ago

10.3390/nu12123701

Understanding the Heterogeneity of Obesity and the Relationship to the Brain-Gut Axis
Cited by: 6
Author(s): Tony Hung, Tien S. Dong, Zixi Chen, David Elashoff, Janet S. Sinsheimer, Jonathan P. Jacobs, Venu Lagishetty, Priten Vora, Jean Stains, Emeran A. Mayer, Abha R. Gupta
Software Mentions: 1
Published: over 4 years ago

10.1038/s41396-020-0715-2

Genome wide transcriptomic analysis of the soil ammonia oxidizing archaeon Nitrososphaera viennensis upon exposure to copper limitation
Cited by: 28
Author(s): Carolina Reyes, Logan H. Hodgskiss, Melina Kerou, Thomas Pribasnig, Sophie S. Abby, Barbara Bayer, Stephan M. Kraemer, Christa Schleper
Software Mentions: 1
Published: about 5 years ago

10.1186/s40168-019-0654-1

Prebiotic supplementation in frail older people affects specific gut microbiota taxa but not global diversity
Cited by: 59
Author(s): Tam Tran, Fabien Cousin, Denise B. Lynch, Ravi S. Menon, Jennifer M. Brulc, Jillian R. Brown, Eileen O’Herlihy, Ludovica F. Buttò, Katie Power, Ian B. Jeffery, Eibhlís M. O’Connor, Paul W. O’Toole
Software Mentions: 1
Published: over 6 years ago

10.1038/s41396-020-0594-6

Iron competition triggers antibiotic biosynthesis in Streptomyces coelicolor during coculture with Myxococcus xanthus
Cited by: 49
Author(s): Namil Lee, Woori Kim, Jinkyoo Chung, Yong Jae Lee, Suhyung Cho, Kyoung‐Soon Jang, Sun Chang Kim, Jaehyung Kim, Byung-Kwan Cho
Software Mentions: 1
Published: over 5 years ago

10.1038/s41396-020-00785-x

Disruption of Firmicutes and Actinobacteria abundance in tomato rhizosphere causes the incidence of bacterial wilt disease
Cited by: 164
Author(s): Sang Moo Lee, Hyun Gi Kong, Geun Cheol Song, Choong‐Min Ryu
Software Mentions: 1
Published: almost 5 years ago

10.1098/rsob.160012

Acute stress is detrimental to heart regeneration in zebrafish
Cited by: 46
Author(s): Pauline Sallin, Anna Jaźwińska
Software Mentions: 1
Published: over 9 years ago

10.1186/s40168-019-0740-4

Diet-induced remission in chronic enteropathy is associated with altered microbial community structure and synthesis of secondary bile acids
Cited by: 90
Author(s): Shuai Wang, Rene Martins, Megan C. Sullivan, Elliot S. Friedman, Ana M. Misic, Ayah El-Fahmawi, Elaine Cristina Pereira De Martinis, Kevin T. O’Brien, Ying Chen, Charles W. Bradley, Grace Zhang, Alexander S. F. Berry, Christopher A. Hunter, Robert N. Baldassano, Mark P. Rondeau, Daniel P. Beiting
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41396-020-00840-7

Ammonia oxidation at pH 2.5 by a new gammaproteobacterial ammonia-oxidizing bacterium
Cited by: 34
Author(s): Nunzia Picone, Arjan Pol, Rob Mesman, Maartje A. H. J. van Kessel, Geert Cremers, A.H. van Gelder, Theo A. van Alen, Mike S. M. Jetten, Sebastian Lücker, Huub J. M. Op den Camp
Software Mentions: 1
Published: over 4 years ago

10.1038/s41396-020-00811-y

Resource partitioning of phytoplankton metabolites that support bacterial heterotrophy
Cited by: 69
Author(s): Frank X. Ferrer‐González, Brittany Widner, Nicole R. Holderman, John Glushka, Arthur S. Edison, Elizabeth B. Kujawinski, Mary Ann Moran
Software Mentions: 1
Published: almost 5 years ago

10.1038/s41396-020-0707-2

Physiological dynamics of chemosynthetic symbionts in hydrothermal vent snails
Cited by: 16
Author(s): Corinna Breusing, Jessica Mitchell, Jennifer A. Delaney, Sean P. Sylva, Jeffrey S. Seewald, Peter R. Girguis, Roxanne A. Beinart
Software Mentions: 1
Published: about 5 years ago

10.1098/rsob.160293

Peripheral self-reactivity regulates antigen-specific CD8 T-cell responses and cell division under physiological conditions
Cited by: 6
Author(s): Lee Kim Swee, Zhen Tan, Anna Smerdel-Ramoya, Norimasa Yoshida, Harshil Patel, Gijsbert M. Grotenbreg, Eva‐Maria Frickel, Hidde L. Ploegh
Software Mentions: 1
Published: over 8 years ago

10.1186/s40168-018-0574-5

Transient O2 pulses direct Fe crystallinity and Fe(III)-reducer gene expression within a soil microbiome
Cited by: 16
Author(s): John R. Wilmoth, Mary Ann Moran, Aaron Thompson
Software Mentions: 1
Published: almost 7 years ago

10.7150/ijbs.55873

The histone demethylase KDM2B regulates human primordial germ cell-like cells specification
Cited by: 4
Author(s): Weiyan Yuan, Zhaokai Yao, Veeramohan Veerapandian, Xinyan Yang, Xiaoman Wang, Dingyao Chen, Linzi Ma, Chaohui Li, Yi Zheng, Fang Luo, Xiaoyang Zhao
Software Mentions: 1
Published: over 4 years ago

10.7150/ijbs.58422

Long noncoding RNA SH3PXD2A-AS1 promotes colorectal cancer progression by regulating p53-mediated gene transcription
Cited by: 6
Author(s): Pingfu Hou, Tian Lin, Sen Meng, Meilin Shi, Fang Chen, Tao Jiang, Zhongwei Li, Minle Li, Sufang Chu, Junnian Zheng, Jing Bai
Software Mentions: 1
Published: over 4 years ago

10.7150/ijbs.58026

Deciphering the effects of PYCR1 on cell function and its associated mechanism in hepatocellular carcinoma
Cited by: 6
Author(s): Yijuan Xu, Wenpu Zuo, Xiao Wang, Qinle Zhang, Xiang Gan, Nguan Soon Tan, Wenxian Jia, Jiayi Liu, Zhouquan Li, Bo Zhou, Dong Zhao, Zhibin Xie, Yanjun Tan, Shu Zheng, Chengwu Liu, Hongtao Li, Zhijian Chen, Xiaoli Yang, Zhichuan Huang
Software Mentions: 1
Published: over 4 years ago

10.7150/ijbs.58657

Protopanaxadiol improves endometriosis associated infertility and miscarriage in sex hormones receptors-dependent and independent manners
Cited by: 11
Author(s): Zhen‐Zhen Lai, Hui‐Li Yang, Jing Shi, Hui‐Hui Shen, Yan Wang, Kai‐Kai Chang, Tao Zhang, Jiang‐Feng Ye, Jiansong Sun, Xue Qiu, Ming‐Qing Li
Software Mentions: 1
Published: over 4 years ago

10.1186/s13046-018-0897-x

Vitexin compound 1, a novel extraction from a Chinese herb, suppresses melanoma cell growth through DNA damage by increasing ROS levels
Cited by: 48
Author(s): Nian Liu, Kuan Song Wang, Min Qi, Ying Zhou, Guang Zeng, Juan Tao, Jiayi Zhou, Jiang Lin Zhang, Xiang Chen, Cong Peng
Software Mentions: 1
Published: over 6 years ago

10.1186/s13046-019-1032-3

PAGE4 promotes prostate cancer cells survive under oxidative stress through modulating MAPK/JNK/ERK pathway
Cited by: 18
Author(s): Chengcheng Lv, Shui Fu, Qingzhuo Dong, Zi Yu, Gejun Zhang, Chuize Kong, Cheng Fu, Yu Zeng
Software Mentions: 1
Published: over 6 years ago

10.1186/s13046-019-1241-9

Minichromosome maintenance 3 promotes hepatocellular carcinoma radioresistance by activating the NF-κB pathway
Cited by: 29
Author(s): Qing Yang, Binhui Xie, Hui Tang, Meng Wang, Changchang Jia, Xiaomei Zhang, Yi Zhang, Jianwen Zhang, Heping Li, Binsheng Fu
Software Mentions: 1
Published: about 6 years ago

10.1186/s13046-019-1427-1

Impact of Docetaxel on blood-brain barrier function and formation of breast cancer brain metastases
Cited by: 9
Author(s): Simon Bernatz, Elena I. Ilina, Kavi Devraj, Patrick N. Harter, Klaus Mueller, Sascha Kleber, Yannick Braun, Cornelia Penski, Christoph Renner, Rashi Halder, Lukas Jennewein, Christine Solbach, Frits Thorsen, Bernhard Paulweber, Axel Mischo, Michel Mittelbronn
Software Mentions: 1
Published: over 5 years ago

10.1186/s13046-020-01815-4

Impact of the acidic environment on gene expression and functional parameters of tumors in vitro and in vivo
Cited by: 13
Author(s): Mandy Rauschner, Luisa Lange, Thea Hüsing, Sarah Reime, Alexander Nolze, Marcel Maschek, Oliver Thews, Anne Riemann
Software Mentions: 1
Published: over 4 years ago

10.1186/s13046-021-01875-0

A preliminary study of micro-RNAs as minimally invasive biomarkers for the diagnosis of prostate cancer patients
Cited by: 16
Author(s): Simona Giglio, Cosimo De Nunzio, Roberto Cirombella, Antonella Stoppacciaro, Omar Faruq, Stefano Volinia, Gustavo Baldassarre, Andrea Tubaro, Hideshi Ishii, Carlo M. Croce, Andrea Vecchione
Software Mentions: 1
Published: over 4 years ago

10.1098/rsob.200246

Temperature modulates immune gene expression in mosquitoes during arbovirus infection
Cited by: 18
Author(s): B. M. C. Randika Wimalasiri-Yapa, Roberto A. Barrero, Liesel Stassen, Louise M. Hafner, Elizabeth A. McGraw, Alyssa T. Pyke, Cassie C. Jansen, Andreas Suhrbier, Laith Yakob, Wenbiao Hu, Gregor J. Devine, Francesca D. Frentiu
Software Mentions: 1
Published: over 4 years ago

10.1186/s40168-019-0664-z

Fecal metatranscriptomics of macaques with idiopathic chronic diarrhea reveals altered mucin degradation and fucose utilization
Cited by: 26
Author(s): Samuel T. Westreich, Amir Ardeshir, Zeynep Alkan, Mary E. Kable, Ian F Korf, Danielle G. Lemay
Software Mentions: 1
Published: over 6 years ago

10.1098/rsob.200182

Genetic regulation and heritability of miRNA and mRNA expression link to phosphorus utilization and gut microbiome
Cited by: 4
Author(s): Siriluck Ponsuksili, Michael Oster, Henry Reyer, Frieder Hadlich, Nares Trakooljul, M. Rodehutscord, Amélia Camarinha‐Silva, Jörn Bennewitz, Klaus Wimmers
Software Mentions: 1
Published: over 4 years ago

10.1186/s12864-020-07177-7

Uterine transcriptome analysis reveals mRNA expression changes associated with the ultrastructure differences of eggshell in young and aged laying hens
Cited by: 12
Author(s): Jia Feng, Haijun Zhang, Shu‐geng Wu, Guang‐hai Qi, Jing Wang
Software Mentions: 1
Published: over 4 years ago

10.1186/s40168-016-0160-7

Interpreting Prevotella and Bacteroides as biomarkers of diet and lifestyle
Cited by: 294
Author(s): Anastassia Y. Gorvitovskaia, Susan Holmes, Susan M. Huse
Software Mentions: 1
Published: over 9 years ago

10.7554/eLife.65484

Cytosolic aggregation of mitochondrial proteins disrupts cellular homeostasis by stimulating the aggregation of other proteins
Cited by: 37
Author(s): Urszula Nowicka, Piotr Chrościcki, Karen Stroobants, Maria Sladowska, Michał Turek, Barbara Uszczyńska-Ratajczak, Rishika Kundra, Tomasz Góral, Michele Perni, Christopher M. Dobson, Agnieszka Chacińska
Software Mentions: 1
Published: about 4 years ago

10.1186/s40168-019-0674-x

Encrustations on ureteral stents from patients without urinary tract infection reveal distinct urotypes and a low bacterial load
Cited by: 18
Author(s): Matthias T. Buhmann, Dominik Abt, Oliver Nolte, Thomas R. Neu, Sebastian Strempel, Werner C. Albrich, Patrick Betschart, Valentin Zumstein, Antonia Neels, Katharina Maniura‐Weber, Qun Ren
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.47929

Cardiac neural crest contributes to cardiomyocytes in amniotes and heart regeneration in zebrafish
Cited by: 44
Author(s): Weiyi Tang, Megan L. Martik, Yuwei Li, Marianne E. Bronner
Software Mentions: 1
Published: almost 6 years ago

10.7554/eLife.63300

PIE-1 SUMOylation promotes germline fates and piRNA-dependent silencing in C. elegans
Cited by: 8
Author(s): Hee-Sun Kim, Yue-He Ding, Shan Lu, Mei-Qing Zuo, Wendy D Tan, Darryl Conte, Meng‐Qiu Dong, Craig C. Mello
Software Mentions: 1
Published: about 4 years ago

10.7554/eLife.33498

LRRTM1 underlies synaptic convergence in visual thalamus
Cited by: 29
Author(s): Aboozar Monavarfeshani, Gail Stanton, Jonathan Van Name, Kaiwen Su, William A. Mills, Kenya Swilling, Alicia Kerr, Natalie A Huebschman, Jianmin Su, Michael A. Fox
Software Mentions: 1
Published: over 7 years ago

10.1002/mbo3.1111

Microbial interaction between the succinate‐utilizing bacteriumPhascolarctobacterium faeciumand the gut commensalBacteroides thetaiotaomicron
Cited by: 37
Author(s): Nao Ikeyama, Takumi Murakami, Atsushi Toyoda, Hiroshi Mori, Takao Iino, Moriya Ohkuma, Mitsuo Sakamoto
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12864-015-1247-4

H2A.Z marks antisense promoters and has positive effects on antisense transcript levels in budding yeast
Cited by: 19
Author(s): Muxin Gu, Yanin Naiyachit, Thomas J. Wood, Catherine B. Millar
Software Mentions: 1
Published: over 10 years ago

10.1099/mgen.0.000125

Transcriptomic analysis of aerobic respiratory and anaerobic photosynthetic states in Rhodobacter capsulatus and their modulation by global redox regulators RegA, FnrL and CrtJ
Cited by: 12
Author(s): Joseph E. Kumka, Heidi S. Schindel, Mingxu Fang, Sébastien Zappa, Carl E. Bauer
Software Mentions: 1
Published: almost 8 years ago

10.1099/mgen.0.000462

Transcriptomics reveal core activities of the plant growth-promoting bacterium Delftia acidovorans RAY209 during interaction with canola and soybean roots
Cited by: 4
Author(s): Danae M. Suchan, Jordyn Bergsveinson, Lori A. Manzon, Alexa J. Pierce, Yuriy Kryachko, Darren R. Korber, Yifang Tan, Dinah D. Tambalo, Nurul H. Khan, Michael L. Whiting, Christopher K. Yost
Software Mentions: 1
Published: over 4 years ago

10.7554/eLife.52168

Single cell analysis reveals human cytomegalovirus drives latently infected cells towards an anergic-like monocyte state
Cited by: 37
Author(s): Miri Shnayder, Aharon Nachshon, Batsheva Rozman, Biana Bernshtein, Michael Lavi, Noam Fein, Emma Poole, Selmir Avdic, Emily Blyth, David Gottlieb, Allison Abendroth, Barry Slobedman, John Sinclair, Noam Stern-Ginossar, Michal Schwartz
Software Mentions: 1
Published: over 5 years ago

10.1099/mgen.0.000200

Transcriptome analysis of Azospirillum brasilense vegetative and cyst states reveals large-scale alterations in metabolic and replicative gene expression
Cited by: 8
Author(s): Elizabeth A. Malinich, Carl E. Bauer
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12864-017-4361-7

Training the salmon’s genes: influence of aerobic exercise, swimming performance and selection on gene expression in Atlantic salmon
Cited by: 12
Author(s): Nick Robinson, Gerrit Timmerhaus, Matthew Baranski, Øivind Andersen, Harald Takle, Aleksei Krasnov
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.24771

Paternal nicotine exposure alters hepatic xenobiotic metabolism in offspring
Cited by: 48
Author(s): Markus Vallaster, Shweta Kukreja, Xin Yang Bing, Jennifer Ngolab, Rubing Zhao-Shea, Paul Gardner, Andrew R. Tapper, Oliver J. Rando
Software Mentions: 1
Published: over 8 years ago

10.1128/JVI.02106-18

Investigating the Biological Relevance of In Vitro -Identified Putative Packaging Signals at the 5′ Terminus of Satellite Tobacco Necrosis Virus 1 Genomic RNA
Cited by: 9
Author(s): Ioly Kotta‐Loizou, Hadrien Peyret, Keith Saunders, Robert H.A. Coutts, George P. Lomonossoff
Software Mentions: 1
Published: about 6 years ago

10.1264/jsme2.ME16158

Bacterial Microbiota Associated with the Glacier Ice Worm Is Dominated by Both Worm-Specific and Glacier-Derived Facultative Lineages
Cited by: 11
Author(s): Takumi Murakami, Tomio Segawa, Roman Dial, Nozomu Takeuchi, Shiro Kohshima, Yuichi Hongoh
Software Mentions: 1
Published: over 8 years ago

10.1128/JVI.00102-19

RIG-I Activation by a Designer Short RNA Ligand Protects Human Immune Cells against Dengue Virus Infection without Causing Cytotoxicity
Cited by: 9
Author(s): Victor Ho, Hui Yee Yong, Marion Chevrier, Vipin Narang, Josephine Lum, Ying-Xiu Toh, Bernett Lee, Jinmiao Chen, Ern Yu Tan, Dahai Luo, Katja Fink
Software Mentions: 1
Published: about 6 years ago

10.1186/s12934-021-01624-0

Expression of antibody fragments in Saccharomyces cerevisiae strains evolved for enhanced protein secretion
Cited by: 17
Author(s): Yanyan Wang, Xiaowei Li, Xin Chen, Jens Nielsen, Dina Petranović, Verena Siewers
Software Mentions: 1
Published: about 4 years ago

10.1186/s12934-019-1072-6

Heterologous phosphoketolase expression redirects flux towards acetate, perturbs sugar phosphate pools and increases respiratory demand in Saccharomyces cerevisiae
Cited by: 22
Author(s): Alexandra Linda Bergman, John Hellgren, Thomas Moritz, Verena Siewers, Jens Nielsen, Yun Chen
Software Mentions: 1
Published: over 6 years ago

10.1186/s12934-018-0993-9

Mutational Mtc6p attenuates autophagy and improves secretory expression of heterologous proteins in Kluyveromyces marxianus
Cited by: 12
Author(s): Yang Liu, Wenjuan Mo, Tianfang Shi, Mengzhu Wang, Jungang Zhou, Yao Yu, Wen-Shan Yew, Hong Lü
Software Mentions: 1
Published: almost 7 years ago

10.7554/eLife.35037

A genetic program mediates cold-warming response and promotes stress-induced phenoptosis in C. elegans
Cited by: 37
Author(s): Wei Jiang, Yuehua Wei, Yong Long, Arthur Owen, Bingying Wang, Xuebing Wu, Shuo Luo, Yongjun Dang, K. Dengke
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.57947

The birth of a bacterial tRNA gene by large-scale, tandem duplication events
Cited by: 14
Author(s): Gökçe B Ayan, Hye Jin Park, Jenna Gallie
Software Mentions: 1
Published: over 4 years ago

10.1128/JVI.01094-19

Pharmacological Modulation of the Wnt/β-Catenin Pathway Inhibits Proliferation and Promotes Differentiation of Long-Lived Memory CD4 + T Cells in Antiretroviral Therapy-Suppressed Simian Immunodeficiency Virus-Infected Macaques
Cited by: 13
Author(s): Maud Mavigner, Michelle Zanoni, Gregory K. Tharp, Jakob Habib, Cameron Mattingly, Mathias Lichterfeld, Melon T. Nega, Thomas H. Vanderford, Steven E. Bosinger, Ann Chahroudi
Software Mentions: 1
Published: over 5 years ago

10.7554/eLife.59699

Rapid purification and metabolomic profiling of synaptic vesicles from mammalian brain
Cited by: 26
Author(s): Lynne Chantranupong, Jessica L. Saulnier, Wengang Wang, Drew R. Jones, Michael E. Pacold, Bernardo L. Sabatini
Software Mentions: 1
Published: almost 5 years ago

10.1111/1751-7915.13343

Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation
Cited by: 11
Author(s): Zongjin Li, Qing Pan, Yunzhu Xiao, Xingxing Fang, Ruoping Shi, Chunxiang Fu, Antoine Danchin, Chenjiang You
Software Mentions: 1
Published: over 6 years ago

10.1111/1751-7915.13738

Transcriptional profiling of the stringent response mutant strain E. coli SR reveals enhanced robustness to large‐scale conditions
Cited by: 2
Author(s): Martin Ziegler, Julia Zieringer, Ralf Takors
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2020.00604

Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response
Cited by: 7
Author(s): Vito A. Mastrochirico-Filho, Milene Elissa Hata, Rafael Yutaka Kuradomi, Milena V. Freitas, Raquel B. Ariede, Daniel Guariz Pinheiro, Diego Robledo, Ross D. Houston, Diogo Teruo Hashimoto
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.651971

Immune System and Neuroinflammation in Idiopathic Parkinson’s Disease: Association Analysis of Genetic Variants and miRNAs Interactions
Cited by: 8
Author(s): Claudia Strafella, Valerio Caputo, Andrea Termine, Francesca Assogna, Clelia Pellicano, Francesco E. Pontieri, Lucia Macchiusi, Giulietta Minozzi, Stefano Gambardella, Diego Centonze, Paola Bossù, Gianfranco Spalletta, Carlo Caltagirone, Emiliano Giardina, Raffaella Cascella
Software Mentions: 1
Published: about 4 years ago

10.3389/fgene.2020.00068

Transcriptomic Study of Porcine Small Intestine Epithelial Cells Reveals Important Genes and Pathways Associated With Susceptibility to Escherichia coli F4ac Diarrhea
Cited by: 8
Author(s): Serafino M. A. Augustino, Qiang Xu, Xueqin Liu, Lei Liu, Qin Zhang, Ying Yu
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2020.00541

MicroRNA-mRNA Co-sequencing Identifies Transcriptional and Post-transcriptional Regulatory Networks Underlying Muscle Wasting in Cancer Cachexia
Cited by: 17
Author(s): Geysson Javier Fernández, Juarez Henrique Ferreira, Ivan J. Vechetti, Leonardo Nazário de Moraes, Sarah Santiloni Cury, Paula Paccielli Freire, Jayson Gutiérrez, Renato Ferretti, Maeli Dal-Pai-Silva, Sílvia Regina Rogatto, Robson Francisco Carvalho
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2019.00672

Comparative Transcriptomic and Proteomic Analyses Identify Key Genes Associated With Milk Fat Traits in Chinese Holstein Cows
Cited by: 13
Author(s): Chixing Zhou, Dan Shen, Cong Liu, Wentao Cai, Shuli Liu, Hongwei Yin, Shaolei Shi, Mengli Cao, Shengli Zhang
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2020.00048

Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing
Cited by: 17
Author(s): Hongbo Hu, Wenbo Yang, Zeyu Zheng, Zhimin Niu, Yongzhi Yang, Dongshi Wan, Jianquan Liu, Tao Ma
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2020.00709

Gonadal Transcriptome Analysis of Sex-Related Genes in the Protandrous Yellowfin Seabream (Acanthopagrus latus)
Cited by: 13
Author(s): Shi-Zhu Li, Genmei Lin, Wenyu Fang, Peilin Huang, Guang‐Hui Dong, Jing Huang, Jingui Xie, Jianguo Lü
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2020.00700

Characterizing Extracellular Vesicles and Their Diverse RNA Contents
Cited by: 125
Author(s): Eren M. Veziroglu, George I. Mias
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.677935

Neurogenesis Potential Evaluation and Transcriptome Analysis of Fetal Hypothalamic Neural Stem/Progenitor Cells With Prenatal High Estradiol Exposure
Cited by: 2
Author(s): Huihui Wang, Chuanpeng Zhou, Min Huang, He‐Feng Huang, Yun Sun
Software Mentions: 1
Published: about 4 years ago

10.3389/fgene.2021.644292

Deinococcus radiodurans UWO298 Dependence on Background Radiation for Optimal Growth
Cited by: 7
Author(s): Hugo Castillo, Xiaoping Li, Geoffrey B. Smith
Software Mentions: 1
Published: about 4 years ago

10.3389/fgene.2021.643497

The Expression Profiles of mRNAs and lncRNAs in Buffalo Muscle Stem Cells Driving Myogenic Differentiation
Cited by: 4
Author(s): Ruimen Zhang, Jinling Wang, Zhengzhong Xiao, Chao-Xia Zou, Qiang An, Hui Li, Xiaoqing Zhou, Zhuyue Wu, Deshun Shi, Yanfei Deng, Sufang Yang, Yanfei Wei
Software Mentions: 1
Published: about 4 years ago

10.3389/fgene.2020.594933

NETO2 Is Deregulated in Breast, Prostate, and Colorectal Cancer and Participates in Cellular Signaling
Cited by: 6
Author(s): Maria S. Fedorova, Anastasiya V. Snezhkina, Anastasiya V. Lipatova, Vladislav Pavlov, Anastasiya A. Kobelyatskaya, Zulfiya G. Guvatova, Elena A. Pudova, М. В. Савватеева, Irina A. Ishina, Т. Б. Демидова, Н. Н. Волченко, Trofimov D.Yu. Trofimov, Г. Т. Сухих, George S. Krasnov, Anna V. Kudryavtseva
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2020.00449

A Panel of Plasma Exosomal miRNAs as Potential Biomarkers for Differential Diagnosis of Thyroid Nodules
Cited by: 33
Author(s): Meihua Liang, Su Jeong Yu, Shuli Tang, Lu Bai, Jianan Cheng, Yuanlong Gu, Shuang Li, Xin Zheng, Lian Duan, Liang Wang, Yanqiao Zhang, Xiaoyi Huang
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.617059

Algorithmic Annotation of Functional Roles for Components of 3,044 Human Molecular Pathways
Cited by: 29
Author(s): Maxim Sorokin, Nicolas Borisov, Denis Kuzmin, Alexander Gudkov, Marianna Zolotovskaia, Andrew Garazha, Anton Buzdin
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2021.594285

New Structural and Single Nucleotide Mutations in Type I and Type II Collagens in Taiwanese Children With Type I and Type II Collagenopathies
Cited by: 0
Author(s): Meng‐Che Tsai, Yen-Yin Chou, Chia-Yi Li, Yi-Chieh Wang, Huang Yu, Chia‐Hsiang Chen, Peng Chen
Software Mentions: 1
Published: almost 4 years ago

Projects: bioconductor: DESeq2

Enhanced Analysis

Science Score: 100/100

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Papers Mentioning DESeq2 9,583