pypi: TopHat | Projects | Ecosyste.ms: Papers

10.3389/fnagi.2017.00244

Studies on Colony Stimulating Factor Receptor-1 and Ligands Colony Stimulating Factor-1 and Interleukin-34 in Alzheimer's Disease Brains and Human Microglia
Cited by: 56
Author(s): Douglas G. Walker, Tiffany M. Tang, Lih‐Fen Lue
Software Mentions: 1
Published: about 9 years ago

10.3389/fbioe.2020.00844

Effect of a Novel Alpha/Beta Hydrolase Domain Protein on Tolerance of K. marxianus to Lignocellulosic Biomass Derived Inhibitors
Cited by: 6
Author(s): Dan Wu, Dongmei Wang, Jiong Hong
Software Mentions: 1
Published: about 6 years ago

10.1038/srep34957

AML1/ETO accelerates cell migration and impairs cell-to-cell adhesion and homing of hematopoietic stem/progenitor cells
Cited by: 13
Author(s): Marco Saia, Alberto Termanini, Nicoletta Rizzi, M. Mazza, Elisa Barbieri, Debora Valli, Paolo Ciana, Alicja M. Gruszka-Westwood, Myriam Alcalay
Software Mentions: 1
Published: almost 10 years ago

10.3389/fbioe.2020.619583

Bringing MicroRNAs to Light: Methods for MicroRNA Quantification and Visualization in Live Cells
Cited by: 32
Author(s): Tarana Siddika, Ilka U. Heinemann
Software Mentions: 1
Published: over 5 years ago

10.3389/fbioe.2020.619055

Environmental Regulation of PndbA600, an Auto-Inducible Promoter for Two-Stage Industrial Biotechnology in Cyanobacteria
Cited by: 5
Author(s): Mary Ann Madsen, Graham Hamilton, Paweł Herzyk, Anna Amtmann
Software Mentions: 1
Published: over 5 years ago

10.1038/srep34542

p21Cip1 plays a critical role in the physiological adaptation to fasting through activation of PPARα
Cited by: 12
Author(s): Elena Lopez-Guadamillas, Pablo J. Fernández-Marcos, Cristina Pantoja, Maribel Muñoz‐Martín, Dolores Fernández Martínez, Gonzalo Goméz-López, Ramón Campos-Olivas, Ángela M. Valverde, Manuel Serrano
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12864-015-2083-2

Tissue-specific transcriptomics and proteomics of a filarial nematode and its Wolbachia endosymbiont
Cited by: 27
Author(s): Ashley N. Luck, Kathryn G. Anderson, Colleen McClung, Nathan C. VerBerkmoes, Jeremy M. Foster, Michelle L. Michalski, Barton E. Slatko
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-015-1353-3

GASS: genome structural annotation for Eukaryotes based on species similarity
Cited by: 7
Author(s): Ying Wang, Lina Chen, Nianfeng Song, Xiaoye Lei
Software Mentions: 1
Published: over 11 years ago

10.7554/eLife.28297

Resolving the prevalence of somatic transposition in Drosophila
Cited by: 54
Author(s): Christoph Daniel Treiber, Scott Waddell
Software Mentions: 1
Published: about 9 years ago

10.3389/fcell.2021.640972

The Frequent Sampling of Wound Scratch Assay Reveals the “Opportunity” Window for Quantitative Evaluation of Cell Motility-Impeding Drugs
Cited by: 20
Author(s): Sholpan Kauanova, Arshat Urazbayev, Ivan A. Vorobjev
Software Mentions: 1
Published: over 5 years ago

10.3390/ani10081279

Transcriptome Profiling Associated with Carcass Quality of Loin Muscles in Crossbred Pigs
Cited by: 4
Author(s): Sangmo Kim, Kesavan Markkandan, Jong‐Young Lee, Gye-Woong Kim, Jae Young Yoo
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-021-91154-x

Transcriptomic landscape of early age onset of colorectal cancer identifies novel genes and pathways in Indian CRC patients
Cited by: 16
Author(s): Manish Pratap Singh, Suresh Rai, Nand Kumar Singh, Sameer Srivastava
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.633259

SYVN1-MTR4-MAT2A Signaling Axis Regulates Methionine Metabolism in Glioma Cells
Cited by: 6
Author(s): Lude Wang, Bin Hu, Kailing Pan, Jie Chang, Xingyu Zhao, Lin Chen, Hanyang Lin, Jing Wang, Gezhi Zhou, Wenxia Xu, Jianlie Yuan
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-06964-6

De novo sequencing, assembly and functional annotation of Armillaria borealis genome
Cited by: 7
Author(s): Vasilina S. Akulova, Vadim V. Sharov, Anastasiya I. Aksyonova, Yuliya A. Putintseva, Н. В. Орешкова, Sergey Feranchuk, Dmitry A. Kuzmin, Igor N. Pavlov, Yulia A. Litovka, Konstantin V. Krutovsky
Software Mentions: 1
Published: about 6 years ago

10.1038/srep35305

A proteogenomic approach for protein-level evidence of genomic variants in cancer cells
Cited by: 12
Author(s): Jeonghun Yeom, Mohammad Humayun Kabir, Byungho Lim, Hee‐Sung Ahn, Seon‐Young Kim, Cheolju Lee
Software Mentions: 1
Published: almost 10 years ago

10.3389/fcell.2019.00329

Eosinophil Activation by Toll-Like Receptor 4 Ligands Regulates Macrophage Polarization
Cited by: 20
Author(s): Ji-Young Yoon, Han-Na Um, Jae‐Dong Jang, Young-An Bae, Woo‐Jae Park, Hee Joo Kim, Mee-Sup Yoon, Il Yup Chung, YunJae Jung
Software Mentions: 1
Published: almost 7 years ago

10.3389/fcell.2021.639111

Serine Metabolism Regulates YAP Activity Through USP7 in Colon Cancer
Cited by: 17
Author(s): Xingyu Zhao, Jianfei Fu, Bin Hu, Lin Chen, Jing Wang, Jinyong Fang, Chenyang Ge, Hanyang Lin, Kailing Pan, Liang Fu, Lude Wang, Jinlin Du, Wenxia Xu
Software Mentions: 1
Published: over 5 years ago

10.1038/srep35550

Neonatal cardiac dysfunction and transcriptome changes caused by the absence of Celf1
Cited by: 18
Author(s): Jimena Giudice, Zheng Xia, Wei Li, Thomas A. Cooper
Software Mentions: 1
Published: almost 10 years ago

10.7717/peerj.4840

Divergent and convergent evolution of housekeeping genes in human–pig lineage
Cited by: 13
Author(s): Kai Wei, Tingting Zhang, Lei Ma
Software Mentions: 1
Published: over 8 years ago

10.1186/s40659-018-0155-x

Transcriptome analysis of phosphorus stress responsiveness in the seedlings of Dongxiang wild rice (Oryza rufipogon Griff.)
Cited by: 40
Author(s): Qianwen Deng, Xiangdong Luo, Yaling Chen, Yi Zhou, Fantao Zhang, Biaolin Hu, Jingzhong Xie
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-017-3688-4

sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII
Cited by: 1
Author(s): Patrícia Aline Gröhs Ferrareze, Rodrigo Silva Araujo Streit, Francine Melise dos Santos, Augusto Schrank, Lívia Kmetzsch, Marilene Henning Vainstein, Charley Christian Staats
Software Mentions: 1
Published: over 9 years ago

10.3389/fcell.2020.00529

USP15 Enhances Re-epithelialization Through Deubiquitinating EIF4A1 During Cutaneous Wound Repair
Cited by: 12
Author(s): Yixuan Zhao, Xin Huang, Zewei Zhang, Yifan Zhang, Guoyou Zhang, Tao Zan, Qingfeng Li
Software Mentions: 1
Published: over 6 years ago

10.3389/fcell.2021.652032

circDENND1B Participates in the Antiatherosclerotic Effect of IL-1β Monoclonal Antibody in Mouse by Promoting Cholesterol Efflux via miR-17-5p/Abca1 Axis
Cited by: 17
Author(s): Fei Xu, Li Shen, Caixia Han, Rui Wang, Tongtong Zang, Juying Qian
Software Mentions: 1
Published: over 5 years ago

10.3390/v12060675

Arbuscular Mycorrhizal Symbiosis Primes Tolerance to Cucumber Mosaic Virus in Tomato
Cited by: 21
Author(s): Laura Miozzi, A. M. Vaira, Federico Brilli, Valerio Casarin, Mara Berti, Alessandra Ferrandino, Luca Nerva, Gian Paolo Accotto, Luisa Lanfranco
Software Mentions: 1
Published: over 6 years ago

10.3389/fcell.2018.00005

Central and Peripheral Nervous System Progenitors Derived from Human Pluripotent Stem Cells Reveal a Unique Temporal and Cell-Type Specific Expression of PMCAs
Cited by: 2
Author(s): Muwan Chen, Sofie H Laursen, Mette Habekost, Camilla Højland Knudsen, Susanne Hvolbøl Buchholdt, Jinrong Huang, Fengping Xu, Xin Liu, Lars Bolund, Yonglun Luo, Poul Nissen, Fabia Febbraro, Mark Denham
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-020-71968-x

Identification of effector candidate genes of Rhizoctonia solani AG-1 IA expressed during infection in Brachypodium distachyon
Cited by: 4
Author(s): Sobhy S. H. Abdelsalam, Yusuke Kouzai, Megumi Watanabe, Komaki Inoue, Hidenori Matsui, Mikihiro Yamamoto, Yuki Ichinose, Kazuhiro Toyoda, Seiji Tsuge, Keiichi Mochida, Yoshiteru Noutoshi
Software Mentions: 1
Published: about 6 years ago

10.1038/srep36966

The molecular bases of floral scent evolution under artificial selection: insights from a transcriptome analysis in Brassica rapa
Cited by: 15
Author(s): Jing Cai, Pengjuan Zu, Florian P. Schiestl
Software Mentions: 1
Published: almost 10 years ago

10.3389/fcell.2020.00105

Loss of CDYL Results in Suppression of CTNNB1 and Decreased Endometrial Receptivity
Cited by: 16
Author(s): Xiaowei Zhou, Bufang Xu, Dan Zhang, Xiaoping Jiang, Hsun‐Ming Chang, Xiaoyu Xia, Aijun Zhang
Software Mentions: 1
Published: over 6 years ago

10.5713/ajas.20.0429

Profiling of skeletal muscle tissue for long non-coding RNAs related to muscle metabolism in the QingYu pig at the growth inflection point
Cited by: 3
Author(s): Jia Luo, Linyuan Shen, Mailin Gan, Anan Jiang, Lei Chen, Jideng Ma, Long Jin, Yihui Liu, Guoqing Tang, Yanzhi Jiang, Mingzhou Li, Xuewei Li, Shunhua Zhang, Li Zhu
Software Mentions: 1
Published: about 5 years ago

10.7554/eLife.22626

Toddler signaling regulates mesodermal cell migration downstream of Nodal signaling
Cited by: 23
Author(s): Megan L Norris, Andrea Pauli, James A. Gagnon, Nathan D. Lord, Katherine W. Rogers, Christian Mosimann, Leonard I. Zon, Alexander F. Schier
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12864-015-1812-x

Gene expression during zombie ant biting behavior reflects the complexity underlying fungal parasitic behavioral manipulation
Cited by: 106
Author(s): Charissa de Bekker, Robin A. Ohm, Raquel G. Loreto, Aswathy Sebastian, István Albert, Martha Merrow, Andreas Brachmann, David Hughes
Software Mentions: 1
Published: about 11 years ago

10.1038/srep36916

Sex-Specific Effects of Testosterone on the Sexually Dimorphic Transcriptome and Epigenome of Embryonic Neural Stem/Progenitor Cells
Cited by: 39
Author(s): Éric Vilain, Lara Roach, Allen Lipson, Neerja Vashist, Ascia Eskin, Tuck C Ngun, Jason E. Gosschalk, Stephen P. Klein, Hayk Barseghyan, Valerie A. Arboleda, Éric Vilain
Software Mentions: 1
Published: almost 10 years ago

10.3389/fcell.2018.00089

ENaC in Cholinergic Brush Cells
Cited by: 6
Author(s): Chrissy Kandel, P Schmidt, Alexander Perniss, Maryam Keshavarz, Paul Scholz, Sabrina Osterloh, Mike Althaus, Wolfgang Kummer, Klaus Deckmann
Software Mentions: 1
Published: about 8 years ago

10.3390/biology7020023

Pseudotime Dynamics in Melanoma Single-Cell Transcriptomes Reveals Different Mechanisms of Tumor Progression
Cited by: 15
Author(s): Henry Loeffler‐Wirth, Hans Binder, Edith Willscher, Tobias Gerber, Manfred Kunz
Software Mentions: 1
Published: over 8 years ago

10.1007/s10456-020-09748-4

BMP6/TAZ-Hippo signaling modulates angiogenesis and endothelial cell response to VEGF
Cited by: 76
Author(s): H. H. Pulkkinen, Miika Kiema, Jari P. Lappalainen, Anu Toropainen, Mustafa Beter, Annakaisa Tirronen, Lari Holappa, Henri Niskanen, Minna U. Kaikkonen, Seppo Ylä‐Herttuala, Johanna P. Laakkonen
Software Mentions: 1
Published: almost 6 years ago

10.1007/s00216-014-8293-7

MALDI imaging mass spectrometry of N-linked glycans on formalin-fixed paraffin-embedded murine kidney
Cited by: 73
Author(s): Ove J. R. Gustafsson, Matthew T. Briggs, Mark R. Condina, Lyron Winderbaum, Matthias Pelzing, Shaun R. McColl, Arun Everest‐Dass, Nicolle H. Packer, Peter Hoffmann
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-15-S7-S1

RNA-sequencing analysis of Trichophyton rubrumtranscriptome in response to sublethal doses of acriflavine
Cited by: 32
Author(s): Gabriela Félix Persinoti, Nalu T. A. Peres, Tiago Rinaldi Jacob, Antônio Rossi, Ricardo Zorzetto Nicoliello Vêncio, Nilce M. Martinez-Rossi
Software Mentions: 1
Published: about 12 years ago

10.3389/fcimb.2018.00299

Antibiofilm and Antivirulence Activities of 6-Gingerol and 6-Shogaol Against Candida albicans Due to Hyphal Inhibition
Cited by: 58
Author(s): Jin-Hyung Lee, Yong‐Guy Kim, Pilsoon Choi, Jungyeob Ham, Jae Gyu Park
Software Mentions: 1
Published: about 8 years ago

10.3389/fcimb.2018.00014

Alternative Splicing of Differentiated Myeloid Cell Transcripts after Infection by Anaplasma phagocytophilum Impacts a Selective Group of Cellular Programs
Cited by: 9
Author(s): J. Stephen Dumler, Sara H. Sinclair, Amol C. Shetty
Software Mentions: 1
Published: over 8 years ago

10.3389/fcimb.2017.00494

Transcriptional Immunoprofiling at the Tick-Virus-Host Interface during Early Stages of Tick-Borne Encephalitis Virus Transmission
Cited by: 17
Author(s): Saravanan Thangamani, Meghan E. Hermance, Rodrigo I. Santos, Mirko Slovák, Dar Heinze, Steven G. Widen, Mária Kazimírová
Software Mentions: 1
Published: almost 9 years ago

10.3390/biology10060559

Transcriptomic Responses Induced in Muscle and Adipose Tissues of Growing Pigs by Intravenous Infusion of Sodium Butyrate
Cited by: 4
Author(s): He Zhang, Erdu Ren, Rongying Xu, Yong Su
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-021-07589-z

Eudiplozoon nipponicum (Monogenea, Diplozoidae) and its adaptation to haematophagy as revealed by transcriptome and secretome profiling
Cited by: 11
Author(s): Jiří Vorel, Krystyna Cwiklinski, Pavel Roudnický, Jana Ilgová, Lucie Jedličková, John P. Dalton, Libor Mikeš, Milan Gelnar, Martin Kašný
Software Mentions: 1
Published: over 5 years ago

10.3389/fcimb.2017.00377

Splenic microRNA Expression Profiles and Integration Analyses Involved in Host Responses to Salmonella enteritidis Infection in Chickens
Cited by: 18
Author(s): Peng Li, Wenlei Fan, Qinghe Li, Jie Wang, Ranran Liu, Nadia Everaert, Jie Liu, Yonghong Zhang, Maiqing Zheng, Huanxian Cui, Guiping Zhao, Jie Wen
Software Mentions: 1
Published: about 9 years ago

10.1038/srep36993

mRNA changes in nucleus accumbens related to methamphetamine addiction in mice
Cited by: 39
Author(s): Li Zhu, Jiaqi Li, Nan Dong, Fanglin Guan, Yufeng Liu, Dongliang Ma, Eyleen L. K. Goh, Chih‐Ching Teng
Software Mentions: 1
Published: almost 10 years ago

10.3389/fcimb.2019.00164

Glutathione Activates Type III Secretion System Through Vfr in Pseudomonas aeruginosa
Cited by: 23
Author(s): Yani Zhang, Chao Zhang, Xiaomin Du, Yun Zhou, Weina Kong, Gee W. Lau, Gukui Chen, Gurjeet S. Kohli, Liang Yang, Tietao Wang, Haihua Liang
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.00924

A network of heterochronic genes including Imp1 regulates temporal changes in stem cell properties
Cited by: 105
Author(s): Jinsuke Nishino, Sun Jung Kim, Yuan Zhu, Hao Zhu, Sean J. Morrison
Software Mentions: 1
Published: almost 13 years ago

10.3389/fcimb.2019.00192

Indoleamine 2,3-Dioxygenase Activity in Chlamydia muridarum and Chlamydia pneumoniae Infected Mouse Lung Tissues
Cited by: 14
Author(s): Dezső Virók, Tímea Raffai, Dávid Kókai, Dóra Paróczai, Anita Bogdanov, Gábor Veres, László Vécsei, Szilárd Póliska, László Tiszlavicz, Ferenc Somogyvári, Valéria Endrész, Katalin Burián
Software Mentions: 1
Published: over 7 years ago

10.3389/fcimb.2017.00499

Growth of Chlamydia pneumoniae Is Enhanced in Cells with Impaired Mitochondrial Function
Cited by: 18
Author(s): Nadja Käding, Inga Kaufhold, Constanze Müller, Márta Szaszák, Kensuke Shima, Thomas Weinmaier, Rodrigo Lomas, Ana Conesa, Philippe Schmitt‐Kopplin, Thomas Rattei, Jan Rupp
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12864-017-4022-x

The discrepancy among single nucleotide variants detected by DNA and RNA high throughput sequencing data
Cited by: 28
Author(s): Yan Guo, Shilin Zhao, Quanhu Sheng, David C. Samuels, Yu Shyr
Software Mentions: 1
Published: about 9 years ago

10.3390/v12090951

Transcriptome Analysis of Rice Reveals the lncRNA–mRNA Regulatory Network in Response to Rice Black-Streaked Dwarf Virus Infection
Cited by: 24
Author(s): Tianze Zhang, Qian Liang, Chenyang Li, Shuai Fu, Jiban Kumar Kundu, Xueping Zhou, Ji Wu
Software Mentions: 1
Published: about 6 years ago

10.1038/srep38063

The mammalian LINC complex regulates genome transcriptional responses to substrate rigidity
Cited by: 114
Author(s): Samer G. Alam, Qiao Zhang, Nripesh Prasad, Yuan Li, Srikar Chamala, Ram Anirudh Kuchibhotla, Birendra Kc, Varun Aggarwal, Shristi Shrestha, Angela L. Jones, Shawn Levy, Kyle J. Roux, Jeffrey A. Nickerson, Tanmay P. Lele
Software Mentions: 1
Published: almost 10 years ago

10.1038/s41598-020-71701-8

Humic acid enhances heat stress tolerance via transcriptional activation of Heat-Shock Proteins in Arabidopsis
Cited by: 28
Author(s): Joon‐Yung Cha, Sang-Ho Kang, Imdad Ali, Sang Cheol Lee, Myung Geun Ji, Song Yi Jeong, Gyeong-Im Shin, Min Gab Kim, Jong-Rok Jeon, Woe‐Yeon Kim
Software Mentions: 1
Published: about 6 years ago

10.3390/biology10040343

Identification of Differential N-Glycan Compositions in the Serum and Tissue of Colon Cancer Patients by Mass Spectrometry
Cited by: 10
Author(s): Marcelo de Melo Andrade Coura, Éder Alves Barbosa, Guilherme D. Brand, Carlos Bloch, João Batista de Sousa
Software Mentions: 1
Published: over 5 years ago

10.1186/s40364-018-0151-x

Reduced nuclear DNA methylation and mitochondrial transcript changes in adenomas do not associate with mtDNA methylation
Cited by: 14
Author(s): Margaret J. Morris, Luke B. Hesson, Rebecca C. Poulos, Robyn L. Ward, Jason Wong, Neil A. Youngson
Software Mentions: 1
Published: almost 8 years ago

10.3389/fncel.2015.00438

REST-Governed Gene Expression Profiling in a Neuronal Cell Model Reveals Novel Direct and Indirect Processes of Repression and Up-Regulation
Cited by: 9
Author(s): José Manuel García-Manteiga, Silvia Bonfiglio, Lucrezia Folladori, Maria Luisa Malosio, Dejan Lazarevic, Elia Stupka, Davide Cittaro, Jacopo Meldolesi
Software Mentions: 1
Published: almost 11 years ago

10.3389/fendo.2018.00308

Pituitary Action of E2 in Prepubertal Grass Carp: Receptor Specificity and Signal Transduction for Luteinizing Hormone and Follicle-Stimulating Hormone Regulation
Cited by: 10
Author(s): Xiangfeng Qin, Yaqian Xiao, Ya Cheng, Jingyi Jia, Xiangjiang Liu, Hongwei Liang, Guiwei Zou, Guangfu Hu
Software Mentions: 1
Published: over 8 years ago

10.3389/fendo.2020.614692

Dietary Oxysterol, 7-Ketocholesterol Accelerates Hepatic Lipid Accumulation and Macrophage Infiltration in Obese Mice
Cited by: 7
Author(s): Jiuyang Chang, Masahiro Koseki, Ayami Saga, Kotaro Kanno, Tomoaki Higo, Daisuke Okuzaki, Takeshi Okada, Haruyuki Inui, Katsunao Tanaka, Masumi Asaji, Yinghong Zhu, Takumi Kawaguchi, Masafumi Ono, Toshiji Saibara, Ikuyo Ichi, Tohru Ohama, Makoto Nishida, Shizuya Yamashita, Yasushi Sakata
Software Mentions: 1
Published: over 5 years ago

10.3389/fendo.2020.00111

Liver Transcriptomic Reveals Novel Pathways of Empagliflozin Associated With Type 2 Diabetic Rats
Cited by: 9
Author(s): Qiuyue Lv, Liang Le, Jiamei Xiang, Baoping Jiang, Sibao Chen, Pei‐Gen Xiao
Software Mentions: 1
Published: over 6 years ago

10.3389/fendo.2020.565858

Hepatic Transcriptome Analysis Revealing the Molecular Pathogenesis of Type 2 Diabetes Mellitus in Zucker Diabetic Fatty Rats
Cited by: 4
Author(s): Chengdong Xia, Xiuli Zhang, Tian-Shu Cao, Jiannong Wang, Cuidan Li, Liya Yue, Kaifeng Niu, Yicheng Shen, Ge Ma, Fei Chen
Software Mentions: 1
Published: almost 6 years ago

10.3390/v13010092

Analysis of the Immune Responses in the Ileum of Gnotobiotic Pigs Infected with the Recombinant GII.p12_GII.3 Human Norovirus by mRNA Sequencing
Cited by: 0
Author(s): Byung Joo Park, Hee-Seop Ahn, Sang-Hoon Han, Hyeon‐Jeong Go, Dong-Hwi Kim, Changsun Choi, Soontag Jung, Jinjong Myoung, Joong‐Bok Lee, Seung‐Yong Park, Chang‐Seon Song, Sang‐Won Lee, Hoon-Taek Lee, In‐Soo Choi
Software Mentions: 1
Published: over 5 years ago

10.1038/srep39178

Identifying ultrasensitive HGF dose-response functions in a 3D mammalian system for synthetic morphogenesis
Cited by: 6
Author(s): Vivek Raj Senthivel, Marc Sturrock, Gabriel Piedrafita, Mark Isalan
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep39493

Gene expression differences in Longissimus muscle of Nelore steers genetically divergent for residual feed intake
Cited by: 52
Author(s): P. C. Tizioto, Luiz Lehmann Coutinho, P. S. N. Oliveira, Wellison J. S. Diniz, A. O. de Lima, M. I. P. Rocha, Jared E. Decker, Robert D. Schnabel, Gérson Barreto Mourão, R. R. Túllio, Adhemar Zerlotini, Jeremy F. Taylor, Luciana Correia de Almeida Regitano
Software Mentions: 1
Published: almost 10 years ago

10.1007/s00216-019-02080-x

Identification performance of MALDI-ToF-MS upon mono- and bi-microbial cultures is cell number and culture proportion dependent
Cited by: 20
Author(s): Christoph Mörtelmaier, Suchita Panda, Ian Robertson, Mareike Krell, Marilena Christodoulou, Nicole Reichardt, Imke Mulder
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-021-07780-2

Identification and characterization of immune-related lncRNAs and lncRNA-miRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection
Cited by: 13
Author(s): Xianhui Ning, Li Sun
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2018.00256

Messenger RNA Sequencing and Pathway Analysis Provide Novel Insights Into the Susceptibility to Salmonella enteritidis Infection in Chickens
Cited by: 16
Author(s): Peng Li, Wenlei Fan, Nadia Everaert, Ranran Liu, Qinghe Li, Maiqing Zheng, Huanxian Cui, Guiping Zhao, Jie Wen
Software Mentions: 1
Published: about 8 years ago

10.7717/peerj.7944

Characterization of aminopeptidase encoding gene anp-1 and its association with development in Caenorhabditis elegans
Cited by: 1
Author(s): Shanchun Su, Baoliang Pan, Yanxin Hu, Ming Wang
Software Mentions: 1
Published: almost 7 years ago

10.1038/srep39516

Global Prioritizing Disease Candidate lncRNAs via a Multi-level Composite Network
Cited by: 39
Author(s): Qianlan Yao, Leilei Wu, Jia Li, Li Yang, Yidi Sun, Zhen Li, Sheng He, Fangyoumin Feng, Hong Li, Yixue Li
Software Mentions: 1
Published: over 9 years ago

10.1002/pld3.136

Many rice genes are differentially spliced between roots and shoots but cytokinin has minimal effect on splicing
Cited by: 3
Author(s): Nowlan H. Freese, April R. Estrada, Ivory C. Blakley, Jinjie Duan, Ann E. Loraine
Software Mentions: 1
Published: over 7 years ago

10.1186/1748-7188-6-9

Estimation of alternative splicing isoform frequencies from RNA-Seq data
Cited by: 172
Author(s): Marius Nicolae, Serghei Mangul, Ion Măndoiu, Alexander Zelikovsky
Software Mentions: 1
Published: over 15 years ago

10.1186/s40851-016-0050-7

Flexible selection of diversified Na+/K+-ATPase α-subunit isoforms for osmoregulation in teleosts
Cited by: 20
Author(s): Marty Kwok‐Shing Wong, Supriya Pipil, Haruka Ozaki, Yutaka Suzuki, Wataru Iwasaki, Yoshio Takei
Software Mentions: 1
Published: about 10 years ago

10.3389/fgene.2020.00244

Genome-Wide Characterization of Alternative Splicing Events and Their Responses to Cold Stress in Tilapia
Cited by: 23
Author(s): Bi Jun Li, Zong Xian Zhu, Qin Hui, Zhijun Meng, Haoran Lin, Jun Xia
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00522

Transcriptome Profiling Insights the Feature of Sex Reversal Induced by High Temperature in Tongue Sole Cynoglossus semilaevis
Cited by: 24
Author(s): Jinxiang Liu, Xiaobing Liu, Chaofan Jin, Xinxin Du, Yan He, Quanqi Zhang
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.56273

SynGAP isoforms differentially regulate synaptic plasticity and dendritic development
Cited by: 50
Author(s): Yasuhisa Araki, Ingie Hong, Timothy R Gamache, Shaowen Ju, Leonardo Collado‐Torres, Joo Heon Shin, Richard L. Huganir
Software Mentions: 1
Published: over 6 years ago

10.1186/s40851-017-0079-2

Rhodopsin gene copies in Japanese eel originated in a teleost-specific genome duplication
Cited by: 14
Author(s): Yoji Nakamura, Motoshige Yasuike, Miyuki Mekuchi, Yoshiaki Iwasaki, Nobuhiko Ojima, Atushi Fujiwara, Seinen Chow, Kenji Saitoh
Software Mentions: 1
Published: almost 9 years ago

10.1038/srep40819

Transcript profile analysis reveals important roles of jasmonic acid signalling pathway in the response of sweet potato to salt stress
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Author(s): Huan Zhang, Qian Zhang, Hong Zhai, Yán Li, Xiangfeng Wang, Qingchang Liu, Shaozhen He
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-018-4897-1

Transcriptomic analyses of rice (Oryza sativa) genes and non-coding RNAs under nitrogen starvation using multiple omics technologies
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Author(s): Sang-Goo Shin, Jena Jeong, Jae Yun Lim, Tae-Wook Kim, June Hyun Park, Ju-Kon Kim, Chanseok Shin
Software Mentions: 1
Published: about 8 years ago

10.1186/s12859-016-1384-z

The role of nucleotide composition in premature termination codon recognition
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Author(s): Fouad Zahdeh, Liran Carmel
Software Mentions: 1
Published: almost 10 years ago

10.7554/eLife.46426

Antagonistic interaction between Ezh2 and Arid1a coordinates root patterning and development via Cdkn2a in mouse molars
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Author(s): Junjun Jing, Jifan Feng, Jingyuan Li, Xia Han, Jinzhi He, Thach-Vu Ho, Jiahui Du, Xuedong Zhou, Mark M. Urata, Yang Chai
Software Mentions: 1
Published: over 7 years ago

10.1155/2017/1857580

Integrating miRNA and mRNA Expression Profiling Uncovers miRNAs Underlying Fat Deposition in Sheep
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Author(s): Guangxian Zhou, Xiaolong Wang, Chao Yuan, Dan-Ju Kang, Xin Xu, Jack G. Zhou, Rong Geng, Yuxin Yang, Zhaoxia Yang, Yulin Chen
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-15-182

Transcriptomic analysis of differentially expressed genes in the Ras1CA-overexpressed and wildtype posterior silk glands
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Author(s): Li Ma, Qian Ma, Xuan Li, Leilei Cheng, Kai Li, Sheng Li
Software Mentions: 1
Published: over 12 years ago

10.18632/oncotarget.14973

LncSubpathway: a novel approach for identifying dysfunctional subpathways associated with risk lncRNAs by integrating lncRNA and mRNA expression profiles and pathway topologies
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Author(s): Yanjun Xu, Feng Li, Tan Wu, Yingqi Xu, Haixiu Yang, Qun Dong, Meiyu Zheng, Desi Shang, Chunlong Zhang, Yunpeng Zhang, Xia Li
Software Mentions: 1
Published: over 9 years ago

10.1038/srep41008

The systematic analysis of coding and long non-coding RNAs in the sub-chronic and chronic stages of spinal cord injury
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Author(s): Raquel Cuevas-Diaz Duran, Han Yan, Yiyan Zheng, Xingfan Huang, Raymond J. Grill, Dong H. Kim, Qilin Cao, Jia Qian Wu
Software Mentions: 1
Published: over 9 years ago

10.7554/eLife.29677

RNG105/caprin1, an RNA granule protein for dendritic mRNA localization, is essential for long-term memory formation
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Author(s): Kei Ichi Nakayama, Rie Ohashi, Yo Shinoda, Maya Yamazaki, Manabu Abe, Akihiro Fujikawa, Shuji Shigenobu, Akira Futatsugi, Masaharu Noda, Katsuhiko Mikoshiba, Teiichi Furuichi, Kenji Sakimura, Nobuyuki Shiina
Software Mentions: 1
Published: almost 9 years ago

10.1038/srep41040

Comparative genomics and transcriptome analysis of Aspergillus niger and metabolic engineering for citrate production
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Author(s): Xian Yin, Hyun‐Dong Shin, Jianghua Li, Guocheng Du, Long Liu, Jian Chen
Software Mentions: 1
Published: over 9 years ago

10.1038/srep40780

Zika virus disrupts molecular fingerprinting of human neurospheres
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Author(s): Patrícia P. Garcez, Juliana Nascimento, Janaína Mota de Vasconcelos, Rodrigo Madeiro da Costa, Rodrigo Delvecchio, Pablo Trindade, Erick Correia Loiola, Luiza M. Higa, Juliana S. Cassoli, Gabriela Vitória, Patrícia Carvalho de Sequeira, Jaroslaw Sochacki, Renato Santana Aguiar, Hellen Thaís Fuzii, Ana María Bispo de Filippis, João Lídio da Silva Gonçalves Vianez Júnior, Amílcar Tanuri, Daniel Martins-de-Souza, Stevens K. Rehen
Software Mentions: 1
Published: over 9 years ago

10.1155/2021/5387856

Integrated Analysis of Long Noncoding RNA Expression Profiles in Acute-on-Chronic Liver Failure
Cited by: 2
Author(s): Xiaoyu Fu, Da Cheng, Yi Ouyang, Ying Li, Ronghua Li, Shifang Peng, Ling Fu
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-16-S12-S3

Detection of differentially methylated regions from bisulfite-seq data by hidden Markov models incorporating genome-wide methylation level distributions
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Author(s): Yutaka Saitô, Toutai Mituyama
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep41517

RNA sequencing of synaptic and cytoplasmic Upf1-bound transcripts supports contribution of nonsense-mediated decay to epileptogenesis
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Author(s): Claire Mooney, Eva M. Jiménez-Mateos, Tobías Engel, Catherine Mooney, Mairéad Diviney, Morten T. Venø, Jørgen Kjems, Michael Farrell, Donncha F. O’Brien, Norman Delanty, David C. Henshall
Software Mentions: 1
Published: over 9 years ago

10.1038/srep41561

Joint genome-wide association and transcriptome sequencing reveals a complex polygenic network underlying hypocotyl elongation in rapeseed (Brassica napus L.)
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Author(s): Xiang Luo, Zhenyi Xue, Chaozhi Ma, Kaining Hu, Ziru Zeng, Shengwei Dou, Jinxing Tu, Jinxiong Shen, Tingdong Fu
Software Mentions: 1
Published: over 9 years ago

10.1155/2020/1360843

Altered Expression of Long Noncoding and Messenger RNAs in Diabetic Nephropathy following Treatment with Rosiglitazone
Cited by: 7
Author(s): Liwen Zhang, Ying Zhou, Fangfang Zhou, Xialian Yu, Jian Liu, Yunzi Liu, Yong Zhu, Weiming Wang, Nan Chen
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00068

Genomic and Transcriptomic Analysis of Amoebic Gill Disease Resistance in Atlantic Salmon (Salmo salar L.)
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Author(s): Solomon Antwi Boison, Bjarne Gjerde, Borghild Hillestad, Shokouh Makvandi‐Nejad, Hooman K. Moghadam
Software Mentions: 1
Published: over 7 years ago

10.1186/s40851-017-0081-8

A sodium binding system alleviates acute salt stress during seawater acclimation in eels
Cited by: 9
Author(s): Marty Kwok‐Shing Wong, Takehiro Tsukada, Norio Ogawa, Supriya Pipil, Haruka Ozaki, Yutaka Suzuki, Wataru Iwasaki, Yoshiyuki Takei
Software Mentions: 1
Published: almost 9 years ago

10.1186/1471-2164-14-739

Probing functional polymorphisms in the dengue vector, Aedes aegypti
Cited by: 12
Author(s): Mariangela Bonizzoni, Monica Britton, Osvaldo Marinotti, William A. Dunn, Joseph Fass, Anthony A. James
Software Mentions: 1
Published: almost 13 years ago

10.7554/eLife.52859

Phrenic-specific transcriptional programs shape respiratory motor output
Cited by: 10
Author(s): Alicia N Vagnozzi, Kiran Garg, Carola Dewitz, Matthew T. Moore, Jared M. Cregg, Lucie Jeannotte, Niccolò Zampieri, Lynn T. Landmesser, Polyxeni Philippidou
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00346

Identification of DNA-Methylated CpG Islands Associated With Gene Silencing in the Adult Body Tissues of the Ogye Chicken Using RNA-Seq and Reduced Representation Bisulfite Sequencing
Cited by: 30
Author(s): Won-Jun Lim, Kyoung Hyoun Kim, Jaeyoon Kim, Seongmun Jeong, Namshin Kim
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2018.00574

Co-expression Gene Network Analysis and Functional Module Identification in Bamboo Growth and Development
Cited by: 49
Author(s): Xuelian Ma, Hansheng Zhao, Wenying Xu, Qi You, Hengyu Yan, Zhimin Gao, Zhen Su
Software Mentions: 1
Published: almost 8 years ago

10.3389/fgene.2019.00100

Transcriptome Analysis Reveals Common and Differential Response to Low Temperature Exposure Between Tolerant and Sensitive Blue Tilapia (Oreochromis aureus)
Cited by: 27
Author(s): Tali Nitzan, Fotini Kokou, Adi Doron‐Faigenboim, Tatiana Slosman, Jakob Biran, Itzhak Mizrahi, Tatyana Zak, Ayana Benet, Avner Cnaani
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2020.00484

Genome-Wide Identification and Evolutionary Analysis of NBS-LRR Genes From Dioscorea rotundata
Cited by: 26
Author(s): Yanmei Zhang, Min Chen, Ling Sun, Yue Wang, Jianmei Yin, Jia Liu, Xiaoqin Sun, Yue‐Yu Hang
Software Mentions: 1
Published: over 6 years ago

10.1155/2015/839590

Predicting the Functions of Long Noncoding RNAs Using RNA-Seq Based on Bayesian Network
Cited by: 19
Author(s): Yun Xiao, Yanling Lv, Hongying Zhao, Yuanfeng Gong, Jing Hu, Feng Li, Jiu Hua Xu, Jing Bai, Fulong Yu, Xia Li
Software Mentions: 1
Published: almost 12 years ago

10.3389/fgene.2014.00041

Brain-expressed 3′UTR extensions strengthen miRNA cross-talk between ion channel/transporter encoding mRNAs
Cited by: 14
Author(s): Claudia C. Wehrspaun, Chris P. Ponting, Ana C. Marques
Software Mentions: 1
Published: almost 13 years ago

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