cran: STAR | Projects | Ecosyste.ms: Papers

10.1038/s41598-018-21104-7

Complete Transcriptome Profiling of Normal and Age-Related Macular Degeneration Eye Tissues Reveals Dysregulation of Anti-Sense Transcription
Cited by: 40
Author(s): Young Ho Kim, Gregory R. Grant, Anita S. Bowman, Naqi Haider, Harini V. Gudiseva, Venkata R M Chavali
Software Mentions: 1
Published: almost 7 years ago

10.6028/jres.101.035

CIF (Crystallographic Information File). A standard for crystallographic data interchange
Cited by: 10
Author(s): I. D. Brown
Software Mentions: 1
Published: over 28 years ago

10.1038/s41598-018-19855-4

Biologically active constituents of the secretome of human W8B2+ cardiac stem cells
Cited by: 15
Author(s): Shuai Nie, Xin Wang, Priyadharshini Sivakumaran, Mark M.W. Chong, Xin Liu, Tara Karnezis, Nadeeka Bandara, Kaloyan Takov, Cameron J. Nowell, Stephen Wilcox, Mitch Shambrook, Andrew Hill, Nicole C. Harris, Andrew Newcomb, Pádraig Strappe, Ramin Shayan, Damián Hernández, J. E. M. Clarke, Eric Hanssen, Sean M. Davidson, Gregory J. Dusting, Alice Pébay, Joshua W. K. Ho, Nicholas A. Williamson, Shiang Y. Lim
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-018-19581-x

The microRNA regulatory landscape of MSC-derived exosomes: a systems view
Cited by: 248
Author(s): Scott Ferguson, Jinli Wang, Christine J Lee, Maixian Liu, Sriram Neelamegham, John M. Canty, Juliane Nguyen
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.isci.2021.103013

Brain hierarchy score: Which deep neural networks are hierarchically brain-like?
Cited by: 29
Author(s): Soma Nonaka, Kei Majima, Shuntaro C. Aoki, Yukiyasu Kamitani
Software Mentions: 1
Published: about 3 years ago

10.1038/s41598-021-84058-3

Adipose-derived mesenchymal stem cells differentiate into heterogeneous cancer-associated fibroblasts in a stroma-rich xenograft model
Cited by: 26
Author(s): Yoshihiro Miyazaki, Tatsuya Oda, Yuki Inagaki, Hiroko Kushige, Yutaka Saitō, Nobuhito Mori, Yoichiro Takayama, Yutaro Kumagai, Toutai Mitsuyama, Yasuyuki S. Kida
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-018-19173-9

NIPBL+/− haploinsufficiency reveals a constellation of transcriptome disruptions in the pluripotent and cardiac states
Cited by: 24
Author(s): Jason A. Mills, Pamela S. Herrera, Maninder Kaur, Lanfranco Leo, Deborah McEldrew, Jesus A Tintos-Hernández, Ramakrishnan Rajagopalan, Alyssa Gagne, Zhe Zhang, Xilma R. Ortiz-González, Ian D. Krantz
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.isci.2021.103080

Prediction and identification of synergistic compound combinations against pancreatic cancer cells
Cited by: 2
Author(s): Yasaman KalantarMotamedi, Ran Joo Choi, Siang-Boon Koh, Jo L. Bramhall, Tai-Ping Fan, Andreas Bender
Software Mentions: 1
Published: about 3 years ago

10.1038/s41598-017-18397-5

Primed primary metabolism in systemic leaves: a functional systems analysis
Cited by: 55
Author(s): Jens Schwachtje, Axel Fischer, Alexander Erban, Joachim Kopka
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-17665-8

A Novel Cell Line Based Orthotopic Xenograft Mouse Model That Recapitulates Human Hepatoblastoma
Cited by: 25
Author(s): Sarah E. Woodfield, Yan Shi, Roma H. Patel, Jingling Jin, Angela Major, Stephen F. Sarabia, Zbigniew Starosolski, Barry Zorman, Siddharth Gupta, Zhenghu Chen, Aryana M. Ibarra, Karl Dimiter Bissig, Ketan B. Ghaghada, Pavel Sumazin, Dolores López‐Terrada, Sanjeev A. Vasudevan
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-17475-y

The Human Blood-Nerve Barrier Transcriptome
Cited by: 30
Author(s): Steven P. Palladino, E. Scott Helton, Preti Jain, Chaoling Dong, Michael R. Crowley, David K. Crossman, Eroboghene E. Ubogu
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-16892-3

Decreased miRNA expression in Klinefelter syndrome
Cited by: 16
Author(s): Laura Cimino, Michele Salemi, Rossella Cannarella, Rosita A. Condorelli, Giorgio Giurato, Giovanna Marchese, Sandro La Vignera, Aldo E. Calogero
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-14264-5

A total transcriptome profiling method for plasma-derived extracellular vesicles: applications for liquid biopsies
Cited by: 50
Author(s): María Galli de Amorim, Renan Valieris, Rodrigo Duarte Drummond, Melissa Pool Pizzi, Vanessa M. Freitas, Rita Sinigaglia‐Coimbra, George A. Calin, Renata Pasqualini, Wadih Arap, Israel Tojal da Silva, Emmanuel Dias‐Neto, Diana Noronha Nunes
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-021-84981-5

ATP signaling in the integrative neural center of Aplysia californica
Cited by: 3
Author(s): János Győri, Andrea B. Kohn, Daria Y. Romanova, Leonid L. Moroz
Software Mentions: 1
Published: over 3 years ago

10.1155/2021/9970896

Toxicology and Biodegradability of a Phthalate-Free and Bio-Based Novel Plasticizer
Cited by: 6
Author(s): Sophie Simar-Mentières, Fabrice Nesslany, M.-L. Sola, S. Mortier, Jérôme Raimbault, Franck Gondelle, Laure Chabot, Pascal Pandard, Daniel Wils, Aouatif Chentouf
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-017-13835-w

HIV-1 viral protein R (Vpr) induces fatty liver in mice via LXRα and PPARα dysregulation: implications for HIV-specific pathogenesis of NAFLD
Cited by: 27
Author(s): Neeti Agarwal, Dinakar Iyer, Chiara Gabbi, Pradip Kumar Saha, Sanjeet G. Patel, Qianxing Mo, Benny Hung-Junn Chang, Biman Goswami, Ulrich S. Schubert, Jeffrey B. Kopp, Dorothy E. Lewis, Ashok Balasubramanyam
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-12179-9

RNA-Seq Analyses Identify Frequent Allele Specific Expression and No Evidence of Genomic Imprinting in Specific Embryonic Tissues of Chicken
Cited by: 29
Author(s): Zhuo Zhu, Susan J. Lamont, Behnam Abasht
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-09517-2

Hypertension Susceptibility Loci are Associated with Anthracycline-related Cardiotoxicity in Long-term Childhood Cancer Survivors
Cited by: 20
Author(s): Michelle A.T. Hildebrandt, Monica E. Reyes, Xifeng Wu, Xia Pu, Kara Thompson, Jianchao Ma, Andrew P. Landstrom, Alanna C. Morrison, Joann L. Ater
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-10044-3

Establishment and genomic characterization of the new chordoma cell line Chor-IN-1
Cited by: 14
Author(s): Roberta Bosotti, Paola Magnaghi, Sebastiano Di Bella, Liviana Cozzi, Carlo Cusi, Fabio Bozzi, Nicola Beltrami, Giovanni Carapezza, Dario Ballinari, Nadia Amboldi, Rosita Lupi, Alessio Somaschini, Laura Raddrizzani, Barbara Salom, Arturo Galvani, Silvia Stacchiotti, Elena Tamborini, Antonella Isacchi
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-08320-3

Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems
Cited by: 19
Author(s): Kathy Ushakov, Tal Koffler-Brill, Aviv Rom, Kobi Perl, Igor Ulitsky, Karen B. Avraham
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-021-85704-6

Metabolomics analysis of follicular fluid coupled with oocyte aspiration reveals importance of glucocorticoids in primate periovulatory follicle competency
Cited by: 8
Author(s): Sweta Ravisankar, Kelsey E. Brooks, Mark K. Murphy, Nash Redmayne, Jae-Yong Ryu, Jason M. Kinchen, Shawn L. Chavez, Jon D. Hennebold
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-017-06914-5

RNA sequencing reveals resistance of TLR4 ligand-activated microglial cells to inflammation mediated by the selective jumonji H3K27 demethylase inhibitor
Cited by: 28
Author(s): Amitabh Das, Sarder Arifuzzaman, Tae-Ho Yoon, Sun Hwa Kim, Jin Choul Chai, Young Seek Lee, Kyoung Hwa Jung, Young Gyu Chai
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0187773

Lung epithelial response to cigarette smoke and modulation by the nicotinic alpha 7 receptor
Cited by: 18
Author(s): Lorise C. Gahring, Elizabeth J. Myers, Diane M. Dunn, Robert B. Weiss, Scott W. Rogers
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-05720-3

Gene Network Dysregulation in Dorsolateral Prefrontal Cortex Neurons of Humans with Cocaine Use Disorder
Cited by: 36
Author(s): Efrain Ribeiro, Joseph R. Scarpa, Susanna P. Garamszegi, Andrew Kasarskis, Deborah C. Mash, Eric J. Nestler
Software Mentions: 1
Published: over 7 years ago

10.18632/oncotarget.7242

Pinin interacts with C-terminal binding proteins for RNA alternative splicing and epithelial cell identity of human ovarian cancer cells
Cited by: 28
Author(s): Yanli Zhang, Jamie Sui-Lam Kwok, Pui–Wah Choi, Minghua Liu, Junzheng Yang, Margit Singh, Shu‐Kay Ng, William R. Welch, Michael G. Muto, Stephen Kwok Wing Tsui, Stephen P. Sugrue, Ross S. Berkowitz, Shu-Wing Ng
Software Mentions: 1
Published: almost 9 years ago

10.1016/j.jtauto.2021.100090

An elevated polyclonal free light chain level reflects a strong interferon signature in patients with systemic autoimmune diseases
Cited by: 12
Author(s): Éléonore Bettacchioli, Christelle Le Gaffric, Margaux Mazeas, María Orietta Borghi, Johan Frostegård, Guillermo Barturen, Zuzanna Makowska, Sepideh Babei, Ralf Lesche, Pier Luigi Meroni, Marta E. Alarcón‐Riquelme, Yves Renaudineau
Software Mentions: 1
Published: almost 4 years ago

10.1038/s41598-017-04654-0

Synergistic cellular effects including mitochondrial destabilization, autophagy and apoptosis following low-level exposure to a mixture of lipophilic persistent organic pollutants
Cited by: 18
Author(s): Nathan Earl Rainey, Ana Šarić, Alexandre Leberre, Etienne Dewailly, Christian Slomianny, Guillaume Vial, Harold I. Zeliger, Patrice X. Petit
Software Mentions: 1
Published: over 7 years ago

10.18632/oncotarget.9033

Functional networks of aging markers in the glomeruli of IgA nephropathy: a new therapeutic opportunity
Cited by: 19
Author(s): Hong Jiang, Ludan Liang, Jing Qin, Yingying Lu, Bingjue Li, Yucheng Wang, Ching‐Long Lin, Qin Zhou, Shi Feng, Shun H. Yip, Feng Xu, En Yin Lai, Junwen Wang, Jianghua Chen
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-04356-7

Comprehensive investigation of temporal and autism-associated cell type composition-dependent and independent gene expression changes in human brains
Cited by: 28
Author(s): Qianhui Yu, Zhisong He
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-021-86908-6

CDC2-like (CLK) protein kinase inhibition as a novel targeted therapeutic strategy in prostate cancer
Cited by: 15
Author(s): Simon Uzor, Sean Porazinski, Ling Li, Bethany Clark, Masahiko Ajiro, Kei Iida, Masatoshi Hagiwara, Abdullah A. Alqasem, Claire M Perks, Ian Wilson, Sebastian Oltean, Michael Ladomery
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-021-87353-1

The impact of indole-3-lactic acid on immature intestinal innate immunity and development: a transcriptomic analysis
Cited by: 17
Author(s): Wuyang Huang, Ky Young Cho, Di Meng, W. Allan Walker
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-017-04333-0

Hypoxia is a Key Driver of Alternative Splicing in Human Breast Cancer Cells
Cited by: 52
Author(s): Jian Han, Jia Li, Jeongwon Ho, Grace Sushin Chia, Hiroyuki Kato, Sudhakar Jha, Henry Yang, Lorenz Poellinger, Kian Leong Lee
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-02520-7

Tropospheric Warming Over The Past Two Decades
Cited by: 20
Author(s): Benjamin D. Santer, Susan Solomon, F. J. Wentz, Qiang Fu, Stephen Po‐Chedley, C. A. Mears, Jeffrey F. Painter, C. Bonfils
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-01377-0

Transcriptomic response of durum wheat to nitrogen starvation
Cited by: 103
Author(s): Pasquale Luca Curci, Riccardo Aiese Cigliano, Diana L. Zuluaga, Michela Janni, Walter Sanseverino, Gabriella Sonnante
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-01165-w

Low-cost, Low-bias and Low-input RNA-seq with High Experimental Verifiability based on Semiconductor Sequencing
Cited by: 7
Author(s): Zhibiao Mai, Chuan-Le Xiao, Jingjie Jin, Gong Zhang
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-00801-9

Frequent GU wobble pairings reduce translation efficiency in Plasmodium falciparum
Cited by: 13
Author(s): Sherwin Chan, Jun-Hong Ch’ng, Mats Wahlgren, Jessada Thutkawkorapin
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-00575-0

Eμ and 3′RR IgH enhancers show hierarchic unilateral dependence in mature B-cells
Cited by: 17
Author(s): Alexis Saintamand, Christelle Vincent-Fabert, Marie Marquet, Nour Ghazzaui, Virginie Magnone, Eric Pinaud, Michel Cogné, Yves Denizot
Software Mentions: 1
Published: over 7 years ago

10.1038/srep46440

LPS independent activation of the pro-inflammatory receptor Trem1 by C/EBPε in granulocytes
Cited by: 8
Author(s): Hyung Chan Suh, Touati Benoukraf, S. Pavithra, Tong Yin, Qi Cao, Jonathan Said, Stephen Lee, Raymond Boon Tar Lim, Henry Yang, Jacqueline Salotti, Peter F. Johnson, Vikas Madan, H. Phillip Koeffler
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0232081

Engineering a 3D in vitro model of human skeletal muscle at the single fiber scale
Cited by: 15
Author(s): Anna Urciuolo, Elena Serena, Rusha Ghua, Susi Zatti, Monica Giomo, Nicolò Mattei, Massimo Vetralla, Giulia Selmin, Camilla Luni, Nicola Vitulo, Giorgio Valle, Libero Vitiello, Nicola Elvassore
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0122602

Binary Gene Expression Patterning of the Molt Cycle: The Case of Chitin Metabolism
Cited by: 23
Author(s): Shai Abehsera, Lilah Glazer, Jenny Tynyakov, Inbar Plaschkes, Vered Chalifa‐Caspi, Isam Khalaila, Eliahu D. Aflalo, Amir Sagi
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0192170

Induction of epigenetic variation in Arabidopsis by over-expression of DNA METHYLTRANSFERASE1 (MET1)
Cited by: 14
Author(s): Samuel George Philip Brocklehurst, Michael R. Watson, Ian Carr, Suzan Out, Iris Heidmann, Peter Meyer
Software Mentions: 1
Published: almost 7 years ago

10.1038/srep43745

Dietary restriction protects against diethylnitrosamine-induced hepatocellular tumorigenesis by restoring the disturbed gene expression profile
Cited by: 16
Author(s): Ting Duan, Wenjie Sun, Mohan Zhang, Juan Ge, Yansu He, Jun Zhang, Yifan Zheng, Wei Yang, Han‐Ming Shen, Jun Yang, Xinqiang Zhu, Peilin Yu
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0207503

Distinct vascular genomic response of proton and gamma radiation—A pilot investigation
Cited by: 3
Author(s): Emanuela Ricciotti, Dimitra Sarantopoulou, Gregory R. Grant, Jenine K. Sanzari, Gabriel Krigsfeld, Amber J. Kiliti, Ann R. Kennedy, Tilo Großer
Software Mentions: 1
Published: almost 6 years ago

10.1093/hmg/ddaa034

Mice carrying an analogous heterozygous dynamin 2 K562E mutation that causes neuropathy in humans develop predominant characteristics of a primary myopathy
Cited by: 5
Author(s): Jorge A. Pereira, Joanne Gerber, Monica Ghidinelli, Daniel Gerber, Luigi Tortola, Andrea Ommer, Sven Bachofner, Francesco Santarella, Elisa Tinelli, Shuo Lin, Markus A. Rüegg, Manfred Köpf, Klaus V. Toyka, Ueli Suter
Software Mentions: 1
Published: over 4 years ago

10.1093/hmg/ddw001

Keratin 12 missense mutation induces the unfolded protein response and apoptosis in Meesmann epithelial corneal dystrophy
Cited by: 18
Author(s): E. Allen, David Courtney, Sarah D. Atkinson, Johnny Moore, Laura Mairs, Ebbe Toftgaard Poulsen, Davide Schiroli, Eleonora Maurizi, Christian Callebaut, Robyn P. Hickerson, John James, Helen Murgatroyd, Frances J.D. Smith, Carrie MacEwen, Jan J. Enghild, M. Andrew Nesbit, Deena M. Leslie Pedrioli, Whi McLean, Carrie Moore
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0221008

Genetic variation for root architectural traits in response to phosphorus deficiency in mungbean at the seedling stage
Cited by: 29
Author(s): V. R. Reddy, Muraleedhar S. Aski, Gyan P. Mishra, Harsh Kumar Dikshit, Akanksha Singh, Renu Pandey, Madan Pal Singh, Gayacharan, Vinita Ramtekey, Priti, Neha Rai, Ramakrishnan M. Nair
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0211709

Modeling financial interval time series
Cited by: 1
Author(s): Lin Liang, Li Hsien Sun
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0201756

Identification of genomic regions associated with agronomic and biofortification traits in DH populations of rice
Cited by: 46
Author(s): B. P. Mallikarjuna Swamy, Gwen Iris L. Descalsota, Chau Thanh Nha, Amery Amparado, Mary Ann Inabangan-Asilo, Christine Manito, Frances Tesoro, Russell Reinke
Software Mentions: 1
Published: over 6 years ago

10.1038/srep40214

Aminophylline suppresses stress-induced visceral hypersensitivity and defecation in irritable bowel syndrome
Cited by: 16
Author(s): Teita Asano, Ken Ichiro Tanaka, Arisa Tada, Hikaru Shimamura, Rikako Tanaka, Hiroki Maruoka, Mitsuko Takenaga, Tohru Mizushima
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0036566

Classification of HIV-1 Sequences Using Profile Hidden Markov Models
Cited by: 7
Author(s): Sanjiv K. Dwivedi, Supratim Sengupta
Software Mentions: 1
Published: over 12 years ago

10.1038/srep39094

Targeted RNA-Seq profiling of splicing pattern in the DMD gene: exons are mostly constitutively spliced in human skeletal muscle
Cited by: 21
Author(s): Anne-Laure Bougé, Eva M. Murauer, Emmanuelle Beyne, Julie Miro, Jessica Varilh, Magali Taulan, M. Kœnig, Mireille Claustres, Sylvie Tuffery‐Giraud
Software Mentions: 1
Published: almost 8 years ago

10.1038/srep38624

Genome maintenance and bioenergetics of the long-lived hypoxia-tolerant and cancer-resistant blind mole rat, Spalax: a cross-species analysis of brain transcriptome
Cited by: 25
Author(s): Assaf Malik, Vered Domankevich, Lijuan Han, Xiaodong Fang, Abraham B. Korol, Aaron Avivi, Imad Shams
Software Mentions: 1
Published: almost 8 years ago

10.1038/srep37412

Gene regulatory networks in neural cell fate acquisition from genome-wide chromatin association of Geminin and Zic1
Cited by: 20
Author(s): Savita Sankar, Dhananjay Yellajoshyula, Bo Zhang, Bryan W. Teets, Nicole B. Rockweiler, Kristen L. Kroll
Software Mentions: 1
Published: almost 8 years ago

10.1016/j.isprsjprs.2020.08.027

Empirical validation of photon recollision probability in single crowns of tree seedlings
Cited by: 6
Author(s): Aarne Hovi, Petri Forsström, Giulia Ghielmetti, Michael E. Schaepman, Miina Rautiainen
Software Mentions: 1
Published: about 4 years ago

10.1107/S2052252517014658

Thermomechanical effect in molecular crystals: the role of halogen-bonding interactions
Cited by: 15
Author(s): Sudhir Mittapalli, D. Sravanakumar Perumalla, Jagadeesh Babu Nanubolu, Ashwini Nangia
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0089459

MARIS: Method for Analyzing RNA following Intracellular Sorting
Cited by: 88
Author(s): Siniša Hrvatin, Francis Deng, Barry O'Donnell, David K. Gifford, Douglas A. Melton
Software Mentions: 1
Published: over 10 years ago

10.1107/S2052252520001335

On the mechanism of solid-state phase transitions in molecular crystals – the role of cooperative motion in (quasi)racemic linear amino acids
Cited by: 25
Author(s): Mireille M. H. Smets, Emma Kalkman, Annika M. Krieger, Paul Tinnemans, Hugo Meekes, E. Vlieg, H. M. Cuppen
Software Mentions: 1
Published: over 4 years ago

10.1107/S2052252517004043

Mechanochemical synthesis of<i>N</i>-salicylideneaniline: thermosalient effect of polymorphic crystals
Cited by: 30
Author(s): Sudhir Mittapalli, D. Sravanakumar Perumalla, Ashwini Nangia
Software Mentions: 1
Published: over 7 years ago

10.1038/srep37235

Nitrogen-induced metabolic changes and molecular determinants of carbon allocation in Dunaliella tertiolecta
Cited by: 49
Author(s): Kenneth Wei Min Tan, Huixin Lin, Hui Shen, Yuan Kun Lee
Software Mentions: 1
Published: about 8 years ago

10.1038/srep35228

Interactome-transcriptome analysis discovers signatures complementary to GWAS Loci of Type 2 Diabetes
Cited by: 17
Author(s): Jing‐Woei Li, Heung‐Man Lee, Ying Wang, Amy Hin-Yan Tong, Kevin Y. Yip, Stephen Kwok‐Wing Tsui, Si Lok, Risa Ozaki, Andrea O. Y. Luk, Alice Pik‐Shan Kong, Wing–Yee So, C. Ronald, Juliana C.N. Chan, Ting-Fung Chan
Software Mentions: 1
Published: about 8 years ago

10.1038/srep34863

Systems-level analysis reveals selective regulation of Aqp2 gene expression by vasopressin
Cited by: 35
Author(s): Pablo Sandoval, J’Neka S. Claxton, Jae Woo Lee, Fahad Saeed, Jason D. Hoffert, Mark A. Knepper
Software Mentions: 1
Published: about 8 years ago

10.1038/srep33209

STAR: a simple TAL effector assembly reaction using isothermal assembly
Cited by: 13
Author(s): Sabine Gogolok, Claudia Garcia-Diaz, Steven M. Pollard
Software Mentions: 1
Published: about 8 years ago

10.1038/srep30311

Transcriptome sequencing wide functional analysis of human mesenchymal stem cells in response to TLR4 ligand
Cited by: 26
Author(s): Sun Hwa Kim, Amitabh Das, Jin Choul Chai, Bert Binas, Mi Ran Choi, Kyoung Sun Park, Young Seek Lee, Kyoung Hwa Jung, Young Gyu Chai
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0186888

TrpA1 activation in peripheral sensory neurons underlies the ionic basis of pain hypersensitivity in response to vinca alkaloids
Cited by: 19
Author(s): Nina Boiko, Geraldo Medrano, Elizabeth Montano, Nan Jiang, Claire Williams, Ngonidzashe B Madungwe, Jean C. Bopassa, Charles C. Kim, Jay Z. Parrish, Kenneth M. Hargreaves, James D. Stockand, Benjamin A. Eaton
Software Mentions: 1
Published: about 7 years ago

10.1038/srep26200

Possible mechanisms of host resistance to Haemonchus contortus infection in sheep breeds native to the Canary Islands
Cited by: 57
Author(s): Zhengyu Guo, J. González, Julia N. Hernández, Tom N. McNeilly, Yolanda Corripio-Miyar, David Frew, Tyler Morrison, Peng Yu, Robert W. Li
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0149229

Major Transcriptome Changes Accompany the Growth of Pseudomonas aeruginosa in Blood from Patients with Severe Thermal Injuries
Cited by: 30
Author(s): Cassandra Kruczek, Kameswara Rao Kottapalli, Sharmila Dissanaike, Nyaradzo Dzvova, John Griswold, Jane A. Colmer-Hamood, Abdul N. Hamood
Software Mentions: 1
Published: over 8 years ago

10.1186/s13046-019-1307-8

HMGA1 promotes breast cancer angiogenesis supporting the stability, nuclear localization and transcriptional activity of FOXM1
Cited by: 54
Author(s): Rossella Zanin, Silvia Pegoraro, Gloria Ros, Yari Ciani, Silvano Piazza, Fleur Bossi, Roberta Bulla, Cristina Zennaro, Federica Tonon, Dejan Lazarevic, Elia Stupka, Riccardo Sgarra, Guidalberto Manfioletti
Software Mentions: 1
Published: over 5 years ago

10.1007/s12035-019-01681-y

Age and Sex Influence the Hippocampal Response and Recovery Following Sepsis
Cited by: 29
Author(s): Jolie Barter, Ashok Kumar, Julie A. Stortz, McKenzie K. Hollen, Dina C. Nacionales, Philip A. Efron, Lyle L. Moldawer, Thomas C. Foster
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0157758

Characterisation of CDKL5 Transcript Isoforms in Human and Mouse
Cited by: 47
Author(s): Ralph D. Hector, Owen Dando, Nicoletta Landsberger, Charlotte Kilstrup‐Nielsen, Peter C. Kind, Mark E.S. Bailey, Stuart Cobb
Software Mentions: 1
Published: over 8 years ago

10.1186/s13046-021-02025-2

Common and mutation specific phenotypes of KRAS and BRAF mutations in colorectal cancer cells revealed by integrative -omics analysis
Cited by: 9
Author(s): Snehangshu Kundu, Muhammad Akhtar-Ali, Niklas Handin, Louis P. Conway, Verónica Rendo, Per Artursson, Liqun He, Daniel Globisch, Tobias Sjöblom
Software Mentions: 1
Published: over 3 years ago

10.1038/srep22177

Evolution of the assassin’s arms: insights from a phylogeny of combined transcriptomic and ribosomal DNA data (Heteroptera: Reduvioidea)
Cited by: 33
Author(s): Junxia Zhang, Eric R. L. Gordon, Michael Forthman, Wei Song Hwang, Kimberly K. O. Walden, Daniel R. Swanson, Kevin P. Johnson, Rudolf Meier, Christiane Weirauch
Software Mentions: 1
Published: over 8 years ago

10.1093/gigascience/gix081

Transcriptional mapping of the primary somatosensory cortex upon sensory deprivation
Cited by: 8
Author(s): Koen Kole, Yutaro Komuro, Jan Provazník, Jelena Pistolic, Vladimı́r Beneš, Paul Tiesinga, Tansu Celikel
Software Mentions: 1
Published: over 7 years ago

10.18632/oncotarget.17765

Intra-tumour molecular heterogeneity of clear cell renal cell carcinoma reveals the diversity of the response to targeted therapies using patient-derived xenograft models
Cited by: 17
Author(s): Bo Hong, Yong Yang, Sheng Guo, Shayiremu Duoerkun, Xiaohu Deng, Fan Chen, Shijun Yu, Wubin Qian, Qi-Xiang Li, Qing Li, Kan Gong, Ning Zhang
Software Mentions: 1
Published: over 7 years ago

10.1093/molbev/msw139

Reverse Transcription Errors and RNA–DNA Differences at Short Tandem Repeats
Cited by: 13
Author(s): Arkarachai Fungtammasan, Marta Tomaszkiewicz, Rebeca Campos-Sánchez, Kristin A. Eckert, Michael DeGiorgio, Kateryna D. Makova
Software Mentions: 1
Published: over 8 years ago

10.1084/jem.20180870

Secreted PD-L1 variants mediate resistance to PD-L1 blockade therapy in non–small cell lung cancer
Cited by: 153
Author(s): Bin Gong, Kazuma Kiyotani, Seiji Sakata, Seiji Nagano, Shun Kumehara, Satoko Baba, Benjamin Besse, Noriko Yanagitani, Luc Friboulet, Makoto Nishio, Kengo Takeuchi, Hiroshi Kawamoto, Naoya Fujita, Ryohei Katayama
Software Mentions: 1
Published: over 5 years ago

10.1084/jem.20181394

Lamin B1 loss promotes lung cancer development and metastasis by epigenetic derepression of RET
Cited by: 42
Author(s): Yanhan Jia, Joaquim S. L. Vong, Alina Asafova, Boyan K. Garvalov, Luca Caputo, Julio Cordero, Avinash Singh, Thomas Boettger, Stefan Günther, Ludger Fink, Till Acker, Guillermo Barreto, Werner Seeger, Thomas Braun, Rajkumar Savai, Gergana Dobreva
Software Mentions: 1
Published: over 5 years ago

10.1093/gigascience/giy010

The genome sequence and transcriptome of Potentilla micrantha and their comparison to Fragaria vesca (the woodland strawberry)
Cited by: 37
Author(s): Matteo Buti, Marco Moretto, Elena Barghini, Flavia Mascagni, Lucia Natali, Matteo Brilli, Alexandre Lomsadze, Paolo Sonego, L. Giongo, Michael Alonge, Riccardo Velasco, Claudio Varotto, Nada Šurbanovski, Mark Borodovsky, J. A. Ward, Kristof Engelen, Andrea Cavallini, Alessandro Cestaro, Daniel J. Sargent
Software Mentions: 1
Published: almost 8 years ago

10.1093/gigascience/giy008

Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning
Cited by: 12
Author(s): Bradley M. Colquitt, David G. Mets, Michael S. Brainard
Software Mentions: 1
Published: almost 7 years ago

10.3390/molecules24183217

Moringin Pretreatment Inhibits the Expression of Genes Involved in Mitophagy in the Stem Cell of the Human Periodontal Ligament
Cited by: 16
Author(s): Luigi Chiricosta, Agnese Gugliandolo, Francesca Diomede, Jacopo Pizzicannella, Oriana Trubiani, Renato Iori, Giuseppe Tardiolo, Simone Guarnieri, Placido Bramantı, Emanuela Mazzon
Software Mentions: 1
Published: about 5 years ago

10.1093/gigascience/gix122

VaDiR: an integrated approach to Variant Detection in RNA
Cited by: 14
Author(s): Lisa Neums, Seiji Suenaga, Peter Beyerlein, Sara Anders, Devin C. Koestler, Andrea Mariani, Jeremy Chien
Software Mentions: 1
Published: almost 7 years ago

10.1093/gigascience/gix035

A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana
Cited by: 45
Author(s): Reuben W. Nowell, Benjamin Elsworth, Vicencio Oostra, Bas J. Zwaan, Christopher W. Wheat, Marjo Saastamoinen, Ilik J. Saccheri, Arjen E Van’t Hof, Bethany R. Wasik, Heidi Connahs, Muhammad Aslam, Sujai Kumar, Richard Challis, Antónia Monteiro, Paul M. Brakefield, Mark Blaxter
Software Mentions: 1
Published: over 7 years ago

10.1093/gigascience/gix012

RED-ML: a novel, effective RNA editing detection method based on machine learning
Cited by: 27
Author(s): Heng Xiong, Dongbing Liu, Qiye Li, Mengyue Lei, Liqin Xu, Liang Wu, Zongji Wang, Shancheng Ren, Wangsheng Li, Min Xia, Lihua Lü, Haorong Lu, Yong Hou, Shida Zhu, Xin Liu, Ying Sun, Jian Wang, Huanming Yang, Kui Wu, Xun Xu, Leo J. Lee
Software Mentions: 1
Published: over 7 years ago

10.1186/s13742-015-0105-2

Colib’read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads
Cited by: 2
Author(s): Yvan Le Bras, Olivier Collin, Cyril Monjeaud, Vincent Lacroix, Éric Rivals, Claire Lemaitre, Vincent Miele, Gustavo Sacomoto, Camille Marchet, Bastien Cazaux, Amal Zine El Aabidine, Leena Salmela, Susete Alves‐Carvalho, Alexan Andrieux, Raluca Uricaru, Pierre Peterlongo
Software Mentions: 1
Published: almost 9 years ago

10.1016/j.gpb.2020.10.005

Chinese Glioma Genome Atlas (CGGA): A Comprehensive Resource with Functional Genomic Data from Chinese Glioma Patients
Cited by: 384
Author(s): Zheng Zhao, Kenan Zhang, Qiangwei Wang, Guanzhang Li, Fan Zeng, Ying Zhang, Fan Wu, Rui‐Chao Chai, Zheng Wang, Chuanbao Zhang, Wei Zhang, Zhaoshi Bao, Tao Jiang
Software Mentions: 1
Published: almost 4 years ago

10.1016/j.gpb.2016.02.003

Profiling and Validation of the Circular RNA Repertoire in Adult Murine Hearts
Cited by: 74
Author(s): Tobias Jakobi, Lisa F. Czaja-Hasse, Richard Reinhardt, Christoph Dieterich
Software Mentions: 1
Published: over 8 years ago

10.5808/GI.2020.18.1.e10

Accelerating next generation sequencing data analysis: an evaluation of optimized best practices for Genome Analysis Toolkit algorithms
Cited by: 29
Author(s): Karl R. Franke, Erin L. Crowgey
Software Mentions: 1
Published: over 4 years ago

10.5808/GI.2019.17.3.e32

Comparison of the MGISEQ-2000 and Illumina HiSeq 4000 sequencing platforms for RNA sequencing
Cited by: 29
Author(s): Sol A Jeon, Jong‐Lyul Park, Jong-Hwan Kim, Jeong Hwan Kim, Yong‐Sung Kim, Jin Cheon Kim, Seon‐Young Kim
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.633681

Alteration of mRNA 5-Methylcytosine Modification in Neurons After OGD/R and Potential Roles in Cell Stress Response and Apoptosis
Cited by: 11
Author(s): Huan Jian, Chi Zhang, Zhangyang Qi, Xueying Li, Yongfu Lou, Yi No Kang, Weimin Deng, Yigang Lv, Chaoyu Wang, Wei Wang, Shenghui Shang, Mengfan Hou, Hengxing Zhou, Shiqing Feng
Software Mentions: 1
Published: almost 4 years ago

10.1016/j.stemcr.2019.09.011

Association of Human iPSC Gene Signatures and X Chromosome Dosage with Two Distinct Cardiac Differentiation Trajectories
Cited by: 41
Author(s): Agnieszka D’Antonio‐Chronowska, Maureen D. Donovan, William W. Greenwald, Jennifer P. Nguyen, Kyohei Fujita, Sherin I. Hashem, Hiroko Matsui, Francesca Soncin, Mana M. Parast, Michelle C. Ward, Florence Coulet, Erin N. Smith, Eric Adler, Matteo D’Antonio, Kelly A. Frazer
Software Mentions: 1
Published: about 5 years ago

10.3390/polym12081642

Synthesis and Characterisation of Acrylic Resin-Al Powder Composites Suitable for Additive Manufacturing
Cited by: 4
Author(s): J. J. Relinque, Ismael Romero‐Ocaña, Francisco J. Navas‐Martos, Francisco Delgado, Manuel Domínguez, S. I. Molina
Software Mentions: 1
Published: over 4 years ago

10.1016/j.stemcr.2020.01.008

Autophagy Reprograms Alveolar Progenitor Cell Metabolism in Response to Lung Injury
Cited by: 28
Author(s): Xue Li, Junping Wu, Xin Sun, Qi Wu, Yue Li, Kuan Li, Qiuyang Zhang, Yu Liu, E. Dale Abel, Huaiyong Chen
Software Mentions: 1
Published: over 4 years ago

10.3389/fvets.2018.00089

Open Screw Placement in a 1.5 mm LCP Over a Fracture Gap Decreases Fatigue Life
Cited by: 0
Author(s): Sarah G. J. Alwen, Amy S. Kapatkin, Tanya C. Garcia, Joshua Milgram, Susan M. Stover
Software Mentions: 1
Published: over 6 years ago

10.3390/polym12051148

Epoxy-Anhydride Vitrimers from Aminoglycidyl Resins with High Glass Transition Temperature and Efficient Stress Relaxation
Cited by: 26
Author(s): Michael Giebler, Clemens Sperling, Simon Kaiser, Ivica Đuretek, Sandra Schlögl
Software Mentions: 1
Published: over 4 years ago

10.3390/polym12020467

Methods for Determining the Thermal Transfer in Phase-Changing Materials (PCMs)
Cited by: 2
Author(s): Vasile Bendic, Dan Dobrotă, Ionel Simion, Emilia Bălan, Nicoleta-Elisabeta Pascu, Dana Iuliana Tilina
Software Mentions: 1
Published: almost 5 years ago

10.1016/j.stemcr.2021.06.013

Hypersensitivity response has negligible impact on Hematopoietic Stem Cells
Cited by: 1
Author(s): Nir Bujanover, Roshina Thapa, Oron Goldstein, Leonid Olender, Omri Sharabi, Michael D. Milsom, Roi Gazit
Software Mentions: 1
Published: over 3 years ago

10.3389/fimmu.2020.483296

ProTECT—Prediction of T-Cell Epitopes for Cancer Therapy
Cited by: 12
Author(s): Rao Av, Ada A. Madejska, Jacob Pfeil, Benedict Paten, Sofie R. Salama, David Haussler
Software Mentions: 1
Published: about 4 years ago

10.1016/j.celrep.2020.108368

Intramacrophage ROS Primes the Innate Immune System via JAK/STAT and Toll Activation
Cited by: 57
Author(s): Sveta Chakrabarti, Sandhya S. Visweswariah
Software Mentions: 1
Published: about 4 years ago

10.1186/s13287-019-1319-5

The role of insulin as a key regulator of seeding, proliferation, and mRNA transcription of human pluripotent stem cells
Cited by: 6
Author(s): Mohammad Shahbazi, Paige Cundiff, Wenyu Zhou, Philip Lee, Amar Patel, Sunita L. D’Souza, Fahim Abbasi, Thomas Quertermous, Joshua W. Knowles
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2020.609337

Tumor Microenvironment Status Predicts the Efficacy of Postoperative Chemotherapy or Radiochemotherapy in Resected Gastric Cancer
Cited by: 8
Author(s): Ran Duan, Xiaoqin Li, Dongqiang Zeng, Xiaofeng Chen, Bo Shen, Dongqin Zhu, Lei Zhu, Yangyang Yu, Deqiang Wang
Software Mentions: 1
Published: almost 4 years ago

10.3389/fimmu.2019.01949

Functional Annotation of Genetic Loci Associated With Sepsis Prioritizes Immune and Endothelial Cell Pathways
Cited by: 13
Author(s): Kieu Le, Vasiliki Matzaraki, Mihai G. Netea, Cisca Wijmenga, Jill Moser, Vinod Kumar
Software Mentions: 1
Published: over 5 years ago

Projects: cran: STAR

Papers Mentioning STAR 5,759