A citation-based method for searching scientific literature

Andrew Tilston-Lunel, Sarah Mazzilli, Nathan M Kingston, Aleksander D Szymaniak, Julia Hicks-Berthet, Joseph G Kern, Kristine Abo, Mary E Reid, Catalina Perdomo, Andrew A Wilson, Avrum Spira, Jennifer Beane, Xaralabos Varelas. Proc Natl Acad Sci U S A 2021
Times Cited: 3







List of co-cited articles
6 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Basal cells as stem cells of the mouse trachea and human airway epithelium.
Jason R Rock, Mark W Onaitis, Emma L Rawlins, Yun Lu, Cheryl P Clark, Yan Xue, Scott H Randell, Brigid L M Hogan. Proc Natl Acad Sci U S A 2009
897
66

The role of Scgb1a1+ Clara cells in the long-term maintenance and repair of lung airway, but not alveolar, epithelium.
Emma L Rawlins, Tadashi Okubo, Yan Xue, David M Brass, Richard L Auten, Hiroshi Hasegawa, Fan Wang, Brigid L M Hogan. Cell Stem Cell 2009
535
66

Hippo/Yap signaling controls epithelial progenitor cell proliferation and differentiation in the embryonic and adult lung.
Alexander W Lange, Anusha Sridharan, Yan Xu, Barry R Stripp, Anne-Karina Perl, Jeffrey A Whitsett. J Mol Cell Biol 2015
126
66

Yap tunes airway epithelial size and architecture by regulating the identity, maintenance, and self-renewal of stem cells.
Rui Zhao, Timothy R Fallon, Srinivas Vinod Saladi, Ana Pardo-Saganta, Jorge Villoria, Hongmei Mou, Vladimir Vinarsky, Meryem Gonzalez-Celeiro, Naveen Nunna, Lida P Hariri,[...]. Dev Cell 2014
126
66

SPDEF is required for mouse pulmonary goblet cell differentiation and regulates a network of genes associated with mucus production.
Gang Chen, Thomas R Korfhagen, Yan Xu, Joseph Kitzmiller, Susan E Wert, Yutaka Maeda, Alexander Gregorieff, Hans Clevers, Jeffrey A Whitsett. J Clin Invest 2009
273
66

Fgf10-Hippo Epithelial-Mesenchymal Crosstalk Maintains and Recruits Lung Basal Stem Cells.
Thomas Volckaert, Tingting Yuan, Cho-Ming Chao, Harold Bell, Alina Sitaula, Luisa Szimmtenings, Elie El Agha, Diptiman Chanda, Susan Majka, Saverio Bellusci,[...]. Dev Cell 2017
71
66

clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
33

TAZ controls Smad nucleocytoplasmic shuttling and regulates human embryonic stem-cell self-renewal.
Xaralabos Varelas, Rui Sakuma, Payman Samavarchi-Tehrani, Raheem Peerani, Balaji M Rao, Joanna Dembowy, Michael B Yaffe, Peter W Zandstra, Jeffrey L Wrana. Nat Cell Biol 2008
464
33


edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Mark D Robinson, Davis J McCarthy, Gordon K Smyth. Bioinformatics 2010
33

Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt.
Steffen Durinck, Paul T Spellman, Ewan Birney, Wolfgang Huber. Nat Protoc 2009
33

IL-1β dominates the promucin secretory cytokine profile in cystic fibrosis.
Gang Chen, Ling Sun, Takafumi Kato, Kenichi Okuda, Mary B Martino, Aiman Abzhanova, Jennifer M Lin, Rodney C Gilmore, Bethany D Batson, Yvonne K O'Neal,[...]. J Clin Invest 2019
46
33

Transcriptional co-repressor function of the hippo pathway transducers YAP and TAZ.
Minchul Kim, Taekhoon Kim, Randy L Johnson, Dae-Sik Lim. Cell Rep 2015
164
33

Aberrant DNA methylation and expression of SPDEF and FOXA2 in airway epithelium of patients with COPD.
J Song, I H Heijink, L E M Kistemaker, M Reinders-Luinge, W Kooistra, J A Noordhoek, R Gosens, C A Brandsma, W Timens, P S Hiemstra,[...]. Clin Epigenetics 2017
24
33

MAPK-Mediated YAP Activation Controls Mechanical-Tension-Induced Pulmonary Alveolar Regeneration.
Zhe Liu, Huijuan Wu, Kewu Jiang, Yanjie Wang, Wenjing Zhang, Qiqi Chu, Juan Li, Huanwei Huang, Tao Cai, Hongbin Ji,[...]. Cell Rep 2016
97
33

Notch signaling promotes airway mucous metaplasia and inhibits alveolar development.
J Sawalla Guseh, Sam A Bores, Ben Z Stanger, Qiao Zhou, William J Anderson, Douglas A Melton, Jayaraj Rajagopal. Development 2009
206
33

Growth and differentiation of mouse tracheal epithelial cells: selection of a proliferative population.
Yingjian You, Edward J Richer, Tao Huang, Steven L Brody. Am J Physiol Lung Cell Mol Physiol 2002
348
33

Control of mucin-type O-glycosylation: a classification of the polypeptide GalNAc-transferase gene family.
Eric P Bennett, Ulla Mandel, Henrik Clausen, Thomas A Gerken, Timothy A Fritz, Lawrence A Tabak. Glycobiology 2012
477
33


Mucin is produced by clara cells in the proximal airways of antigen-challenged mice.
Christopher M Evans, Olatunji W Williams, Michael J Tuvim, Rupesh Nigam, George P Mixides, Michael R Blackburn, Francesco J DeMayo, Alan R Burns, Charlotte Smith, Susan D Reynolds,[...]. Am J Respir Cell Mol Biol 2004
210
33

Interleukin-13: central mediator of allergic asthma.
M Wills-Karp, J Luyimbazi, X Xu, B Schofield, T Y Neben, C L Karp, D D Donaldson. Science 1998
33

Association of innate defense proteins BPIFA1 and BPIFB1 with disease severity in COPD.
Elise G De Smet, Leen Jm Seys, Fien M Verhamme, Bart M Vanaudenaerde, Guy G Brusselle, Colin D Bingle, Ken R Bracke. Int J Chron Obstruct Pulmon Dis 2017
18
33

SMAD Signaling Restricts Mucous Cell Differentiation in Human Airway Epithelium.
Michael B Feldman, Michael Wood, Allen Lapey, Hongmei Mou. Am J Respir Cell Mol Biol 2019
13
33

Tyrosine phosphorylation controls Runx2-mediated subnuclear targeting of YAP to repress transcription.
Sayyed K Zaidi, Andrew J Sullivan, Ricardo Medina, Yoshiaki Ito, Andre J van Wijnen, Janet L Stein, Jane B Lian, Gary S Stein. EMBO J 2004
300
33

Fiji: an open-source platform for biological-image analysis.
Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid,[...]. Nat Methods 2012
33

SPDEF regulates goblet cell hyperplasia in the airway epithelium.
Kwon-Sik Park, Thomas R Korfhagen, Michael D Bruno, Joseph A Kitzmiller, Huajing Wan, Susan E Wert, Gurjit K Khurana Hershey, Gang Chen, Jeffrey A Whitsett. J Clin Invest 2007
191
33


Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis.
Maximilian Strunz, Lukas M Simon, Meshal Ansari, Jaymin J Kathiriya, Ilias Angelidis, Christoph H Mayr, George Tsidiridis, Marius Lange, Laura F Mattner, Min Yee,[...]. Nat Commun 2020
104
33

Allergen-induced peribronchial fibrosis and mucus production mediated by IkappaB kinase beta-dependent genes in airway epithelium.
David H Broide, Toby Lawrence, Taylor Doherty, Jae Youn Cho, Marina Miller, Kirsti McElwain, Shauna McElwain, Michael Karin. Proc Natl Acad Sci U S A 2005
123
33


STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
33

Epithelial Expression of YAP and TAZ Is Sequentially Required in Lung Development.
Hideaki Isago, Akihisa Mitani, Yu Mikami, Masafumi Horie, Hirokazu Urushiyama, Ryuji Hamamoto, Yasuhiro Terasaki, Takahide Nagase. Am J Respir Cell Mol Biol 2020
18
33

The Nucleosome Remodeling and Deacetylation Complex Modulates Chromatin Structure at Sites of Active Transcription to Fine-Tune Gene Expression.
Susanne Bornelöv, Nicola Reynolds, Maria Xenophontos, Sarah Gharbi, Ewan Johnstone, Robin Floyd, Meryem Ralser, Jason Signolet, Remco Loos, Sabine Dietmann,[...]. Mol Cell 2018
66
33

Model-based analysis of ChIP-Seq (MACS).
Yong Zhang, Tao Liu, Clifford A Meyer, Jérôme Eeckhoute, David S Johnson, Bradley E Bernstein, Chad Nusbaum, Richard M Myers, Myles Brown, Wei Li,[...]. Genome Biol 2008
33

Direct effects of interleukin-13 on epithelial cells cause airway hyperreactivity and mucus overproduction in asthma.
Douglas A Kuperman, Xiaozhu Huang, Laura L Koth, Grace H Chang, Gregory M Dolganov, Zhou Zhu, Jack A Elias, Dean Sheppard, David J Erle. Nat Med 2002
692
33

TGFβ signaling inhibits goblet cell differentiation via SPDEF in conjunctival epithelium.
Heather A McCauley, Chia-Yang Liu, Aria C Attia, Kathryn A Wikenheiser-Brokamp, Yujin Zhang, Jeffrey A Whitsett, Géraldine Guasch. Development 2014
28
33

The hippo pathway effector Yap controls patterning and differentiation of airway epithelial progenitors.
John E Mahoney, Munemasa Mori, Aleksander D Szymaniak, Xaralabos Varelas, Wellington V Cardoso. Dev Cell 2014
153
33

limma powers differential expression analyses for RNA-sequencing and microarray studies.
Matthew E Ritchie, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, Gordon K Smyth. Nucleic Acids Res 2015
33

Yap and its subcellular localization have distinct compartment-specific roles in the developing lung.
Benjamin J van Soldt, Jun Qian, Jiao Li, Nan Tang, Jining Lu, Wellington V Cardoso. Development 2019
23
33

NF-kappa B activation in airways modulates allergic inflammation but not hyperresponsiveness.
Matthew E Poynter, Roy Cloots, Tiest van Woerkom, Kelly J Butnor, Pamela Vacek, Douglas J Taatjes, Charles G Irvin, Yvonne M W Janssen-Heininger. J Immunol 2004
123
33

Lats1/2 inactivation reveals Hippo function in alveolar type I cell differentiation during lung transition to air breathing.
Leah B Nantie, Randee E Young, Wyatt G Paltzer, Yan Zhang, Randy L Johnson, Jamie M Verheyden, Xin Sun. Development 2018
37
33

Genome-wide association between YAP/TAZ/TEAD and AP-1 at enhancers drives oncogenic growth.
Francesca Zanconato, Mattia Forcato, Giusy Battilana, Luca Azzolin, Erika Quaranta, Beatrice Bodega, Antonio Rosato, Silvio Bicciato, Michelangelo Cordenonsi, Stefano Piccolo. Nat Cell Biol 2015
547
33

CellProfiler 3.0: Next-generation image processing for biology.
Claire McQuin, Allen Goodman, Vasiliy Chernyshev, Lee Kamentsky, Beth A Cimini, Kyle W Karhohs, Minh Doan, Liya Ding, Susanne M Rafelski, Derek Thirstrup,[...]. PLoS Biol 2018
649
33

Airway mucus function and dysfunction.
John V Fahy, Burton F Dickey. N Engl J Med 2010
843
33

Inflammatory Signals Induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration.
Jinwook Choi, Jong-Eun Park, Georgia Tsagkogeorga, Motoko Yanagita, Bon-Kyoung Koo, Namshik Han, Joo-Hyeon Lee. Cell Stem Cell 2020
84
33

A resource of Cre driver lines for genetic targeting of GABAergic neurons in cerebral cortex.
Hiroki Taniguchi, Miao He, Priscilla Wu, Sangyong Kim, Raehum Paik, Ken Sugino, Duda Kvitsiani, Yu Fu, Jiangteng Lu, Ying Lin,[...]. Neuron 2011
33

Yap/Taz regulate alveolar regeneration and resolution of lung inflammation.
Ryan LaCanna, Daniela Liccardo, Peggy Zhang, Lauren Tragesser, Yan Wang, Tongtong Cao, Harold A Chapman, Edward E Morrisey, Hao Shen, Walter J Koch,[...]. J Clin Invest 2019
79
33

Active epithelial Hippo signaling in idiopathic pulmonary fibrosis.
Jason J Gokey, Anusha Sridharan, Yan Xu, Jenna Green, Gianni Carraro, Barry R Stripp, Anne-Karina T Perl, Jeffrey A Whitsett. JCI Insight 2018
64
33

Culture and differentiation of mouse tracheal epithelial cells.
Yingjian You, Steven L Brody. Methods Mol Biol 2013
64
33

A cellular census of human lungs identifies novel cell states in health and in asthma.
Felipe A Vieira Braga, Gozde Kar, Marijn Berg, Orestes A Carpaij, Krzysztof Polanski, Lukas M Simon, Sharon Brouwer, Tomás Gomes, Laura Hesse, Jian Jiang,[...]. Nat Med 2019
291
33


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.