A citation-based method for searching scientific literature

Debarshi Mustafi, Brian M Kevany, Xiaodong Bai, Marcin Golczak, Mark D Adams, Anthony Wynshaw-Boris, Krzysztof Palczewski. Hum Mol Genet 2016
Times Cited: 29







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



Times Cited
  Times     Co-cited
Similarity



Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
20

Comprehensive analysis of gene expression in human retina and supporting tissues.
Mingyao Li, Cheng Jia, Krista L Kazmierkiewicz, Anita S Bowman, Lifeng Tian, Yichuan Liu, Neel A Gupta, Harini V Gudiseva, Stephanie S Yee, Mijin Kim,[...]. Hum Mol Genet 2014
86
20

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
Evan Z Macosko, Anindita Basu, Rahul Satija, James Nemesh, Karthik Shekhar, Melissa Goldman, Itay Tirosh, Allison R Bialas, Nolan Kamitaki, Emily M Martersteck,[...]. Cell 2015
20

Molecular Anatomy of the Developing Human Retina.
Akina Hoshino, Rinki Ratnapriya, Matthew J Brooks, Vijender Chaitankar, Matthew S Wilken, Chi Zhang, Margaret R Starostik, Linn Gieser, Anna La Torre, Mario Nishio,[...]. Dev Cell 2017
125
20

Transcriptome Dynamics of Developing Photoreceptors in Three-Dimensional Retina Cultures Recapitulates Temporal Sequence of Human Cone and Rod Differentiation Revealing Cell Surface Markers and Gene Networks.
Rossukon Kaewkhaw, Koray Dogan Kaya, Matthew Brooks, Kohei Homma, Jizhong Zou, Vijender Chaitankar, Mahendra Rao, Anand Swaroop. Stem Cells 2015
106
17

The Dynamic Epigenetic Landscape of the Retina During Development, Reprogramming, and Tumorigenesis.
Issam Aldiri, Beisi Xu, Lu Wang, Xiang Chen, Daniel Hiler, Lyra Griffiths, Marc Valentine, Abbas Shirinifard, Suresh Thiagarajan, Andras Sablauer,[...]. Neuron 2017
133
17

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
17

Retinal transcriptome and eQTL analyses identify genes associated with age-related macular degeneration.
Rinki Ratnapriya, Olukayode A Sosina, Margaret R Starostik, Madeline Kwicklis, Rebecca J Kapphahn, Lars G Fritsche, Ashley Walton, Marios Arvanitis, Linn Gieser, Alexandra Pietraszkiewicz,[...]. Nat Genet 2019
102
17

Molecular characterization of foveal versus peripheral human retina by single-cell RNA sequencing.
A P Voigt, S S Whitmore, M J Flamme-Wiese, M J Riker, L A Wiley, B A Tucker, E M Stone, R F Mullins, T E Scheetz. Exp Eye Res 2019
60
17

Chemistry of the retinoid (visual) cycle.
Philip D Kiser, Marcin Golczak, Krzysztof Palczewski. Chem Rev 2014
199
13

Rpe65 is necessary for production of 11-cis-vitamin A in the retinal visual cycle.
T M Redmond, S Yu, E Lee, D Bok, D Hamasaki, N Chen, P Goletz, J X Ma, R K Crouch, K Pfeifer. Nat Genet 1998
751
13

Systems pharmacology identifies drug targets for Stargardt disease-associated retinal degeneration.
Yu Chen, Grazyna Palczewska, Debarshi Mustafi, Marcin Golczak, Zhiqian Dong, Osamu Sawada, Tadao Maeda, Akiko Maeda, Krzysztof Palczewski. J Clin Invest 2013
55
13

The major cell populations of the mouse retina.
C J Jeon, E Strettoi, R H Masland. J Neurosci 1998
941
13

Defective photoreceptor phagocytosis in a mouse model of enhanced S-cone syndrome causes progressive retinal degeneration.
Debarshi Mustafi, Brian M Kevany, Christel Genoud, Kiichiro Okano, Artur V Cideciyan, Alexander Sumaroka, Alejandro J Roman, Samuel G Jacobson, Andreas Engel, Mark D Adams,[...]. FASEB J 2011
71
13

Transcriptomic analysis across nasal, temporal, and macular regions of human neural retina and RPE/choroid by RNA-Seq.
S Scott Whitmore, Alex H Wagner, Adam P DeLuca, Arlene V Drack, Edwin M Stone, Budd A Tucker, Shemin Zeng, Terry A Braun, Robert F Mullins, Todd E Scheetz. Exp Eye Res 2014
73
13

An atlas of gene expression and gene co-regulation in the human retina.
Michele Pinelli, Annamaria Carissimo, Luisa Cutillo, Ching-Hung Lai, Margherita Mutarelli, Maria Nicoletta Moretti, Marwah Veer Singh, Marianthi Karali, Diego Carrella, Mariateresa Pizzo,[...]. Nucleic Acids Res 2016
44
13

Self-formation of optic cups and storable stratified neural retina from human ESCs.
Tokushige Nakano, Satoshi Ando, Nozomu Takata, Masako Kawada, Keiko Muguruma, Kiyotoshi Sekiguchi, Koichi Saito, Shigenobu Yonemura, Mototsugu Eiraku, Yoshiki Sasai. Cell Stem Cell 2012
851
13

Retinitis pigmentosa.
Dyonne T Hartong, Eliot L Berson, Thaddeus P Dryja. Lancet 2006
13

Generation of three-dimensional retinal tissue with functional photoreceptors from human iPSCs.
Xiufeng Zhong, Christian Gutierrez, Tian Xue, Christopher Hampton, M Natalia Vergara, Li-Hui Cao, Ann Peters, Tea Soon Park, Elias T Zambidis, Jason S Meyer,[...]. Nat Commun 2014
512
13

Isolation and Comparative Transcriptome Analysis of Human Fetal and iPSC-Derived Cone Photoreceptor Cells.
Emily Welby, Jorn Lakowski, Valentina Di Foggia, Dimitri Budinger, Anai Gonzalez-Cordero, Aaron T L Lun, Michael Epstein, Aara Patel, Elisa Cuevas, Kamil Kruczek,[...]. Stem Cell Reports 2017
62
13

Molecular Classification and Comparative Taxonomics of Foveal and Peripheral Cells in Primate Retina.
Yi-Rong Peng, Karthik Shekhar, Wenjun Yan, Dustin Herrmann, Anna Sappington, Gregory S Bryman, Tavé van Zyl, Michael Tri H Do, Aviv Regev, Joshua R Sanes. Cell 2019
184
13

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics.
Karthik Shekhar, Sylvain W Lapan, Irene E Whitney, Nicholas M Tran, Evan Z Macosko, Monika Kowalczyk, Xian Adiconis, Joshua Z Levin, James Nemesh, Melissa Goldman,[...]. Cell 2016
557
13

Chicken retinas contain a retinoid isomerase activity that catalyzes the direct conversion of all-trans-retinol to 11-cis-retinol.
Nathan L Mata, Alberto Ruiz, Roxana A Radu, Tam V Bui, Gabriel H Travis. Biochemistry 2005
72
10


Catalytic mechanism of a retinoid isomerase essential for vertebrate vision.
Philip D Kiser, Jianye Zhang, Mohsen Badiee, Qingjiang Li, Wuxian Shi, Xuewu Sui, Marcin Golczak, Gregory P Tochtrop, Krzysztof Palczewski. Nat Chem Biol 2015
53
10

CRALBP supports the mammalian retinal visual cycle and cone vision.
Yunlu Xue, Susan Q Shen, Jonathan Jui, Alan C Rupp, Leah C Byrne, Samer Hattar, John G Flannery, Joseph C Corbo, Vladimir J Kefalov. J Clin Invest 2015
76
10

Identification of DES1 as a vitamin A isomerase in Müller glial cells of the retina.
Joanna J Kaylor, Quan Yuan, Jeremy Cook, Shanta Sarfare, Jacob Makshanoff, Anh Miu, Anita Kim, Paul Kim, Samer Habib, C Nathaniel Roybal,[...]. Nat Chem Biol 2013
81
10

Mutation of key residues of RPE65 abolishes its enzymatic role as isomerohydrolase in the visual cycle.
T Michael Redmond, Eugenia Poliakov, Shirley Yu, Jen-Yue Tsai, Zhongjian Lu, Susan Gentleman. Proc Natl Acad Sci U S A 2005
315
10

THE ACTION OF LIGHT ON RHODOPSIN.
R Hubbard, A Kropf. Proc Natl Acad Sci U S A 1958
245
10


Retinopathy in mice induced by disrupted all-trans-retinal clearance.
Akiko Maeda, Tadao Maeda, Marcin Golczak, Krzysztof Palczewski. J Biol Chem 2008
213
10

Involvement of all-trans-retinal in acute light-induced retinopathy of mice.
Akiko Maeda, Tadao Maeda, Marcin Golczak, Steven Chou, Amar Desai, Charles L Hoppel, Shigemi Matsuyama, Krzysztof Palczewski. J Biol Chem 2009
179
10

Molecular mechanisms of light-induced photoreceptor apoptosis and neuroprotection for retinal degeneration.
Andreas Wenzel, Christian Grimm, Marijana Samardzija, Charlotte E Remé. Prog Retin Eye Res 2005
487
10

Human photoreceptor topography.
C A Curcio, K R Sloan, R E Kalina, A E Hendrickson. J Comp Neurol 1990
10

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Mark D Robinson, Davis J McCarthy, Gordon K Smyth. Bioinformatics 2010
10

Leber congenital amaurosis linked to AIPL1: a mouse model reveals destabilization of cGMP phosphodiesterase.
Visvanathan Ramamurthy, Gregory A Niemi, Thomas A Reh, James B Hurley. Proc Natl Acad Sci U S A 2004
128
10


Lecithin-retinol acyltransferase is essential for accumulation of all-trans-retinyl esters in the eye and in the liver.
Matthew L Batten, Yoshikazu Imanishi, Tadao Maeda, Daniel C Tu, Alexander R Moise, Darin Bronson, Daniel Possin, Russell N Van Gelder, Wolfgang Baehr, Krzysztof Palczewski. J Biol Chem 2004
276
10

Generation of a ciliary margin-like stem cell niche from self-organizing human retinal tissue.
Atsushi Kuwahara, Chikafumi Ozone, Tokushige Nakano, Koichi Saito, Mototsugu Eiraku, Yoshiki Sasai. Nat Commun 2015
171
10

Modeling early retinal development with human embryonic and induced pluripotent stem cells.
Jason S Meyer, Rebecca L Shearer, Elizabeth E Capowski, Lynda S Wright, Kyle A Wallace, Erin L McMillan, Su-Chun Zhang, David M Gamm. Proc Natl Acad Sci U S A 2009
417
10

Blood-derived human iPS cells generate optic vesicle-like structures with the capacity to form retinal laminae and develop synapses.
M Joseph Phillips, Kyle A Wallace, Sarah J Dickerson, Michael J Miller, Amelia D Verhoeven, Jessica M Martin, Lynda S Wright, Wei Shen, Elizabeth E Capowski, E Ferda Percin,[...]. Invest Ophthalmol Vis Sci 2012
151
10

Self-organizing optic-cup morphogenesis in three-dimensional culture.
Mototsugu Eiraku, Nozomu Takata, Hiroki Ishibashi, Masako Kawada, Eriko Sakakura, Satoru Okuda, Kiyotoshi Sekiguchi, Taiji Adachi, Yoshiki Sasai. Nature 2011
10

Optogenetic approaches to vision restoration.
M P Simunovic, W Shen, J Y Lin, D A Protti, L Lisowski, M C Gillies. Exp Eye Res 2019
55
10

Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina.
Anand Swaroop, Douglas Kim, Douglas Forrest. Nat Rev Neurosci 2010
353
10

Isolation of Human Photoreceptor Precursors via a Cell Surface Marker Panel from Stem Cell-Derived Retinal Organoids and Fetal Retinae.
Jörn Lakowski, Emily Welby, Dimitri Budinger, Fabiana Di Marco, Valentina Di Foggia, James W B Bainbridge, Kyle Wallace, David M Gamm, Robin R Ali, Jane C Sowden. Stem Cells 2018
53
10

Retinitis pigmentosa: genes and disease mechanisms.
Stefano Ferrari, Enzo Di Iorio, Vanessa Barbaro, Diego Ponzin, Francesco S Sorrentino, Francesco Parmeggiani. Curr Genomics 2011
326
10

Identifying core biological processes distinguishing human eye tissues with precise systems-level gene expression analyses and weighted correlation networks.
John M Bryan, Temesgen D Fufa, Kapil Bharti, Brian P Brooks, Robert B Hufnagel, David M McGaughey. Hum Mol Genet 2018
28
10

Thyroid hormone signaling specifies cone subtypes in human retinal organoids.
Kiara C Eldred, Sarah E Hadyniak, Katarzyna A Hussey, Boris Brenerman, Ping-Wu Zhang, Xitiz Chamling, Valentin M Sluch, Derek S Welsbie, Samer Hattar, James Taylor,[...]. Science 2018
105
10

Salmon provides fast and bias-aware quantification of transcript expression.
Rob Patro, Geet Duggal, Michael I Love, Rafael A Irizarry, Carl Kingsford. Nat Methods 2017
10


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.