A citation-based method for searching scientific literature

Shoichi Irie, Rikako Sanuki, Yuki Muranishi, Kimiko Kato, Taro Chaya, Takahisa Furukawa. Mol Cell Biol 2015
Times Cited: 25







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



Times Cited
  Times     Co-cited
Similarity


An essential role for RAX homeoprotein and NOTCH-HES signaling in Otx2 expression in embryonic retinal photoreceptor cell fate determination.
Yuki Muranishi, Koji Terada, Tatsuya Inoue, Kimiko Katoh, Toshinori Tsujii, Rikako Sanuki, Daisuke Kurokawa, Shinichi Aizawa, Yasuhiro Tamaki, Takahisa Furukawa. J Neurosci 2011
80
40

Otx2 homeobox gene controls retinal photoreceptor cell fate and pineal gland development.
Akihiro Nishida, Akiko Furukawa, Chieko Koike, Yasuo Tano, Shinichi Aizawa, Isao Matsuo, Takahisa Furukawa. Nat Neurosci 2003
404
40

Functional roles of Otx2 transcription factor in postnatal mouse retinal development.
Chieko Koike, Akihiro Nishida, Shinji Ueno, Hiromitsu Saito, Rikako Sanuki, Shigeru Sato, Akiko Furukawa, Shinichi Aizawa, Isao Matsuo, Noboru Suzuki,[...]. Mol Cell Biol 2007
129
32


Nrl is required for rod photoreceptor development.
A J Mears, M Kondo, P K Swain, Y Takada, R A Bush, T L Saunders, P A Sieving, A Swaroop. Nat Genet 2001
660
28

CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors.
Joseph C Corbo, Karen A Lawrence, Marcus Karlstetter, Connie A Myers, Musa Abdelaziz, William Dirkes, Karin Weigelt, Martin Seifert, Vladimir Benes, Lars G Fritsche,[...]. Genome Res 2010
129
28

Crx, a novel Otx-like paired-homeodomain protein, binds to and transactivates photoreceptor cell-specific genes.
S Chen, Q L Wang, Z Nie, H Sun, G Lennon, N G Copeland, D J Gilbert, N A Jenkins, D J Zack. Neuron 1997
538
24

The major cell populations of the mouse retina.
C J Jeon, E Strettoi, R H Masland. J Neurosci 1998
896
20

The cis-regulatory logic of the mammalian photoreceptor transcriptional network.
Timothy H-C Hsiau, Claudiu Diaconu, Connie A Myers, Jongwoo Lee, Constance L Cepko, Joseph C Corbo. PLoS One 2007
108
20



The Rx homeobox gene is essential for vertebrate eye development.
P H Mathers, A Grinberg, K A Mahon, M Jamrich. Nature 1997
534
20

Analysis of transcriptional regulatory pathways of photoreceptor genes by expression profiling of the Otx2-deficient retina.
Yoshihiro Omori, Kimiko Katoh, Shigeru Sato, Yuki Muranishi, Taro Chaya, Akishi Onishi, Takashi Minami, Takashi Fujikado, Takahisa Furukawa. PLoS One 2011
49
20

Both PCE-1/RX and OTX/CRX interactions are necessary for photoreceptor-specific gene expression.
A Kimura, D Singh, E F Wawrousek, M Kikuchi, M Nakamura, T Shinohara. J Biol Chem 2000
114
20


ICK is essential for cell type-specific ciliogenesis and the regulation of ciliary transport.
Taro Chaya, Yoshihiro Omori, Ryusuke Kuwahara, Takahisa Furukawa. EMBO J 2014
60
20

Dkk3-Cre BAC transgenic mouse line: a tool for highly efficient gene deletion in retinal progenitor cells.
Shigeru Sato, Tatsuya Inoue, Koji Terada, Isao Matsuo, Shinichi Aizawa, Yasuo Tano, Takashi Fujikado, Takahisa Furukawa. Genesis 2007
66
16

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
16

MEF2D drives photoreceptor development through a genome-wide competition for tissue-specific enhancers.
Milena M Andzelm, Timothy J Cherry, David A Harmin, Annabel C Boeke, Charlotte Lee, Martin Hemberg, Basil Pawlyk, Athar N Malik, Steven W Flavell, Michael A Sandberg,[...]. Neuron 2015
43
16

Retinopathy and attenuated circadian entrainment in Crx-deficient mice.
T Furukawa, E M Morrow, T Li, F C Davis, C L Cepko. Nat Genet 1999
408
16

Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis.
Hong Hao, Douglas S Kim, Bernward Klocke, Kory R Johnson, Kairong Cui, Norimoto Gotoh, Chongzhi Zang, Janina Gregorski, Linn Gieser, Weiqun Peng,[...]. PLoS Genet 2012
73
16


Regulation of photoreceptor gene expression by the retinal homeobox (Rx) gene product.
Yi Pan, Reyna I Martinez-De Luna, Chih-Hong Lou, Srivamsi Nekkalapudi, Lisa E Kelly, Amy K Sater, Heithem M El-Hodiri. Dev Biol 2010
28
16

Cell Type-Specific Epigenomic Analysis Reveals a Uniquely Closed Chromatin Architecture in Mouse Rod Photoreceptors.
Andrew E O Hughes, Jennifer M Enright, Connie A Myers, Susan Q Shen, Joseph C Corbo. Sci Rep 2017
43
16

Retinoid-related orphan nuclear receptor RORbeta is an early-acting factor in rod photoreceptor development.
Li Jia, Edwin C T Oh, Lily Ng, Maya Srinivas, Matthew Brooks, Anand Swaroop, Douglas Forrest. Proc Natl Acad Sci U S A 2009
92
16

Blimp1 suppresses Chx10 expression in differentiating retinal photoreceptor precursors to ensure proper photoreceptor development.
Kimiko Katoh, Yoshihiro Omori, Akishi Onishi, Shigeru Sato, Mineo Kondo, Takahisa Furukawa. J Neurosci 2010
77
16


Prdm13 regulates subtype specification of retinal amacrine interneurons and modulates visual sensitivity.
Satoshi Watanabe, Rikako Sanuki, Yuko Sugita, Wataru Imai, Ryoji Yamazaki, Takashi Kozuka, Mizuki Ohsuga, Takahisa Furukawa. J Neurosci 2015
31
16

Electroporation and RNA interference in the rodent retina in vivo and in vitro.
Takahiko Matsuda, Constance L Cepko. Proc Natl Acad Sci U S A 2004
723
16

Lhx2 balances progenitor maintenance with neurogenic output and promotes competence state progression in the developing retina.
Patrick J Gordon, Sanghee Yun, Anna M Clark, Edwin S Monuki, L Charles Murtaugh, Edward M Levine. J Neurosci 2013
41
12

Lhx2 Is an Essential Factor for Retinal Gliogenesis and Notch Signaling.
Jimmy de Melo, Cristina Zibetti, Brian S Clark, Woochang Hwang, Ana L Miranda-Angulo, Jiang Qian, Seth Blackshaw. J Neurosci 2016
38
12

Photoreceptor cell fate specification in vertebrates.
Joseph A Brzezinski, Thomas A Reh. Development 2015
79
12

Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup.
Trevor D Lamb, Shaun P Collin, Edward N Pugh. Nat Rev Neurosci 2007
237
12

Transcriptional code and disease map for adult retinal cell types.
Sandra Siegert, Erik Cabuy, Brigitte Gross Scherf, Hubertus Kohler, Satchidananda Panda, Yun-Zheng Le, Hans Jörg Fehling, Dimos Gaidatzis, Michael B Stadler, Botond Roska. Nat Neurosci 2012
178
12

Complex effects of nucleotide variants in a mammalian cis-regulatory element.
Jamie C Kwasnieski, Ilaria Mogno, Connie A Myers, Joseph C Corbo, Barak A Cohen. Proc Natl Acad Sci U S A 2012
144
12

Massively parallel in vivo enhancer assay reveals that highly local features determine the cis-regulatory function of ChIP-seq peaks.
Michael A White, Connie A Myers, Joseph C Corbo, Barak A Cohen. Proc Natl Acad Sci U S A 2013
121
12

The murine cone photoreceptor: a single cone type expresses both S and M opsins with retinal spatial patterning.
M L Applebury, M P Antoch, L C Baxter, L L Chun, J D Falk, F Farhangfar, K Kage, M G Krzystolik, L A Lyass, J T Robbins. Neuron 2000
395
12

DNase I hypersensitivity analysis of the mouse brain and retina identifies region-specific regulatory elements.
Matthew S Wilken, Joseph A Brzezinski, Anna La Torre, Kyle Siebenthall, Robert Thurman, Peter Sabo, Richard S Sandstrom, Jeff Vierstra, Theresa K Canfield, R Scott Hansen,[...]. Epigenetics Chromatin 2015
39
12

Microarray analysis of the transcriptional network controlled by the photoreceptor homeobox gene Crx.
F J Livesey, T Furukawa, M A Steffen, G M Church, C L Cepko. Curr Biol 2000
217
12

HTSeq--a Python framework to work with high-throughput sequencing data.
Simon Anders, Paul Theodor Pyl, Wolfgang Huber. Bioinformatics 2015
12

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
12

Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina.
Anand Swaroop, Douglas Kim, Douglas Forrest. Nat Rev Neurosci 2010
329
12


Single-base pair differences in a shared motif determine differential Rhodopsin expression.
Jens Rister, Ansa Razzaq, Pamela Boodram, Nisha Desai, Cleopatra Tsanis, Hongtao Chen, David Jukam, Claude Desplan. Science 2015
24
12

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
12

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
12

Epigenomic landscapes of retinal rods and cones.
Alisa Mo, Chongyuan Luo, Fred P Davis, Eran A Mukamel, Gilbert L Henry, Joseph R Nery, Mark A Urich, Serge Picard, Ryan Lister, Sean R Eddy,[...]. Elife 2016
73
12

A typology of photoreceptor gene expression patterns in the mouse.
Joseph C Corbo, Connie A Myers, Karen A Lawrence, Ashutosh P Jadhav, Constance L Cepko. Proc Natl Acad Sci U S A 2007
77
12




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.