A citation-based method for searching scientific literature

Hong Hao, Douglas S Kim, Bernward Klocke, Kory R Johnson, Kairong Cui, Norimoto Gotoh, Chongzhi Zang, Janina Gregorski, Linn Gieser, Weiqun Peng, Yang Fann, Martin Seifert, Keji Zhao, Anand Swaroop. PLoS Genet 2012
Times Cited: 75







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



Times Cited
  Times     Co-cited
Similarity


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
135
62

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
676
61

Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina.
Anand Swaroop, Douglas Kim, Douglas Forrest. Nat Rev Neurosci 2010
344
46

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
415
36

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
416
33


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
550
30

Transformation of cone precursors to functional rod photoreceptors by bZIP transcription factor NRL.
Edwin C T Oh, Naheed Khan, Elena Novelli, Hemant Khanna, Enrica Strettoi, Anand Swaroop. Proc Natl Acad Sci U S A 2007
113
28

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
109
28



Rod differentiation factor NRL activates the expression of nuclear receptor NR2E3 to suppress the development of cone photoreceptors.
Edwin C T Oh, Hong Cheng, Hong Hao, Lin Jia, Naheed Wali Khan, Anand Swaroop. Brain Res 2008
87
24

Two transcription factors can direct three photoreceptor outcomes from rod precursor cells in mouse retinal development.
Lily Ng, Ailing Lu, Alok Swaroop, David S Sharlin, Anand Swaroop, Douglas Forrest. J Neurosci 2011
57
29

Next-generation sequencing facilitates quantitative analysis of wild-type and Nrl(-/-) retinal transcriptomes.
Matthew J Brooks, Harsha K Rajasimha, Jerome E Roger, Anand Swaroop. Mol Vis 2011
85
22

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
95
21

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
184
21


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
77
21

Cone-rod dystrophy due to mutations in a novel photoreceptor-specific homeobox gene (CRX) essential for maintenance of the photoreceptor.
C L Freund, C Y Gregory-Evans, T Furukawa, M Papaioannou, J Looser, L Ploder, J Bellingham, D Ng, J A Herbrick, A Duncan,[...]. Cell 1997
438
20

Expression profiling of the developing and mature Nrl-/- mouse retina: identification of retinal disease candidates and transcriptional regulatory targets of Nrl.
Shigeo Yoshida, Alan J Mears, James S Friedman, Todd Carter, Shirley He, Edwin Oh, Yuezhou Jing, Rafal Farjo, Gilles Fleury, Carrolee Barlow,[...]. Hum Mol Genet 2004
132
20

Targeting of GFP to newborn rods by Nrl promoter and temporal expression profiling of flow-sorted photoreceptors.
Masayuki Akimoto, Hong Cheng, Dongxiao Zhu, Joseph A Brzezinski, Ritu Khanna, Elena Filippova, Edwin C T Oh, Yuezhou Jing, Jose-Luis Linares, Matthew Brooks,[...]. Proc Natl Acad Sci U S A 2006
238
20

OTX2 loss causes rod differentiation defect in CRX-associated congenital blindness.
Jerome E Roger, Avinash Hiriyanna, Norimoto Gotoh, Hong Hao, Debbie F Cheng, Rinki Ratnapriya, Marie-Audrey I Kautzmann, Bo Chang, Anand Swaroop. J Clin Invest 2014
42
35


The transcription factor neural retina leucine zipper (NRL) controls photoreceptor-specific expression of myocyte enhancer factor Mef2c from an alternative promoter.
Hong Hao, Padmaja Tummala, Eduardo Guzman, Raghuveer S Mali, Janina Gregorski, Anand Swaroop, Kenneth P Mitton. J Biol Chem 2011
31
45

Otx2 ChIP-seq reveals unique and redundant functions in the mature mouse retina.
Alexander Samuel, Michael Housset, Bruno Fant, Thomas Lamonerie. PLoS One 2014
37
37

Recruitment of Rod Photoreceptors from Short-Wavelength-Sensitive Cones during the Evolution of Nocturnal Vision in Mammals.
Jung-Woong Kim, Hyun-Jin Yang, Adam Phillip Oel, Matthew John Brooks, Li Jia, David Charles Plachetzki, Wei Li, William Ted Allison, Anand Swaroop. Dev Cell 2016
71
19

Photoreceptor degeneration: genetic and mechanistic dissection of a complex trait.
Alan F Wright, Christina F Chakarova, Mai M Abd El-Aziz, Shomi S Bhattacharya. Nat Rev Genet 2010
404
17


A thyroid hormone receptor that is required for the development of green cone photoreceptors.
L Ng, J B Hurley, B Dierks, M Srinivas, C Saltó, B Vennström, T A Reh, D Forrest. Nat Genet 2001
392
16

Transcriptional regulation of neural retina leucine zipper (Nrl), a photoreceptor cell fate determinant.
Cynthia L Montana, Karen A Lawrence, Natecia L Williams, Nicholas M Tran, Guang-Hua Peng, Shiming Chen, Joseph C Corbo. J Biol Chem 2011
33
36


The major cell populations of the mouse retina.
C J Jeon, E Strettoi, R H Masland. J Neurosci 1998
921
16

Mutation of a nuclear receptor gene, NR2E3, causes enhanced S cone syndrome, a disorder of retinal cell fate.
N B Haider, S G Jacobson, A V Cideciyan, R Swiderski, L M Streb, C Searby, G Beck, R Hockey, D B Hanna, S Gorman,[...]. Nat Genet 2000
351
14

Photoreceptor-specific nuclear receptor NR2E3 functions as a transcriptional activator in rod photoreceptors.
Hong Cheng, Hemant Khanna, Edwin C T Oh, David Hicks, Kenneth P Mitton, Anand Swaroop. Hum Mol Genet 2004
186
14

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
737
14


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
14

Retinal transcriptome profiling by directional next-generation sequencing using 100 ng of total RNA.
Matthew J Brooks, Harsha Karur Rajasimha, Anand Swaroop. Methods Mol Biol 2012
20
55



NRL-Regulated Transcriptome Dynamics of Developing Rod Photoreceptors.
Jung-Woong Kim, Hyun-Jin Yang, Matthew John Brooks, Lina Zelinger, Gökhan Karakülah, Norimoto Gotoh, Alexis Boleda, Linn Gieser, Felipe Giuste, Dustin Thad Whitaker,[...]. Cell Rep 2016
64
17

Sumoylation of bZIP transcription factor NRL modulates target gene expression during photoreceptor differentiation.
Jerome E Roger, Jacob Nellissery, Douglas S Kim, Anand Swaroop. J Biol Chem 2010
36
27

Combinatorial regulation of photoreceptor differentiation factor, neural retina leucine zipper gene NRL, revealed by in vivo promoter analysis.
Marie-Audrey I Kautzmann, Douglas S Kim, Marie-Paule Felder-Schmittbuhl, Anand Swaroop. J Biol Chem 2011
27
37

Stage and gene specific signatures defined by histones H3K4me2 and H3K27me3 accompany mammalian retina maturation in vivo.
Evgenya Y Popova, Xuming Xu, Andrew T DeWan, Anna C Salzberg, Arthur Berg, Josephine Hoh, Samuel S Zhang, Colin J Barnstable. PLoS One 2012
41
24

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
13

In vivo function of the orphan nuclear receptor NR2E3 in establishing photoreceptor identity during mammalian retinal development.
Hong Cheng, Tomas S Aleman, Artur V Cideciyan, Ritu Khanna, Samuel G Jacobson, Anand Swaroop. Hum Mol Genet 2006
85
13

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
125
13

From progenitors to differentiated cells in the vertebrate retina.
Michalis Agathocleous, William A Harris. Annu Rev Cell Dev Biol 2009
175
12

The orphan nuclear hormone receptor ERRbeta controls rod photoreceptor survival.
Akishi Onishi, Guang-Hua Peng, Erin M Poth, Daniel A Lee, Jichao Chen, Uel Alexis, Jimmy de Melo, Shiming Chen, Seth Blackshaw. Proc Natl Acad Sci U S A 2010
53
16



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.