Fetching the paper…
Reading the bibliography…
Standard ChIP-seq peak calling pipelines seek to differentiate biochemically reproducible signals of individual genomic elements from background noise.
Positional information and the spatial pattern of cellular differentiation
Wolpert, L · 1969
Earlier work this paper cites.
Maternal-zygotic gene interactions during formation of the dorsoventral pattern in drosophila embryos
Simpson, P · 1983
Earlier work this paper cites.
Pole region-dependent repression of the drosophila gap gene krüppel by maternal gene products
Gaul, U. & Jäckle, H · 1987
Earlier work this paper cites.
A non-radioactive in situ hybridization method for the localization of specific RNAs in drosophila embryos reveals translational control of the segmentation gene hunchback
Tautz, D. & Pfeifle, C · 1989
Earlier work this paper cites.
Dose-dependent regulation of pair-rule stripes by gap proteins and the initiation of segment polarity
Warrior, R. & Levine, M · 1990
Earlier work this paper cites.
Gene expression mediated by cis-acting sequences of the krüppel gene in response to the drosophila morphogens bicoid and hunchback
Hoch, M., Seifert, E. & Jäckle, H · 1991
Earlier work this paper cites.
Mutually repressive interactions between the gap genes giant and kruppel define middle body regions of the drosophila embryo
Kraut, R. & Levine, M · 1991
Earlier work this paper cites.
Dual role of the drosophila pattern gene tailless in embryonic termini
Steingrimsson, E., Pignoni, F., Liaw, G.-J. & Lengyel, J. A · 1991
Earlier work this paper cites.
Caudal is the hox gene that specifies the most posterior drosophile segment
Moreno, E. & Morata, G · 1999
Earlier work this paper cites.
Random forests
Breiman, L · 2001
Earlier work this paper cites.
Systematic determination of patterns of gene expression during drosophila embryogenesis
Tomancak, P. et al · 2002
Earlier work this paper cites.
Hotspots of transcription factor colocalization in the genome of drosophila melanogaster
Moorman, C. et al · 2006
Earlier work this paper cites.
Global analysis of patterns of gene expression during drosophila embryogenesis
Tomancak, P. et al · 2007
Earlier work this paper cites.
Design and analysis of chip-seq experiments for dna-binding proteins
Kharchenko, P. V., Tolstorukov, M. Y. & Park, P. J · 2008
Earlier work this paper cites.
Model-based analysis of chip-seq (macs)
Zhang, Y. et al · 2008
Earlier work this paper cites.
Transcription factors bind thousands of active and inactive regions in the drosophila blastoderm
Li, X.-y. et al · 2008
Earlier work this paper cites.
The zinc-finger protein zelda is a key activator of the early zygotic genome in drosophila
Liang, H.-L. et al · 2008
Earlier work this paper cites.
Developmental roles of 21 drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions
MacArthur, S. et al · 2009
Cited alongside, same era.
Unlocking the secrets of the genome
Celniker, S. E. et al · 2009
Cited alongside, same era.
Determination of gene expression patterns using high-throughput RNA in situ hybridization to whole-mount drosophila embryos
Weiszmann, R., Hammonds, A. S. & Celniker, S. E · 2009
Cited alongside, same era.
Identification of functional elements and regulatory circuits by drosophila modencode
Roy, S. et al · 2010
Cited alongside, same era.
Measuring reproducibility of high-throughput experiments
Li, Q., Brown, J. B., Huang, H. & Bickel, P. J · 2011
Cited alongside, same era.
The gap gene network
Genome-scale functional characterization of drosophila developmental enhancers in vivo
Kvon, E. Z. et al · 2014
Later among the works it cites.
High-resolution mapping of transcription factor binding sites on native chromatin
Kasinathan, S., Orsi, G. A., Zentner, G. E., Ahmad, K. & Henikoff, S · 2014
Later among the works it cites.
Molecular architecture of transcription factor hotspots in early adipogenesis
Siersbæk, R. et al · 2014
Later among the works it cites.
Random intersection trees
Shah, R. D. & Meinshausen, N · 2014
Later among the works it cites.
Integrative analysis of 111 reference human epigenomes
analysis coordination Kundaje Anshul 1 2 3 Meuleman Wouter 1 2 Ernst Jason 1 2 4 Bilenky Misha 5, R. E. C. I., program management Chadwick Lisa H. 53, S. & investigators Bernstein Bradley E. 2 26 42 Costello Joseph F. 14 Ecker Joseph R. 9 Hirst Martin 5 18 Meissner Alexander 2 6 Milosavljevic Aleksandar 7 Ren Bing 8 13 Stamatoyannopoulos John A. 10 Wang Ting 21 Kellis Manolis 1 2, P · 2015
Later among the works it cites.
alphaXiv searches the wider corpus for related work and actual follow-ups.
alphaXiv is searching for related work…
Jaeger, J · 2011
Cited alongside, same era.
The developmental transcriptome of drosophila melanogaster
Graveley, B. R. et al · 2011
Cited alongside, same era.
Architecture of the human regulatory network derived from encode data
Gerstein, M. B. et al · 2012
Cited alongside, same era.
Integrative annotation of chromatin elements from encode data
Hoffman, M. M. et al · 2012
Cited alongside, same era.
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium · 2012
Cited alongside, same era.
Chip-seq guidelines and practices of the encode and modencode consortia
Landt, S. G. et al · 2012
Cited alongside, same era.
DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in drosophila
Fisher, W. W. et al · 2012
Cited alongside, same era.
Oreganno 3.0: a community-driven resource for curated regulatory annotation
Lesurf, R. et al · 2016
Later among the works it cites.
Detecting gene-gene interactions using a permutation-based random forest method
Li, J., Malley, J. D., Andrew, A. S., Karagas, M. R. & Moore, J. H · 2016
Later among the works it cites.
Stability-driven nonnegative matrix factorization to interpret spatial gene expression and build local gene networks
Wu, S. et al · 2016
Later among the works it cites.
Genehancer: genome-wide integration of enhancers and target genes in genecards
Fishilevich, S. et al · 2017
Later among the works it cites.
Structure in neural population recordings: an expected byproduct of simpler phenomena?
Elsayed, G. F. & Cunningham, J. P · 2017
Later among the works it cites.
iterative random forests to discover predictive and stable high-order interactions
Basu, S., Kumbier, K., Brown, J. B. & Yu, B · 2018
Closest in time.
The modern resource: genome-wide binding profiles for hundreds of drosophila and caenorhabditis elegans transcription factors
Kudron, M. M. et al · 2018
Closest in time.
Digitizing omics profiles by divergence from a baseline
Dinalankara, W. et al · 2018
Closest in time.
Exploiting regulatory heterogeneity to systematically identify enhancers with high accuracy
Arbel, H. et al · 2019
Closest in time.
Cistrome data browser: expanded datasets and new tools for gene regulatory analysis
Zheng, R. et al · 2019
Closest in time.
Three principles of data science: predictability, computability, and stability (pcs)
Yu, B. & Kumbier, K · 2019
Closest in time.
Interpretable machine learning: definitions, methods, and applications
Murdoch, W. J., Singh, C., Kumbier, K., Abbasi-Asl, R. & Yu, B · 2019
Closest in time.