Ecosyste.ms: Papers

10.1534/g3.119.400373

isqg: A Binary Framework for<i>in Silico</i>Quantitative Genetics
Cited by: 1
Author(s): Fernando H. Toledo, Paulino Pérez‐Rodríguez, J. Crossa, Juan Burgueño
Software Mentions: 8
Published: over 5 years ago

10.1186/1752-0509-5-S2-S3

Pinpointing transcription factor binding sites from ChIP-seq data with SeqSite
Cited by: 7
Author(s): Xi Wang, Xuegong Zhang
Software Mentions: 6
Published: almost 14 years ago

10.7554/eLife.00675

Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis
Cited by: 344
Author(s): Katherine Noelani Chang, Shan Zhong, Matthew T. Weirauch, Gary C. Hon, Mattia Pelizzola, Hai Li, S. Huang, Robert J. Schmitz, Mark A. Urich, Dwight Kuo, Joseph R. Nery, Hong Qiao, Ally Yang, Abdullah Jamali, Huaming Chen, Trey Ideker, Bing Ren, Ziv Bar‐Joseph, Timothy R. Hughes, Joseph R. Ecker
Software Mentions: 5
Published: over 11 years ago

10.1371/journal.pone.0011471

Evaluation of Algorithm Performance in ChIP-Seq Peak Detection
Cited by: 263
Author(s): Elizabeth G. Wilbanks, Marc T. Facciotti
Software Mentions: 5
Published: over 14 years ago

10.1186/s12859-015-0834-3

MixChIP: a probabilistic method for cell type specific protein-DNA binding analysis
Cited by: 1
Author(s): Sini Rautio, Harri Lähdesmäki
Software Mentions: 4
Published: almost 9 years ago

10.1186/1471-2164-14-349

NEXT-peak: a normal-exponential two-peak model for peak-calling in ChIP-seq data
Cited by: 3
Author(s): Nak-Kyeong Kim, Rasika V Jayatillake, John L. Spouge
Software Mentions: 4
Published: almost 12 years ago

10.1099/mgen.0.000307

Quantitative real-time PCR assay for the rapid identification of the intrinsically multidrug-resistant bacterial pathogen Stenotrophomonas maltophilia
Cited by: 6
Author(s): Tamieka A. Fraser, Mikaela G. Bell, Patrick N A Harris, S. C. Bell, Haakon Bergh, Thuy‐Khanh Nguyen, Timothy J. Kidd, Graeme R. Nimmo, Derek S. Sarovich, Erin P. Price
Software Mentions: 3
Published: about 5 years ago

10.3897/mycokeys.81.67850

Unravelling unexplored diversity of cercosporoid fungi (Mycosphaerellaceae, Mycosphaerellales, Ascomycota) in tropical Africa
Cited by: 3
Author(s): Yalemwork Meswaet, Ralph D. Mangelsdorff, Nourou S. Yorou, Meike Piepenbring
Software Mentions: 2
Published: over 3 years ago

10.3897/zookeys.502.9011

The Tetramorium squaminode species group (Hymenoptera, Formicidae) in the Arabian Peninsula, with a new record from the Kingdom of Saudi Arabia and keys to Arabian species
Cited by: 1
Author(s): Mostafa R. Sharaf, Hathal M. Al Dhafer, Abdulrahman S. Aldawood
Software Mentions: 2
Published: over 9 years ago

10.3897/zookeys.636.9905

A preliminary account of the fly fauna in Jabal Shada al-A’la Nature Reserve, Saudi Arabia, with new records and biogeographical remarks (Diptera, Insecta)
Cited by: 15
Author(s): Magdi S. El-Hawagry, Mahmoud S. Abdel-Dayem, Ali A. Elgharbawy, Hathal M. Al Dhafer
Software Mentions: 2
Published: almost 8 years ago

10.3897/phytokeys.140.47738

Drymaria veliziae (Caryophyllaceae), a new species from the Andes of Cajamarca (North Peru)
Cited by: 1
Author(s): Daniel B. Montesinos‐Tubée, Carolina Tovar, Gustavo Iberico-Vela, Juan Montoya-Quino, Isidoro Sánchez-Vega
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pgen.1001392

A Large Gene Network in Immature Erythroid Cells Is Controlled by the Myeloid and B Cell Transcriptional Regulator PU.1
Cited by: 44
Author(s): Sandeep N. Wontakal, Xingyi Guo, Britta Will, Minyi Shi, Debasish Raha, Milind Mahajan, Sherman M. Weissman, M Snyder, Ulrich Steidl, Deyou Zheng, Arthur I. Skoultchi
Software Mentions: 2
Published: over 13 years ago

10.1186/s12862-019-1573-2

A mitogenomic phylogeny of chitons (Mollusca: Polyplacophora)
Cited by: 31
Author(s): Iker Irisarri, Juan E. Uribe, Douglas J. Eernisse, Rafael Zardoya
Software Mentions: 2
Published: almost 5 years ago

10.1186/1741-7007-8-56

Q&amp;A: ChIP-seq technologies and the study of gene regulation
Cited by: 41
Author(s): Edison T. Liu, Sebastian Pott, Mikael Huss
Software Mentions: 2
Published: over 14 years ago

10.1038/srep10469

Characterization of the Escherichia coli σS core regulon by Chromatin Immunoprecipitation-sequencing (ChIP-seq) analysis
Cited by: 44
Author(s): Clelia Peano, Johannes Wolf, Julien Demol, Elio Rossi, Luca Petiti, Gianluca De Bellis, Johannes Geiselmann, Thomas Egli, Stéphan Lacour, Paolo Landini
Software Mentions: 2
Published: over 9 years ago

10.1186/s12859-020-03621-3

Enhancer prediction in the human genome by probabilistic modelling of the chromatin feature patterns
Cited by: 5
Author(s): Maria Osmala, Harri Lähdesmäki
Software Mentions: 2
Published: over 4 years ago