A. , A. To, I. , A. , K. et al., AP and IVS are supported in part by the Institute for Critical Technology and Applied Science and the NSF award 0850198. RMW is supported by Marie Curie International Outgoing Fellowship PIOF-GA-2011-303312. XC is supported by GDUPS This work was also supported in part by NSF grant CNS-0960081 and the HokieSpeed and BlueRidge supercomputers at Virginia Tech, YS thanks the Department of Biotechnology, Government of India for the financial support. Drew Cocrane provided assistance with in situ hybridization, 2009.

R. Feachem, A. Phillips, J. Hwang, C. Cotter, B. Wielgosz et al., Shrinking the malaria map: progress and prospects, The Lancet, vol.376, issue.9752, pp.1566-1578, 2010.
DOI : 10.1016/S0140-6736(10)61270-6

M. White, L. Conteh, R. Cibulskis, and A. Ghani, Costs and cost-effectiveness of malaria control interventions - a systematic review, Malaria Journal, vol.10, issue.1, p.337, 2011.
DOI : 10.1093/heapol/czh013

R. Holt, G. Subramanian, A. Halpern, G. Sutton, R. Charlab et al., The Genome Sequence of the Malaria Mosquito Anopheles gambiae, Science, vol.298, issue.5591, pp.129-149, 2002.
DOI : 10.1126/science.1076181

J. Rafinejad, H. Vatandoost, F. Nikpoor, M. Abai, M. Shaeghi et al., Effect of washing on the bioefficacy of insecticide-treated nets (ITNs) and long-lasting insecticidal nets (LLINs) against main malaria vector Anopheles stephensi by three bioassay methods, J Vector Borne Dis, vol.45, pp.143-150, 2008.

V. Sharma, Current scenario of malaria in India, Parassitologia, vol.41, pp.349-353, 1999.

M. Faulde, L. Rueda, and B. Khaireh, First record of the Asian malaria vector Anopheles stephensi and its possible role in the resurgence of malaria in Djibouti, Horn of Africa, Acta Tropica, vol.139, pp.39-43, 2014.
DOI : 10.1016/j.actatropica.2014.06.016

S. Gakhar, R. Sharma, and A. Sharma, Population genetic structure of malaria vector Anopheles stephensi Liston (Diptera: Culicidae), Indian J Exp Biol, vol.51, pp.273-279, 2013.

C. Murray, L. Rosenfeld, S. Lim, K. Andrews, K. Foreman et al., Global malaria mortality between 1980 and 2010: a systematic analysis, The Lancet, vol.379, issue.9814, pp.413-431, 2012.
DOI : 10.1016/S0140-6736(12)60034-8

P. Alonso, G. Brown, M. Arevalo-herrera, F. Binka, C. Chitnis et al., A Research Agenda to Underpin Malaria Eradication, PLoS Medicine, vol.8, issue.1, p.1000406, 2011.
DOI : 10.1371/journal.pmed.1000406.s002
URL : https://hal.archives-ouvertes.fr/halshs-00681191

T. Nolan, T. Bower, A. Brown, and A. Crisanti, piggyBac-mediated Germline Transformation of the Malaria Mosquito Anopheles stephensi Using the Red Fluorescent Protein dsRED as a Selectable Marker, Journal of Biological Chemistry, vol.277, issue.11, pp.8759-8762, 2002.
DOI : 10.1074/jbc.C100766200

O. Brochta, D. Alford, R. Pilitt, K. Aluvihare, C. Harrell et al., piggyBac transposon remobilization and enhancer detection in Anopheles mosquitoes, Proceedings of the National Academy of Sciences, vol.108, issue.39, pp.16339-16344, 2011.
DOI : 10.1073/pnas.1110628108

A. Isaacs, N. Jasinskiene, M. Tretiakov, I. Thiery, A. Zettor et al., Transgenic Anopheles stephensi coexpressing single-chain antibodies resist Plasmodium falciparum development, Proceedings of the National Academy of Sciences, vol.109, issue.28, pp.1922-1930
DOI : 10.1073/pnas.1207738109
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3396534

A. Smidler, O. Terenzi, J. Soichot, E. Levashina, and E. Marois, Targeted Mutagenesis in the Malaria Mosquito Using TALE Nucleases, PLoS ONE, vol.104, issue.8, p.74511, 2013.
DOI : 10.1371/journal.pone.0074511.s001

A. Brown, L. Bugeon, A. Crisanti, and F. Catteruccia, Stable and heritable gene silencing in the malaria vector Anopheles stephensi, Nucleic Acids Research, vol.31, issue.15, pp.31-85, 2003.
DOI : 10.1093/nar/gng085

G. Bian, D. Joshi, Y. Dong, P. Lu, G. Zhou et al., Wolbachia Invades Anopheles stephensi Populations and Induces Refractoriness to Plasmodium Infection, Science, vol.340, issue.6133, pp.748-751, 2013.
DOI : 10.1126/science.1236192

Y. Dong, S. Das, C. Cirimotich, J. Souza-neto, K. Mclean et al., Engineered Anopheles Immunity to Plasmodium Infection, PLoS Pathogens, vol.4, issue.12, p.1002458, 2011.
DOI : 10.1371/journal.ppat.1002458.s009

L. Garver, Y. Dong, and G. Dimopoulos, Caspar Controls Resistance to Plasmodium falciparum in Diverse Anopheline Species, PLoS Pathogens, vol.3, issue.3, p.1000335, 2009.
DOI : 10.1371/journal.ppat.1000335.s006

S. Luckhart, C. Giulivi, A. Drexler, Y. Antonova-koch, D. Sakaguchi et al., Sustained Activation of Akt Elicits Mitochondrial Dysfunction to Block Plasmodium falciparum Infection in the Mosquito Host, PLoS Pathogens, vol.121, issue.(4), p.1003180, 2013.
DOI : 10.1371/journal.ppat.1003180.s005

C. Mitri, I. Thiery, C. Bourgouin, and R. Paul, Density-dependent impact of the human malaria parasite Plasmodium falciparum gametocyte sex ratio on mosquito infection rates, Proceedings of the Royal Society B: Biological Sciences, vol.88, issue.2, pp.3721-3726, 2009.
DOI : 10.2307/3285571

N. Pakpour, V. Corby-harris, G. Green, H. Smithers, K. Cheung et al., Ingested Human Insulin Inhibits the Mosquito NF-??B-Dependent Immune Response to Plasmodium falciparum, Infection and Immunity, vol.80, issue.6, pp.2141-2149, 2012.
DOI : 10.1128/IAI.00024-12

K. Rai, W. Black, and . Iv, Mosquito Genomes: Structure, Organization, and Evolution, Adv Genet, vol.41, pp.1-33, 1999.
DOI : 10.1016/S0065-2660(08)60149-2

M. Sharakhova, A. Xia, S. Leman, and I. Sharakhov, Arm-specific dynamics of chromosome evolution in malaria mosquitoes, BMC Evolutionary Biology, vol.19, issue.1, p.91, 2011.
DOI : 10.1007/978-1-4757-3071-5

O. Marinotti, G. Cerqueira, L. De-almeida, M. Ferro, E. Loreto et al., The Genome of Anopheles darlingi, the main neotropical malaria vector, Nucleic Acids Research, vol.41, issue.15, pp.7387-7400, 2013.
DOI : 10.1093/nar/gkt484

D. Zhou, D. Zhang, G. Ding, L. Shi, Q. Hou et al., Genome sequence of Anopheles sinensis provides insight into genetics basis of mosquito competence for malaria parasites, BMC Genomics, vol.15, issue.1, p.42, 2014.
DOI : 10.1006/jmbi.2000.4042

. Vectorbase, Anopheles stephensi Indian strain. [https://www.vectorbase. org/Anopheles_stephensiI

F. Criscione, Y. Qi, R. Saunders, B. Hall, and Z. Tu, encodes a small lysine-rich protein and is transcribed at the onset of embryonic development, Insect Molecular Biology, vol.109, issue.4, pp.433-441, 2013.
DOI : 10.1111/imb.12034

M. Göpfert and D. Robert, Active auditory mechanics in mosquitoes, Proceedings of the Royal Society B: Biological Sciences, vol.268, issue.1465, pp.333-339, 2001.
DOI : 10.1098/rspb.2000.1376

G. Gibson, B. Warren, and I. Russell, Humming in Tune: Sex and Species Recognition by Mosquitoes on the Wing, Journal of the Association for Research in Otolaryngology, vol.63, issue.4, pp.527-540, 2010.
DOI : 10.1007/s10162-010-0243-2

Z. Xi, J. Ramirez, and G. Dimopoulos, The Aedes aegypti Toll Pathway Controls Dengue Virus Infection, PLoS Pathogens, vol.19, issue.7, p.1000098, 2008.
DOI : 10.1371/journal.ppat.1000098.s008

I. Price, B. Ermentrout, R. Zamora, B. Wang, N. Azhar et al., In vivo, in vitro, and in silico studies suggest a conserved immune module that regulates malaria parasite transmission from mammals to mosquitoes, Journal of Theoretical Biology, vol.334, pp.173-186, 2013.
DOI : 10.1016/j.jtbi.2013.05.028

A. Horton, B. Wang, L. Camp, M. Price, A. Arshi et al., The mitogen-activated protein kinome from Anopheles gambiae: identification, phylogeny and functional characterization of the ERK, JNK and p38 MAP kinases, BMC Genomics, vol.32, issue.9, p.574, 2011.
DOI : 10.3109/08923970903369867

D. Baker, T. Nolan, B. Fischer, A. Pinder, A. Crisanti et al., A comprehensive gene expression atlas of sex-and tissue-specificity in the malaria vector. Anopheles gambiae BMC Genomics, p.296, 2011.

J. Choi, J. Chen, S. Schreiber, and J. Clardy, Structure of the FKBP12-Rapamycin Complex Interacting with Binding Domain of Human FRAP, Science, vol.273, issue.5272, pp.239-242, 1996.
DOI : 10.1126/science.273.5272.239

M. Laplante and D. Sabatini, mTOR Signaling in Growth Control and Disease, Cell, vol.149, issue.2, pp.274-293
DOI : 10.1016/j.cell.2012.03.017

S. Grewal, Insulin/TOR signaling in growth and homeostasis: A view from the fly world, The International Journal of Biochemistry & Cell Biology, vol.41, issue.5, pp.1006-1010, 2009.
DOI : 10.1016/j.biocel.2008.10.010

D. Arsic and P. Guerin, Nutrient content of diet affects the signaling activity of the insulin/target of rapamycin/p70 S6 kinase pathway in the African malaria mosquito Anopheles gambiae, Journal of Insect Physiology, vol.54, issue.8, pp.1226-1235, 2008.
DOI : 10.1016/j.jinsphys.2008.06.003

K. Anderson, L. Bokla, and C. Nüsslein-volhard, Establishment of dorsal-ventral polarity in the drosophila embryo: The induction of polarity by the Toll gene product, Cell, vol.42, issue.3, pp.791-798, 1985.
DOI : 10.1016/0092-8674(85)90275-2

J. Valenzuela, I. Francischetti, V. Pham, M. Garfield, and J. Ribeiro, Exploring the salivary gland transcriptome and proteome of the Anopheles stephensi mosquito, Insect Biochemistry and Molecular Biology, vol.33, issue.7, pp.717-732, 2003.
DOI : 10.1016/S0965-1748(03)00067-5

B. Arca, F. Lombardo, J. Valenzuela, I. Francischetti, O. Marinotti et al., An updated catalogue of salivary gland transcripts in the adult female mosquito, Anopheles gambiae, Journal of Experimental Biology, vol.208, issue.20, pp.3971-3986, 2005.
DOI : 10.1242/jeb.01849

J. Ribeiro, B. Mans, and B. Arcà, An insight into the sialome of blood-feeding Nematocera, Insect Biochemistry and Molecular Biology, vol.40, issue.11, pp.767-784, 2010.
DOI : 10.1016/j.ibmb.2010.08.002

S. Hunter, P. Jones, A. Mitchell, R. Apweiler, T. Attwood et al., InterPro in 2011: new developments in the family and domain prediction database, Nucleic Acids Research, vol.40, issue.D1, pp.306-312, 2012.
DOI : 10.1093/nar/gkr948
URL : https://hal.archives-ouvertes.fr/hal-00697960

A. Hoffmann, C. Sgrò, and A. Weeks, Chromosomal inversion polymorphisms and adaptation, Trends in Ecology & Evolution, vol.19, issue.9, pp.482-488, 2004.
DOI : 10.1016/j.tree.2004.06.013

A. Xia, M. Sharakhova, S. Leman, Z. Tu, J. Bailey et al., Genome Landscape and Evolutionary Plasticity of Chromosomes in Malaria Mosquitoes, PLoS ONE, vol.20, issue.5, p.10592, 2010.
DOI : 10.1371/journal.pone.0010592.s009

E. Baricheva, M. Berrios, S. Bogachev, I. Borisevich, E. Lapik et al., DNA from Drosophila melanogaster ??-heterochromatin binds specifically to nuclear lamins in vitro and the nuclear envelope in situ, Gene, vol.171, issue.2, pp.171-176, 1996.
DOI : 10.1016/0378-1119(96)00002-9

T. Dechat, K. Pfleghaar, K. Sengupta, T. Shimi, D. Shumaker et al., Nuclear lamins: major factors in the structural organization and function of the nucleus and chromatin, Genes & Development, vol.22, issue.7, pp.832-853, 2008.
DOI : 10.1101/gad.1652708

R. Baker and R. Sakai, Triploids and male determination in the mosquito, Anopheles culicifacies, Journal of Heredity, vol.70, issue.5, pp.345-346, 1979.
DOI : 10.1093/oxfordjournals.jhered.a109271

A. Hall, Y. Qi, V. Timoshevskiy, M. Sharakhova, I. Sharakhov et al., Six novel Y chromosome genes in Anopheles mosquitoes discovered by independently sequencing males and females, BMC Genomics, vol.14, issue.1, p.273, 2013.
DOI : 10.1093/bioinformatics/btg180

C. Chin, D. Alexander, P. Marks, A. Klammer, J. Drake et al., Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data, Nature Methods, vol.472, issue.6, pp.563-569, 2013.
DOI : 10.1038/nmeth.2474

G. Tesler, GRIMM: genome rearrangements web server, Bioinformatics, vol.18, issue.3, pp.492-493, 2002.
DOI : 10.1093/bioinformatics/18.3.492
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.620.7652

V. Timoshevskiy, N. Kinney, B. De-bruyn, C. Mao, Z. Tu et al., Genomic composition and evolution of Aedes aegypti chromosomes revealed by the analysis of physically mapped supercontigs, BMC Biology, vol.12, issue.1, p.27, 2014.
DOI : 10.1093/nar/27.2.573

I. Sharakhov, A. Serazin, O. Grushko, A. Dana, N. Lobo et al., Inversions and Gene Order Shuffling in Anopheles gambiae and A. funestus, Science, vol.298, issue.5591, pp.182-185, 2002.
DOI : 10.1126/science.1076803

S. Schaeffer, A. Bhutkar, B. Mcallister, M. Matsuda, L. Matzkin et al., Polytene Chromosomal Maps of 11 Drosophila Species: The Order of Genomic Scaffolds Inferred From Genetic and Physical Maps, Genetics, vol.179, issue.3, pp.1601-1655, 2008.
DOI : 10.1534/genetics.107.086074

J. Ranz, D. Maurin, Y. Chan, V. Grotthuss, M. Hillier et al., Principles of Genome Evolution in the Drosophila melanogaster Species Group, PLoS Biology, vol.113, issue.1987, pp.1366-1381, 2007.
DOI : 10.1371/journal.pbio.0050152.st008

J. Ranz, F. Casals, and A. Ruiz, How Malleable is the Eukaryotic Genome? Extreme Rate of Chromosomal Rearrangement in the Genus Drosophila, Genome Research, vol.11, issue.2
DOI : 10.1101/gr.162901

Q. Peng, P. Pevzner, and G. Tesler, The Fragile Breakage versus Random Breakage Models of Chromosome Evolution, PLoS Computational Biology, vol.65, issue.2, p.14, 2006.
DOI : 10.1371/journal.pcbi.0020014.sg002

M. Chaisson, B. Raphael, and P. Pevzner, Microinversions in mammalian evolution, Proceedings of the National Academy of Sciences, vol.103, issue.52, pp.19824-19829, 2006.
DOI : 10.1073/pnas.0603984103

G. Bourque and P. Pevzner, Genome-scale evolution: reconstructing gene orders in the ancestral species, Genome Res, vol.12, pp.26-36, 2002.

M. Lawniczak, S. Emrich, A. Holloway, A. Regier, M. Olson et al., Widespread Divergence Between Incipient Anopheles gambiae Species Revealed by Whole Genome Sequences, Science, vol.330, issue.6003, pp.512-514, 2010.
DOI : 10.1126/science.1195755
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3674514

Y. Wurm, J. Wang, O. Riba-grognuz, M. Corona, S. Nygaard et al., The genome of the fire ant Solenopsis invicta, Proceedings of the National Academy of Sciences, vol.108, issue.14, pp.5679-5684, 2011.
DOI : 10.1073/pnas.1009690108

S. Kumar and M. Blaxter, Comparing de novo assemblers for 454 transcriptome data, BMC Genomics, vol.11, issue.1, p.571, 2010.
DOI : 10.1186/1471-2164-11-571

G. Denisov, B. Walenz, A. Halpern, J. Miller, N. Axelrod et al., Consensus generation and variant detection by Celera Assembler, Bioinformatics, vol.24, issue.8, pp.1035-1040, 2008.
DOI : 10.1093/bioinformatics/btn074

A. English, S. Richards, Y. Han, M. Wang, V. Vee et al., Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology, PLoS ONE, vol.15, issue.Suppl 1, p.47768, 2012.
DOI : 10.1371/journal.pone.0047768.t003

M. Pop, D. Kosack, and S. Salzberg, Hierarchical Scaffolding With Bambus, Genome Research, vol.14, issue.1, pp.149-159, 2004.
DOI : 10.1101/gr.1536204

S. Kurtz, A. Phillippy, A. Delcher, M. Smoot, M. Shumway et al., Versatile and open software for comparing large genomes, Genome Biology, vol.5, issue.2, p.12, 2004.
DOI : 10.1186/gb-2004-5-2-r12

G. Parra, K. Bradnam, and I. Korf, CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes, Bioinformatics, vol.23, issue.9, pp.1061-1067, 2007.
DOI : 10.1093/bioinformatics/btm071

T. Wu and C. Watanabe, GMAP: a genomic mapping and alignment program for mRNA and EST sequences, Bioinformatics, vol.21, issue.9, pp.1859-1875, 2005.
DOI : 10.1093/bioinformatics/bti310

M. Sharakhova, P. George, I. Brusentsova, S. Leman, J. Bailey et al., Genome mapping and characterization of the Anopheles gambiae heterochromatin, BMC Genomics, vol.11, issue.1, p.459, 2010.
DOI : 10.1186/1471-2164-11-459

M. Sharakhova, A. Xia, Z. Tu, Y. Shouche, M. Unger et al., A Physical Map for an Asian Malaria Mosquito, Anopheles stephensi, American Journal of Tropical Medicine and Hygiene, vol.83, issue.5, pp.1023-1027, 2010.
DOI : 10.4269/ajtmh.2010.10-0366

B. Cantarel, I. Korf, S. Robb, G. Parra, E. Ross et al., MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes, Genome Research, vol.18, issue.1, pp.188-196, 2008.
DOI : 10.1101/gr.6743907

S. Tempel, . Using, and . Understanding-repeatmasker, Using and Understanding RepeatMasker, Methods Mol Biol, vol.859, pp.29-51, 2012.
DOI : 10.1007/978-1-61779-603-6_2

. Korf, I: Gene finding in novel genomes, BMC Bioinformatics, vol.5, issue.1, p.59, 2004.
DOI : 10.1186/1471-2105-5-59

M. Stanke, R. Steinkamp, S. Waack, and B. Morgenstern, AUGUSTUS: a web server for gene finding in eukaryotes, Nucleic Acids Research, vol.32, issue.Web Server, pp.309-312, 2004.
DOI : 10.1093/nar/gkh379

R. Waterhouse, F. Tegenfeldt, J. Li, E. Zdobnov, and E. Kriventseva, OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs, Nucleic Acids Research, vol.41, issue.D1, pp.358-365, 2013.
DOI : 10.1093/nar/gks1116

R. Edgar, MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research, vol.32, issue.5, pp.1792-1797, 2004.
DOI : 10.1093/nar/gkh340

S. Capella-gutierrez, J. Silla-martinez, and T. Gabaldon, trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses, Bioinformatics, vol.25, issue.15, pp.1972-1973, 2009.
DOI : 10.1093/bioinformatics/btp348

A. Stamatakis, RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies, Bioinformatics, vol.30, issue.9, pp.1312-1313, 2014.
DOI : 10.1093/bioinformatics/btu033

C. Trapnell, L. Pachter, and S. Salzberg, TopHat: discovering splice junctions with RNA-Seq, Bioinformatics, vol.25, issue.9, pp.1105-1111, 2009.
DOI : 10.1093/bioinformatics/btp120
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2672628

S. Anders, P. Pyl, and W. Huber, HTSeq -A Python framework to work with high-throughput sequencing data, Bioinformatics, 2014.

Y. Si, P. Liu, P. Li, and T. Brutnell, Model-based clustering for RNA-seq data, Bioinformatics, vol.30, issue.2, pp.197-205, 2014.
DOI : 10.1093/bioinformatics/btt632

M. Love, W. Huber, and S. Anders, Moderated estimation of fold change and dispersion for RNA-Seq data with DESeq2, 2014.

H. Wickham, ggplot2, Wiley Interdisciplinary Reviews: Computational Statistics, vol.367, issue.2, pp.180-185, 2011.
DOI : 10.1002/wics.147

A. Conesa, S. Götz, J. García-gómez, J. Terol, M. Talón et al., Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research, Bioinformatics, vol.21, issue.18, pp.3674-3676, 2005.
DOI : 10.1093/bioinformatics/bti610

E. Quevillon, V. Silventoinen, S. Pillai, N. Harte, N. Mulder et al., InterProScan: protein domains identifier, Nucleic Acids Research, vol.33, issue.Web Server, pp.116-120, 2005.
DOI : 10.1093/nar/gki442

S. Falcon and R. Gentleman, Using GOstats to test gene lists for GO term association, Bioinformatics, vol.23, issue.2, pp.257-258, 2007.
DOI : 10.1093/bioinformatics/btl567

A. Kasprzyk, BioMart: driving a paradigm change in biological data management, Database, vol.2011, issue.0, p.49, 2011.
DOI : 10.1093/database/bar049

T. Lowe and S. Eddy, tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence, Nucleic Acids Research, vol.25, issue.5, pp.955-964, 1997.
DOI : 10.1093/nar/25.5.0955

E. Nawrocki, D. Kolbe, and S. Eddy, Infernal 1.0: inference of RNA alignments, Bioinformatics, vol.25, issue.10, pp.1335-1337, 2009.
DOI : 10.1093/bioinformatics/btp157

S. Griffiths-jones, A. Bateman, M. Marshall, A. Khanna, and S. Eddy, Rfam: an RNA family database, Nucleic Acids Research, vol.31, issue.1, pp.439-441, 2003.
DOI : 10.1093/nar/gkg006
URL : http://doi.org/10.1093/nar/gkg006

V. Nene, J. Wortman, D. Lawson, B. Haas, C. Kodira et al., Genome Sequence of Aedes aegypti, a Major Arbovirus Vector, Science, vol.316, issue.5832, pp.1718-1723, 2007.
DOI : 10.1126/science.1138878
URL : https://hal.archives-ouvertes.fr/hal-00156214

G. Benson, Tandem repeats finder: a program to analyze DNA sequences, Nucleic Acids Research, vol.27, issue.2, pp.573-580, 1999.
DOI : 10.1093/nar/27.2.573

M. Frisch, K. Frech, A. Klingenhoff, K. Cartharius, I. Liebich et al., In Silico Prediction of Scaffold/Matrix Attachment Regions in Large Genomic Sequences, Genome Research, vol.12, issue.2, pp.349-354, 2002.
DOI : 10.1101/gr.206602

L. Guy, J. Kultima, and S. Andersson, genoPlotR: comparative gene and genome visualization in R, Bioinformatics, vol.26, issue.18, pp.2334-2335, 2010.
DOI : 10.1093/bioinformatics/btq413

W. Mclaren, B. Pritchard, D. Rios, Y. Chen, P. Flicek et al., Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor, Bioinformatics, vol.26, issue.16, pp.2069-2070, 2010.
DOI : 10.1093/bioinformatics/btq330

K. Eilbeck, S. Lewis, C. Mungall, M. Yandell, L. Stein et al., Sequence Ontology, Genome Biol, vol.6, p.44, 2005.
DOI : 10.1007/978-1-4419-9863-7_1107

. Jiang, Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi, Genome Biology, vol.6, issue.9, p.459, 2014.
DOI : 10.1186/s13059-014-0459-2
URL : https://hal.archives-ouvertes.fr/pasteur-01074253