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C

Mukherjee R., Singh L.NS, Evans P., Hannenhalli S. 2013. Correlated evolution of positions within mammalian cis elements . Plos One. 8:e55521.

El‐Sayed NM, Patton C.L, Harkins P.C, Fox R.O, Anderson K.. 1995. Crystallization and preliminary X-ray investigation of the recombinant Trypanosoma brucei rhodesiense calmodulin. Proteins: Structure, Function, and BioinformaticsProteins: Structure, Function, and Bioinformatics. 21

Essien K, Vigneau S, Apreleva S, Singh LN, Bartolomei MS, Hannenhalli S. 2009. CTCF binding site classes exhibit distinct evolutionary, genomic, epigenomic and transcriptomic features. Genome BiologyGenome Biology. 10

Plasschaert R.N, Vigneau S., Tempera I., Gupta R., Maksimoska J., Everett L., Davuluri R., Mamorstein R., Lieberman P.M, Schultz D. et al.. 2014. CTCF binding site sequence differences are associated with unique regulatory and functional trends during embryonic stem cell differentiation. Nucleic Acids ResNucleic Acids ResNucleic Acids Res. 42:774-89.

D

Everett L, San Wang L-, Hannenhalli S. 2006. Dense Subgraph Computation Via Stochastic Search: Application to Detect Transcriptional Modules. BioinformaticsBioinformaticsBioinformaticsBioinformatics. 22

Searle RF, Sellens MH, Elson J, Jenkinson EJ, Billington WD. 1976. Detection of alloantigens during preimplantation development and early trophoblast differentiation in the mouse by immunoperoxidase labeling.. J Exp Med. 143(2):348-59.

Pop M, Walker AW, Paulson J, Lindsay B, Antonio M, M Hossain A, Oundo J, Tamboura B, Mai V, Astrovskaya I et al.. 2014. Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition.. Genome Biol. 15(6):R76.

Morgan R.W, El‐Sayed NM, Kepa J.K, Pedram M., Donelson J.E. 1996. Differential expression of the expression site-associated gene I family in African trypanosomes. Journal of Biological ChemistryJournal of Biological Chemistry. 271

Lipp EK, Rivera ING, Gil AI, Espeland EM, Choopun N, Louis VR, Russek-Cohen E, Huq A, Colwell RR. 2003. Direct Detection of Vibrio Cholerae and ctxA in Peruvian Coastal Water and Plankton by PCR. Applied and Environmental MicrobiologyAppl. Environ. Microbiol.Applied and Environmental MicrobiologyAppl. Environ. Microbiol.. 69

Korpal M, Ell BJ, Buffa FM, Ibrahim T, Blanco MA, Terrassa Tà-, Mercatali L, Khan Z, Goodarzi H, Hua Y et al.. 2011. Direct targeting of Sec23a by miR-200s influences cancer cell secretome and promotes metastatic colonization. Nature Medicine. 17(9):1101-1108.

Korpal M, Ell BJ, Buffa FM, Ibrahim T, Blanco MA, Celià-Terrassa T, Mercatali L, Khan Z, Goodarzi H, Hua Y et al.. 2011. Direct targeting of Sec23a by miR-200s influences cancer cell secretome and promotes metastatic colonization.. Nat Med. 17(9):1101-8.

Rabinovich S, Adler L, Yizhak K, Sarver A, Silberman A, Agron S, Stettner N, Sun Q, Brandis A, Helbling D et al.. 2015. Diversion of aspartate in ASS1-deficient tumours fosters de novo pyrimidine synthesis. Nature. 527(7578):379-383.

Ming R, Hou S, Feng Y, Yu Q, Dionne-Laporte A, Saw JH, Senin P, Wang W, Ly BV, Lewis KLT et al.. 2008. The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus).. Nature. 452(7190):991-6.

Fernandes MCecilia, Dillon LAL, Belew ATrey, Bravo HCorrada, Mosser DM, El-Sayed NM. 2016. Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures. mBio. 7(3):e00027-16.

E

Le Breton Y, Belew AT, Valdes KM, Islam E, Curry P, Tettelin H, Shirtliff ME, El-Sayed NM, McIver KS. 2015. Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes.. Sci Rep. 5:9838.

Bravo HCorrada, Eng K.H, Keles S., Wahba G., Wright S.. 2008. Estimating Tree-Structured Covariance Matrices via Mixed-Integer Programming with an Application to Phylogenetic Analysis of Gene Expression. 1142

Bravo HCorrada, Wright S, Eng KH, Keles S, Wahba G. 2009. Estimating Tree-Structured Covariance Matrices via Mixed-Integer Programming. J Mach Learn Res. 5:41-48.

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny. NatureNature. 450

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny.. Nature. 450(7167):203-18.

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny.. Nature. 450(7167):203-18.

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