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Selected Papers from the Workshop on Computational Biology: Joint with the International Joint Conference on Artificial Intelligence and the International Conference on Machine Learning, 2018.

Diallo AB, Nguifo EM, Dhifli W, Azizi E, Prabhakaran S, Tansey W.

J Comput Biol. 2019 Jun;26(6):507-508. doi: 10.1089/cmb.2019.29020.abd. No abstract available.


Toward an Alignment-Free Method for Feature Extraction and Accurate Classification of Viral Sequences.

Lebatteux D, Remita AM, Diallo AB.

J Comput Biol. 2019 Jun;26(6):519-535. doi: 10.1089/cmb.2018.0239. Epub 2019 May 3.


Recurrent KBTBD4 small in-frame insertions and absence of DROSHA deletion or DICER1 mutation differentiate pineal parenchymal tumor of intermediate differentiation (PPTID) from pineoblastoma.

Lee JC, Mazor T, Lao R, Wan E, Diallo AB, Hill NS, Thangaraj N, Wendelsdorf K, Samuel D, Kline CN, Banerjee A, Auguste K, Raffel C, Gupta N, Berger M, Raleigh DR, Shai A, Phillips JJ, Bollen AW, Tihan T, Perry A, Costello J, Solomon DA.

Acta Neuropathol. 2019 May;137(5):851-854. doi: 10.1007/s00401-019-01990-5. Epub 2019 Mar 14. No abstract available.


Circadian Rhythm Disruption and Sepsis in Severe Trauma Patients.

Coiffard B, Diallo AB, Culver A, Mezouar S, Hammad E, Vigne C, Nicolino-Brunet C, Dignat-George F, Baumstarck K, Boucekine M, Leone M, Mege JL.

Shock. 2019 Jul;52(1):29-36. doi: 10.1097/SHK.0000000000001241.


Bioinformatic workflow extraction from scientific texts based on word sense disambiguation and relation extraction.

Halioui A, Valtchev P, Diallo AB.

IEEE/ACM Trans Comput Biol Bioinform. 2018 Jun 14. doi: 10.1109/TCBB.2018.2847336. [Epub ahead of print]


Ebola Virus Transmission Caused by Persistently Infected Survivors of the 2014-2016 Outbreak in West Africa.

Subissi L, Keita M, Mesfin S, Rezza G, Diallo B, Van Gucht S, Musa EO, Yoti Z, Keita S, Djingarey MH, Diallo AB, Fall IS.

J Infect Dis. 2018 Nov 22;218(suppl_5):S287-S291. doi: 10.1093/infdis/jiy280.


Subtle differences in selective pressures applied on the envelope gene of HIV-1 in pregnant versus non-pregnant women.

Ransy DG, Lord E, Caty M, Lapointe N, Boucher M, Diallo AB, Soudeyns H.

Infect Genet Evol. 2018 Aug;62:141-150. doi: 10.1016/j.meegid.2018.04.020. Epub 2018 Apr 17.


Transcriptomic Insights into Phenological Development and Cold Tolerance of Wheat Grown in the Field.

Li Q, Byrns B, Badawi MA, Diallo AB, Danyluk J, Sarhan F, Laudencia-Chingcuanco D, Zou J, Fowler DB.

Plant Physiol. 2018 Mar;176(3):2376-2394. doi: 10.1104/pp.17.01311. Epub 2017 Dec 19.


Half of rifampicin-resistant Mycobacterium tuberculosis complex isolated from tuberculosis patients in Sub-Saharan Africa have concomitant resistance to pyrazinamide.

Ngabonziza JCS, Diallo AB, Tagliani E, Diarra B, Kadanga AE, Togo ACG, Thiam A, de Rijk WB, Alagna R, Houeto S, Ba F, Dagnra AY, Ivan E, Affolabi D, Schwoebel V, Trebucq A, de Jong BC, Rigouts L, Daneau G; “Union short MDR-TB regimen study group”.

PLoS One. 2017 Oct 31;12(10):e0187211. doi: 10.1371/journal.pone.0187211. eCollection 2017.


T-GOWler: Discovering Generalized Process Models Within Texts.

Halioui A, Valtchev P, Diallo AB.

J Comput Biol. 2017 Aug;24(8):799-808. doi: 10.1089/cmb.2017.0085.


Preface: Selected Papers from the Workshop Bioinformatics and Artificial Intelligence Joined with the International Joint Conference on Artificial Intelligence.

Diallo AB, Nguifo EM, Zaki MJ.

J Comput Biol. 2017 Aug;24(8):733. doi: 10.1089/cmb.2017.29008.abd. No abstract available.


Lessons learned by surveillance during the tail-end of the Ebola outbreak in Guinea, June-October 2015: a case series.

Keïta M, Conté F, Diallo B, Lufwa D, Katomba J, Snacken R, Pallawo R, Tolno A, Diallo AB, Djingarey MH, Subissi L.

BMC Infect Dis. 2017 Apr 24;17(1):304. doi: 10.1186/s12879-017-2405-x.


A machine learning approach for viral genome classification.

Remita MA, Halioui A, Malick Diouara AA, Daigle B, Kiani G, Diallo AB.

BMC Bioinformatics. 2017 Apr 11;18(1):208. doi: 10.1186/s12859-017-1602-3.


[Performance of GeneXpert MTB / RIF® in the diagnosis of extrapulmonary tuberculosis in Dakar: 2010-2015].

Diallo AB, Kollo AI, Camara M, Lo S, Ossoga GW, Mbow M, Karam F, Niang MY, Thiam A, Diawara AN, Mboup S, Diallo AG.

Pan Afr Med J. 2016 Nov 2;25:129. doi: 10.11604/pamj.2016.25.129.10065. eCollection 2016. French.


Rubeoparvulum massiliense gen. nov., sp. nov., a new bacterial genus isolated from the human gut of a Senegalese infant with severe acute malnutrition.

Tidjani Alou M, Rathored J, Lagier JC, Khelaifia S, Michelle C, Sokhna C, Diallo A, Diallo AB, Fournier PE, Raoult D, Edouard S.

New Microbes New Infect. 2016 Nov 17;15:49-60. doi: 10.1016/j.nmni.2016.11.003. eCollection 2017 Jan.


Prediction of human miRNA target genes using computationally reconstructed ancestral mammalian sequences.

Leclercq M, Diallo AB, Blanchette M.

Nucleic Acids Res. 2017 Jan 25;45(2):556-566. doi: 10.1093/nar/gkw1085. Epub 2016 Nov 29.


ProtNN: fast and accurate protein 3D-structure classification in structural and topological space.

Dhifli W, Diallo AB.

BioData Min. 2016 Sep 23;9:30. doi: 10.1186/s13040-016-0108-2. eCollection 2016.


[Obstetrical vesico-vaginal fistula in Guinea: Data analysis of three sites of treatment at Engender Health ONG].

Diallo AB, Sy T, Bah MD, Diallo TM, Barry MS, Bah I, Barry TH, Blanchot J, Rochat CH, Diallo MB.

Prog Urol. 2016 Mar;26(3):145-51. doi: 10.1016/j.purol.2016.01.006. Epub 2016 Feb 16. French.


How women are treated during facility-based childbirth: development and validation of measurement tools in four countries - phase 1 formative research study protocol.

Vogel JP, Bohren MA, Tunçalp Ö, Oladapo OT, Adanu RM, Baldé MD, Maung TM, Fawole B, Adu-Bonsaffoh K, Dako-Gyeke P, Maya ET, Camara MC, Diallo AB, Diallo S, Wai KT, Myint T, Olutayo L, Titiloye M, Alu F, Idris H, Gülmezoglu MA; WHO Research Group on the Treatment of Women During Childbirth.

Reprod Health. 2015 Jul 22;12:60. doi: 10.1186/s12978-015-0047-2.


The Usefulness of International Cooperation in the Repair of Inguinal Hernias in Sub-Saharan Africa.

Gil J, Rodriguez JM, Gil E, Hernández Agúera Q, González FM, García JA, Balsalobre MD, Tortosa JA, Hernández Palazón D, Diallo AB, Parrilla P.

World J Surg. 2015 Nov;39(11):2622-9. doi: 10.1007/s00268-015-3161-y.


Investigation of genes important in neurodevelopment disorders in adult human brain.

Maussion G, Diallo AB, Gigek CO, Chen ES, Crapper L, Théroux JF, Chen GG, Vasuta C, Ernst C.

Hum Genet. 2015 Oct;134(10):1037-53. doi: 10.1007/s00439-015-1584-z. Epub 2015 Jul 21.


A molecular model for neurodevelopmental disorders.

Gigek CO, Chen ES, Ota VK, Maussion G, Peng H, Vaillancourt K, Diallo AB, Lopez JP, Crapper L, Vasuta C, Chen GG, Ernst C.

Transl Psychiatry. 2015 May 12;5:e565. doi: 10.1038/tp.2015.56.


An integrative approach to identify hexaploid wheat miRNAome associated with development and tolerance to abiotic stress.

Agharbaoui Z, Leclercq M, Remita MA, Badawi MA, Lord E, Houde M, Danyluk J, Diallo AB, Sarhan F.

BMC Genomics. 2015 Apr 24;16:339. doi: 10.1186/s12864-015-1490-8.


Classification of bioinformatics workflows using weighted versions of partitioning and hierarchical clustering algorithms.

Lord E, Diallo AB, Makarenkov V.

BMC Bioinformatics. 2015 Mar 3;16:68. doi: 10.1186/s12859-015-0508-1.


Molecular convergence of neurodevelopmental disorders.

Chen ES, Gigek CO, Rosenfeld JA, Diallo AB, Maussion G, Chen GG, Vaillancourt K, Lopez JP, Crapper L, Poujol R, Shaffer LG, Bourque G, Ernst C.

Am J Hum Genet. 2014 Nov 6;95(5):490-508. doi: 10.1016/j.ajhg.2014.09.013. Epub 2014 Oct 9.


BisQC: an operational pipeline for multiplexed bisulfite sequencing.

Chen GG, Diallo AB, Poujol R, Nagy C, Staffa A, Vaillancourt K, Lutz PE, Ota VK, Mash DC, Turecki G, Ernst C.

BMC Genomics. 2014 Apr 16;15:290. doi: 10.1186/1471-2164-15-290.


Surgical treatment of endemic goiter in a nonhospital setting without general anesthesia in Africa.

Gil J, Rodríguez JM, Gil E, Balsalobre MD, Hernández Q, Gonzalez FM, García JA, Torregrosa N, Tortosa JA, Diallo AB, Parrilla P.

World J Surg. 2014 Sep;38(9):2212-6. doi: 10.1007/s00268-014-2553-8.


Computational prediction of the localization of microRNAs within their pre-miRNA.

Leclercq M, Diallo AB, Blanchette M.

Nucleic Acids Res. 2013 Aug;41(15):7200-11. doi: 10.1093/nar/gkt466. Epub 2013 Jun 8.


User Perceptions of an mHealth Medicine Dosing Tool for Community Health Workers.

Palazuelos D, Diallo AB, Palazuelos L, Carlile N, Payne JD, Franke MF.

JMIR Mhealth Uhealth. 2013 Apr 4;1(1):e2. doi: 10.2196/mhealth.2459.


Disruption of a large intergenic noncoding RNA in subjects with neurodevelopmental disabilities.

Talkowski ME, Maussion G, Crapper L, Rosenfeld JA, Blumenthal I, Hanscom C, Chiang C, Lindgren A, Pereira S, Ruderfer D, Diallo AB, Lopez JP, Turecki G, Chen ES, Gigek C, Harris DJ, Lip V, An Y, Biagioli M, Macdonald ME, Lin M, Haggarty SJ, Sklar P, Purcell S, Kellis M, Schwartz S, Shaffer LG, Natowicz MR, Shen Y, Morton CC, Gusella JF, Ernst C.

Am J Hum Genet. 2012 Dec 7;91(6):1128-34. doi: 10.1016/j.ajhg.2012.10.016.


Highly penetrant alterations of a critical region including BDNF in human psychopathology and obesity.

Ernst C, Marshall CR, Shen Y, Metcalfe K, Rosenfeld J, Hodge JC, Torres A, Blumenthal I, Chiang C, Pillalamarri V, Crapper L, Diallo AB, Ruderfer D, Pereira S, Sklar P, Purcell S, Wildin RS, Spencer AC, Quade BF, Harris DJ, Lemyre E, Wu BL, Stavropoulos DJ, Geraghty MT, Shaffer LG, Morton CC, Scherer SW, Gusella JF, Talkowski ME.

Arch Gen Psychiatry. 2012 Dec;69(12):1238-46. doi: 10.1001/archgenpsychiatry.2012.660.


T-REX: a web server for inferring, validating and visualizing phylogenetic trees and networks.

Boc A, Diallo AB, Makarenkov V.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W573-9. doi: 10.1093/nar/gks485. Epub 2012 Jun 6.


Armadillo 1.1: an original workflow platform for designing and conducting phylogenetic analysis and simulations.

Lord E, Leclercq M, Boc A, Diallo AB, Makarenkov V.

PLoS One. 2012;7(1):e29903. doi: 10.1371/journal.pone.0029903. Epub 2012 Jan 11.


Detecting genomic regions associated with a disease using variability functions and Adjusted Rand Index.

Badescu D, Boc A, Diallo AB, Makarenkov V.

BMC Bioinformatics. 2011 Oct 5;12 Suppl 9:S9. doi: 10.1186/1471-2105-12-S9-S9.


Predicting site-specific human selective pressure using evolutionary signatures.

Sadri J, Diallo AB, Blanchette M.

Bioinformatics. 2011 Jul 1;27(13):i266-74. doi: 10.1093/bioinformatics/btr241.


Comparative analysis of the primate X-inactivation center region and reconstruction of the ancestral primate XIST locus.

Horvath JE, Sheedy CB, Merrett SL, Diallo AB, Swofford DL, NISC Comparative Sequencing Program, Green ED, Willard HF.

Genome Res. 2011 Jun;21(6):850-62. doi: 10.1101/gr.111849.110. Epub 2011 Apr 25.


[Clinical aspects and management of the torsion of the spermatic cord: study of 27 cases].

Bah OR, Roupret M, Guirassy S, Diallo AB, Diallo MB, Richard F.

Prog Urol. 2010 Jul;20(7):527-31. doi: 10.1016/j.purol.2009.12.011. Epub 2010 Mar 4. French.


Ancestors 1.0: a web server for ancestral sequence reconstruction.

Diallo AB, Makarenkov V, Blanchette M.

Bioinformatics. 2010 Jan 1;26(1):130-1. doi: 10.1093/bioinformatics/btp600. Epub 2009 Oct 22.


A whole genome study and identification of specific carcinogenic regions of the human papilloma viruses.

Diallo AB, Badescu D, Blanchette M, Makarenkov V.

J Comput Biol. 2009 Oct;16(10):1461-73. doi: 10.1089/cmb.2009.0091.


[Gastroduodenal ulcer in the rural setting in Mali].

Diarra M, Konate A, Traore C, Soukho A, Kamate B, Diallo AB, Maiga MY.

Mali Med. 2009;24(2):1-3. French.


Computational reconstruction of ancestral DNA sequences.

Blanchette M, Diallo AB, Green ED, Miller W, Haussler D.

Methods Mol Biol. 2008;422:171-84. doi: 10.1007/978-1-59745-581-7_11.


Exact and heuristic algorithms for the Indel Maximum Likelihood Problem.

Diallo AB, Makarenkov V, Blanchette M.

J Comput Biol. 2007 May;14(4):446-61.


[Erectile dysfunction and diabetes in Conakry (Guinea): frequency and clinical characteristics from 187 diabetic patients].

Baldé NM, Diallo AB, Baldé MC, Kaké A, Diallo MM, Diallo MB, Maugendre D.

Ann Endocrinol (Paris). 2006 Sep;67(4):338-42. French.


A new effective method for estimating missing values in the sequence data prior to phylogenetic analysis.

Diallo AB, Lapointe FJ, Makarenkov V.

Evol Bioinform Online. 2007 Feb 1;2:237-46.


[Review of the management of enuresis in a Senegalese hospital].

Sylla C, Moreira C, Dieme ML, Diallo AB, Hounnasso PP, Diao B, Ze Ondo C, Ba M.

Prog Urol. 2005 Apr;15(2):296-301; discussion 301. French.


[Bladder lithiasis].

Sylla C, Fall PA, Ndoye A, Diao B, Diallo AB, Gueye SM, Ba M, Diagne BA.

Dakar Med. 2001;46(1):29-31. French.


[Ureteroplasty by penile pedicular flap].

Diao B, Diallo AB, Ndoye AK, Fall PA, Sylla C, Ba M, Diagne BA.

Ann Urol (Paris). 2003 Aug;37(4):203-6. French.


[Complications of circumcision. Report of 63 cases].

Sylla C, Diao B, Diallo AB, Fall PA, Sankale AA, Ba M.

Prog Urol. 2003 Apr;13(2):266-72. French.


[Harpoon scrotal injury: unusual accident in submarine fishing].

Diallo AB, Ndoye A, Fall PA, Ba M, Sylla C, Diagne BA.

Prog Urol. 2001 Apr;11(2):334-5. French.


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