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2022
A. D. Yates
,
Allen, J.
,
Amode, R. M.
,
Azov, A. G.
,
Barba, M.
,
Becerra, A.
,
Bhai, J.
,
Campbell, L. I.
,
Martinez, M. Carbajo
,
Chakiachvili, M.
,
Chougule, K.
,
Christensen, M.
,
Contreras-Moreira, B.
,
Cuzick, A.
,
Fioretto, L. Da Rin
,
Davis, P.
,
De Silva, N. H.
,
Diamantakis, S.
,
Dyer, S.
,
Elser, J.
,
Filippi, C. V.
,
Gall, A.
,
Grigoriadis, D.
,
Guijarro-Clarke, C.
,
Gupta, P.
,
Hammond-Kosack, K. E.
,
Howe, K. L.
,
Jaiswal, P.
,
Kaikala, V.
,
Kumar, V.
,
Kumari, S.
,
Langridge, N.
,
Le, T.
,
Luypaert, M.
,
Maslen, G. L.
,
Maurel, T.
,
Moore, B.
,
Muffato, M.
,
Mushtaq, A.
,
Naamati, G.
,
Naithani, S.
,
Olson, A.
,
Parker, A.
,
Paulini, M.
,
Pedro, H.
,
Perry, E.
,
Preece, J.
,
Quinton-Tulloch, M.
,
Rodgers, F.
,
Rosello, M.
,
Ruffier, M.
,
Seager, J.
,
Sitnik, V.
,
Szpak, M.
,
Tate, J.
,
Tello-Ruiz, M. K.
,
Trevanion, S. J.
,
Urban, M.
,
Ware, D.
,
Wei, S.
,
Williams, G.
,
Winterbottom, A.
,
Zarowiecki, M.
,
Finn, R. D.
, and
Flicek, P.
,
“
Ensembl Genomes 2022: an expanding genome resource for non-vertebrates.
”
,
Nucleic Acids Res
, vol. 50, no. D1, pp. D996-D1003, 2022.
2020
A. Kashyap
,
Rhodes, A.
,
Kronmiller, B.
,
Berger, J.
,
Champagne, A.
,
Davis, E. W.
,
Finnegan, M. V.
,
Geniza, M.
,
Hendrix, D. A.
,
Löhr, C. V.
,
Petro, V. M.
,
Sharpton, T. J.
,
Wells, J.
,
Epps, C. W.
,
Jaiswal, P.
,
Tyler, B. M.
, and
Ramsey, S. A.
,
“
Pan-tissue transcriptome analysis of long noncoding RNAs in the American beaver Castor canadensis.
”
,
BMC Genomics
, vol. 21, no. 1, p. 153, 2020.
S. Naithani
,
Gupta, P.
,
Preece, J.
,
D'Eustachio, P.
,
Elser, J. L.
,
Garg, P.
,
Dikeman, D. A.
,
Kiff, J.
,
Cook, J.
,
Olson, A.
,
Wei, S.
,
Tello-Ruiz, M. K.
,
Mundo, A. Fabregat
,
Munoz-Pomer, A.
,
Mohammed, S.
,
Cheng, T.
,
Bolton, E.
,
Papatheodorou, I.
,
Stein, L.
,
Ware, D.
, and
Jaiswal, P.
,
“
Plant Reactome: a knowledgebase and resource for comparative pathway analysis.
”
,
Nucleic Acids Res
, vol. 48, no. D1, pp. D1093-D1103, 2020.
2018
S. Naithani
,
Preece, J.
,
D'Eustachio, P.
,
Gupta, P.
,
Amarasinghe, V.
,
Dharmawardhana, P. D.
,
Wu, G.
,
Fabregat, A.
,
Elser, J. L.
,
Weiser, J.
,
Keays, M.
,
Munoz-Pomer Fuentes, A.
,
Petryszak, R.
,
Stein, L. D.
,
Ware, D.
, and
Jaiswal, P.
,
“
Plant Reactome: a resource for plant pathways and comparative analysis.
”
,
Nucleic acids research
, vol. 45, no. D1, pp. D1029-D1039, 2018.
2017
S. Naithani
and
Jaiswal, P.
,
“
Pathway Analysis and Omics Data Visualization Using Pathway Genome Databases: FragariaCyc, a Case Study.
”
,
Methods in molecular biology (Clifton, N.J.)
, vol. 1533, pp. 241-256, 2017.
S. Naithani
,
Geniza, M.
, and
Jaiswal, P.
,
“
Variant Effect Prediction Analysis Using Resources Available at Gramene Database.
”
,
Methods in molecular biology (Clifton, N.J.)
, vol. 1533, pp. 279-297, 2017.
2016
A. C. Quandt
,
Di, Y.
,
Elser, J.
,
Jaiswal, P.
, and
Spatafora, J. W.
,
“
Differential Expression of Genes Involved in Host Recognition, Attachment, and Degradation in the Mycoparasite Tolypocladium ophioglossoides.
”
,
G3 (Bethesda, Md.)
, vol. 6, no. 3, pp. 731-41, 2016.
2010
“
The Gene Ontology in 2010: extensions and refinements.
”
,
Nucleic acids research
, vol. 38, no. Database issue, pp. D331-5, 2010.
2002
D. H. Ware
,
Jaiswal, P.
,
Ni, J.
,
Yap, I. V.
,
Pan, X.
,
Clark, K. Y.
,
Teytelman, L.
,
Schmidt, S. C.
,
Zhao, W.
,
Chang, K.
,
Cartinhour, S.
,
Stein, L. D.
, and
McCouch, S. R.
,
“
Gramene, a tool for grass genomics.
”
,
Plant physiology
, vol. 130, no. 4, pp. 1606-13, 2002.
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