txid243275[Organism:noexp] - PMC

Aude Bernheim, Adi Millman, Gal Ofir, Gilad Meitav, Carmel Avraham, Helena Shomar, Masha M. Rosenberg, Nir Tal, Sarah Melamed, Gil Amitai, Rotem Sorek

Nature. Author manuscript; available in PMC 2021 Jun 4.

Published in final edited form as: Nature. 2021 Jan 1; 589(7840): 120–124. Published online 2020 Sep 16. doi: 10.1038/s41586-020-2762-2

PMCID:: PMC7610908

Abstract Article PDF–5.2M

Select item 73366574.

Exploring neighborhoods in large metagenome assembly graphs using spacegraphcats reveals hidden sequence diversity

C. Titus Brown, Dominik Moritz, Michael P. O’Brien, Felix Reidl, Taylor Reiter, Blair D. Sullivan

Genome Biol. 2020; 21: 164. Published online 2020 Jul 6. doi: 10.1186/s13059-020-02066-4

PMCID:: PMC7336657

Abstract Article PDF–4.2M

Select item 39149905.

Transcriptional Responses of Treponema denticola to Other Oral Bacterial Species

Juni Sarkar, Ian H. McHardy, Emil J. Simanian, Wenyuan Shi, Renate Lux

PLoS One. 2014; 9(2): e88361. Published online 2014 Feb 5. doi: 10.1371/journal.pone.0088361

PMCID:: PMC3914990

Abstract Article PDF–242K

Select item 26141966.

Minimum Contradiction Matrices in Whole Genome Phylogenies

Marc Thuillard

Evol Bioinform Online. 2008; 4: 237–247. Published online 2008 Jul 21. doi: 10.4137/ebo.s909

PMCID:: PMC2614196

Abstract Article PDF–498K

Select item 20753657.

Identification of Prophages in Bacterial Genomes by Dinucleotide Relative Abundance Difference

K. V. Srividhya, V. Alaguraj, G. Poornima, Dinesh Kumar, G. P. Singh, L. Raghavenderan, A. V. S. K. Mohan Katta, Preeti Mehta, S. Krishnaswamy

PLoS One. 2007; 2(11): e1193. Published online 2007 Nov 21. doi: 10.1371/journal.pone.0001193

PMCID:: PMC2075365

Abstract Article PDF–295K

Select item 1752828.

Genetic and transcriptional analysis of flgB flagellar operon constituents in the oral spirochete Treponema denticola and their heterologous expression in enteric bacteria.

H F Heinzerling, M Olivares, R A Burne

Infect Immun. 1997 Jun; 65(6): 2041–2051. doi: 10.1128/iai.65.6.2041-2051.1997

PMCID:: PMC175282

Summary PDF–741K

Select item 2590219.

Sulfhydryl-dependent attachment of Treponema denticola to laminin and other proteins.

M Haapasalo, U Singh, B C McBride, V J Uitto

Infect Immun. 1991 Nov; 59(11): 4230–4237. doi: 10.1128/iai.59.11.4230-4237.1991

PMCID:: PMC259021

Summary Page Browse PDF–1.9M

Select item 31378210.

Isolation and characterization of the Treponema denticola prtA gene coding for chymotrypsinlike protease activity and detection of a closely linked gene encoding PZ-PLGPA-hydrolyzing activity.

X C Que, H K Kuramitsu

Infect Immun. 1990 Dec; 58(12): 4099–4105. doi: 10.1128/iai.58.12.4099-4105.1990

PMCID:: PMC313782

Summary Page Browse PDF–1.6M

Select item 25963411.

Isolation of a chymotrypsinlike enzyme from Treponema denticola.

V J Uitto, D Grenier, E C Chan, B C McBride

Infect Immun. 1988 Oct; 56(10): 2717–2722. doi: 10.1128/iai.56.10.2717-2722.1988

PMCID:: PMC259634

Summary Page Browse PDF–1.2M

Select item 890016612.

Protein targets in red complex pathogens for catechin

T Cibikkarthik, AS Smiline Girija, J Vijayashree Priyadharsini

Bioinformation. 2021; 17(12): 1105–1108. Published online 2021 Dec 31. doi: 10.6026/973206300171105

PMCID:: PMC8900166

Abstract Article PDF–985K

Select item 834069813.

Identification of aspirin and diclofenac binding proteins in the red complex pathogens

Geethika Babu, Veeraraghavan Vishnu Priya, Pothapur Keshaav Krishnaa, Rengasamy Gayathri, Jayaseelan Vijayashree Priyadharsini

Bioinformation. 2021; 17(1): 192–199. Published online 2021 Jan 31. doi: 10.6026/97320630017192

PMCID:: PMC8340698

Abstract Article PDF–7.2M

Select item 857346214.

Identification of protein targets in red complex organisms binding with resveratrol

Keshaav Krishnaa Pothapur, Veeraraghavan Vishnu Priya, Gayathri Rengasamy, Vijayashree Priyadharsini Jayaseelan

Bioinformation. 2020; 16(11): 837–842. Published online 2020 Nov 30. doi: 10.6026/97320630016837

PMCID:: PMC8573462

Abstract Article PDF–881K

Select item 850377415.

Protein targets in the red complex organisms binding with an herbal compound silymarin

Nadhirah Faiz, Keshaav Krishnaa Pothapur, V Vishnupriya, R Gayathri, J Vijayashree Priyadharsini

Bioinformation. 2020; 16(10): 759–764. Published online 2020 Oct 31. doi: 10.6026/97320630016759

PMCID:: PMC8503774

Abstract Article PDF–1014K

Select item 471255216.

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

Rosalinda D’Amore, Umer Zeeshan Ijaz, Melanie Schirmer, John G. Kenny, Richard Gregory, Alistair C. Darby, Migun Shakya, Mircea Podar, Christopher Quince, Neil Hall

BMC Genomics. 2016; 17: 55. Published online 2016 Jan 14. doi: 10.1186/s12864-015-2194-9

PMCID:: PMC4712552

Abstract Article PDF–1.2M

Select item 392760717.

Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms

Arshan Nasir, Aisha Naeem, Muhammad Jawad Khan, Horacio D. Lopez-Nicora, Gustavo Caetano-Anollés

Genes (Basel) 2011 Dec; 2(4): 869–911. Published online 2011 Nov 8. doi: 10.3390/genes2040869

PMCID:: PMC3927607

Abstract Article PDF–2.0M

Select item 307391218.

Molecular evolution of urea amidolyase and urea carboxylase in fungi

Pooja K Strope, Kenneth W Nickerson, Steven D Harris, Etsuko N Moriyama

BMC Evol Biol. 2011; 11: 80. Published online 2011 Mar 29. doi: 10.1186/1471-2148-11-80

PMCID:: PMC3073912

Abstract Article PDF–549K

Select item 269395719.

Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies

Ursula Pieper, Ranyee Chiang, Jennifer J. Seffernick, Shoshana D. Brown, Margaret E. Glasner, Libusha Kelly, Narayanan Eswar, J. Michael Sauder, Jeffrey B. Bonanno, Subramanyam Swaminathan, Stephen K. Burley, Xiaojing Zheng, Mark R. Chance, Steven C. Almo, John A. Gerlt, Frank M. Raushel, Matthew P. Jacobson, Patricia C. Babbitt, Andrej Sali

J Struct Funct Genomics. 2009 Apr; 10(2): 107–125. Published online 2009 Feb 14. doi: 10.1007/s10969-008-9056-5

PMCID:: PMC2693957

Abstract Article PDF–716K

Select item 185231620.

Transcriptional regulatory network discovery via multiple method integration: application to e. coli K12

Jingjun Sun, Kagan Tuncay, Alaa Abi Haidar, Lisa Ensman, Frank Stanley, Michael Trelinski, Peter Ortoleva

Algorithms Mol Biol. 2007; 2: 2. Published online 2007 Mar 30. doi: 10.1186/1748-7188-2-2

PMCID:: PMC1852316

Abstract Article PDF–707K

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