Posted lists

Below are sets of queries that have been posted by users of the site. Feel free to browse and use these lists.

After clicking on any of the lists below you will have the opportunity to view the contents of each target list. You might want to peruse these lists to learn about the criteria used by others to identify targets, and the weights they apply to rank targets.

You can also import any of these lists into your history. For additional information, please consult the relevant section of the User's Manual.

Community share - Targets

My plasmodium targets
Fernan Aguero – posted on 2007-05-31 06:34:32
This is a set of public queries intented to illustrate how to share lists of targets and query sets ...
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SN 1
Solomon Nwaka – posted on 2007-06-07 00:52:49
P. falciparum targets generated based on weighted queries on structure, phylogeny, essentilaity and ...
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pfal target - dany
Dany Shanmugam – posted on 2007-06-07 07:19:23
3 queries run for pfal... 1. pfal enzymes with any essentiality evidence 2. pfal genes wit ...
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T bru Enzymes Drugabil >0.7 CmpdDesire>0.5 Essential Any Org <2TmDomains
Wes Van Voorhis – posted on 2007-06-08 07:51:54
Enzymes from T brucei for which there is some structural info avail (actual or model), Cmpd desireab ...
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P fal Enzymes Structural Cmpd desireable
Wes Van Voorhis – posted on 2007-06-08 07:56:57
This is a list of P fal enzymes (EC any) with <2 Tm segments and are essential in some model organis ...
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T. brucei query set (DSR VI/11/07)
David Roos – posted on 2007-06-11 09:40:48
A set of attributes potentially relevant to T. brucei drug target design, including: - enzymes [100 ...
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TB weighted drug targets
Wes Van Voorhis – posted on 2007-07-12 08:18:50
TB prioritized targets ...
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T. brucei targets from HAT survey - Updated July 12th 2007
Dany Shanmugam – posted on 2007-07-12 22:05:11
The aim of the survey is to capture, collate and make publicly available expert knowledge on potenti ...
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Plasmodium protease targets
Stuart Ralph – posted on 2007-08-03 13:27:35
A list of potential Plasmodium protease drug targets. *NB Relies on the word "protease" or "peptid ...
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druggable + essential plasmodium aARS enzymes
Stuart Ralph – posted on 2007-09-04 22:28:13
•trna Synthetases •some essentiality data •druggability > 0.7 •compound desirablility > 0 ...
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Pfal genes overexpressed during blood-borne stages
Greg Crowther – posted on 2007-09-29 05:09:52
This is simply a set of queries for genes expressed either in the top quintile (80-100%) or the 2nd ...
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test-1
Hagai Ginsburg – posted on 2007-10-26 01:26:32
this is a test ...
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Mtb_targets_NRDD
Dany Shanmugam – posted on 2008-04-03 23:32:42

Complete set of pfal queries with weighted combinations
Dany Shanmugam – posted on 2008-04-06 01:33:33
This published set contains a comprehensive set of queries from Pfal that have been weighted 1 again ...
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Hasan TB target prioritization
Greg Crowther – posted on 2008-07-09 22:02:13
This is an example of incorporating literature rankings of targets into TDRtargets.org. In PLoS Comp ...
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Brugia targets ranked by Kumar et al.
Greg Crowther – posted on 2008-07-10 01:41:55
Based on PLoS ONE 2: e1189, 2007. The authors first narrowed the Brugia genes down to those with ess ...
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T. brucei genetic experiments
Greg Crowther – posted on 2008-08-12 06:38:46
Within the Validation subsection of the search page, one can search for four types of genetic experi ...
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Schistosoma_Caffrey_etal_2009
Christine Stewart – posted on 2009-03-13 01:16:34
Using the genome comparison software Genlight, two separate in silico workflows were implemented to ...
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A Ranked List of T. cruzi Targets
Fernan Aguero – posted on 2009-03-24 20:01:13
I have run a number of queries using different criteria to retrieve T. cruzi genes. Each query f ...
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T. cruzi ranked list & subqueries
Santiago Carmona – posted on 2009-03-25 14:48:30
This query-set consist of 8 (sub)queries that look for genes in the T.cruzi genome having different ...
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vjh transporters
VICTORIA HANNON – posted on 2009-03-25 15:46:23
transporters with phylogenetic distribution: not in hsa but in pfa they all have expression ranking ...
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Reweightable Pfal rankings based on 19 criteria
Greg Crowther – posted on 2009-03-25 23:27:21
This is an update to a previously published multi-query ranking. The criteria used are the same, but ...
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Reweightable Leish 12-criteria query and components thereof
Greg Crowther – posted on 2009-03-26 15:57:12
This is an update of a previously published query set, done mostly to take advantage of the reweight ...
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set1
amit pamecha – posted on 2009-04-17 09:47:11
This is the description for the query set(s) you are about to publish. Replace this text with y ...
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Schistosoma_Ribiero-dos-Santos_etal2006
Christine Stewart – posted on 2009-04-17 20:02:33
Targets suggested in a 2006 review of chemotherapeutic agents. ...
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BP6 Plasmodium
Mushira Mokhtar – posted on 2009-05-08 03:49:26
This is the description for the query set(s) you are about to publish. Replace this text with y ...
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BP6 Plasmodium - Updated
Joyna Chan – posted on 2009-05-15 00:05:33
referring to previously posted "BP6 plasmodium", i think there is an error - "druggability" has bee ...
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Anishetty 2005: 189 unique TB enzymes
Greg Crowther – posted on 2009-06-12 17:57:37
S. Anishetty et al. (2005) identified ~190 enzymes from M. tuberculosis with low or no sequence homo ...
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TB genes deleted in clinical strains (Tsolaki 2004)
Greg Crowther – posted on 2009-06-12 20:06:17
A.G. Tsolaki et al. (PNAS 2004) studied 100 clinical strains of M. tuberculosis and identified over ...
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Tbru glycolytic enzymes 6-12-09
Greg Crowther – posted on 2009-06-12 23:08:55
Consider the following scenario: you're interested in the glycolytic pathway, which has been validat ...
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S. Kumar's (2007) complete list of Brugia targets
Greg Crowther – posted on 2009-06-13 20:35:35
Based on PMID 18000556. Kumar et al.'s genome-wide analysis identified 580+ possible Brugia drug tar ...
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Brugia genome prioritization - druggability inferred by sequence similarity
Santiago Carmona – posted on 2009-06-21 00:52:26
A prioritization session mainly based on phenotypes observed in C. elegans, absence in human and m ...
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Schistosoma mansoni genome prioritization
Santiago Carmona – posted on 2009-07-09 16:54:40
For this genome prioritization we considered several filters independently and calculated the weight ...
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Ranked list of L. major targets for PLOS-NTD
Dany Shanmugam – posted on 2009-09-04 23:51:24
Genomic scale ranking of L. major genes demonstrating that combining a wide range of criteria can be ...
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Ranked list of M. tuberculosis targets (focused on persistence) for PLOS-NTD
Dany Shanmugam – posted on 2009-09-05 00:27:19
Genomic scale ranking of M. tuberculosis genes emphasizing gene essentiality and expression during p ...
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Ranked list of P. falciparum targets for PLOS-NTD
Dany Shanmugam – posted on 2009-09-05 11:30:53
Genomic scale ranking of P. falciparum genes using the same set of queries that were used for the L. ...
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Ranked list of M. tuberculosis targets for PLOS-NTD
Dany Shanmugam – posted on 2009-09-05 11:39:23
Genomic scale ranking of M. tuberculosis genes using the same set of queries that were used for the ...
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Ranked list of P. falciparum targets (focused on Apicoplast) for PLOS-NTD
Dany Shanmugam – posted on 2009-10-10 11:16:04
This ranked list of P. falciparum genes was made up to prioritize targets that are associated with t ...
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Ranked list of S.mansoni targets for PLOS-NTD
Dany Shanmugam – posted on 2009-10-10 12:39:56
Genomic scale ranking of S. mansoni genes emphasizing phenotype, expression, curation and druggable ...
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Ranked list of T. brucei targets (focused on glycolytic flux) for PLOS-NTD
Dany Shanmugam – posted on 2009-10-10 16:28:28
Genomic scale ranking of T. brucei genes focusing on the glycolytic pathway. Published data on glyco ...
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Ranked list of tcruzi targets
Fernan Aguero – posted on 2009-11-25 19:03:52
I have run a number of queries using different criteria to retrieve T. cruzi genes. Each query f ...
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Prioritizing the Trypanosoma cruzi genome using SNPs
Alejandro Ackermann – posted on 2010-03-04 11:15:50
We use the TDR Targets database to classify coding sequences from the Trypanosoma cruzi genome accor ...
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tcruzi targets shared with leishmania, absent in tbrucei
Fernan Aguero – posted on 2010-04-13 13:21:09
T. cruzi targets that are also present in Leishmania, but that are absent in T. brucei. The prior ...
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Ranked list of B. malayi targets for PLOS-NTD2
Dany Shanmugam – posted on 2010-04-21 06:55:24
Genomic scale ranking of B. malayi genes emphasizing phenotype and druggable data (mapped by ortholo ...
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Bma_top_200
Dany Shanmugam – posted on 2010-04-21 12:49:45
There seems to be no overlap between these two which needs to be verified ...
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Queries for PLoS Neglected Tropical Diseases
Greg Crowther – posted on 2010-04-29 03:20:54
Included in this set are 10 queries associated with a manuscript being submitted to PLoS Neglected T ...
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L. major queries for PLoS NTD Fig. 1
Greg Crowther – posted on 2010-06-02 21:55:10
L. major queries being "published" so Fernan can access them in revising Fig. 1 for PLoS NTD. ...
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Hasan (2006) persistence rankings for M. tuberculosis
Greg Crowther – posted on 2010-06-04 22:07:07
A copy of the rankings reported by S. Hasan et al. (PLoS Comput Biol 2006), with emphasis on importa ...
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Mtb Murphy & Brown data (2007) for Mtu gene expression and attenuation rankings
Dany Shanmugam – posted on 2010-07-12 20:14:47
This data set is obtained from the supplementary data for of the concerned article. Here genes were ...
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Tgon generic query set
Dany Shanmugam – posted on 2011-03-25 19:50:47
This Query set was constructed based on the generic queries that were run for identifying targets fr ...
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C. elegans tissue-specific gene expression, Helminths ortholog mapping
Santiago Carmona – posted on 2011-06-10 00:09:23
Here I uploaded C. elegans Neuron and Muscle specifically expressed genes (predicted) taken from "Gl ...
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Schistosoma mansoni genome prioritization including C. elegans tissue-specific gene expression data
Santiago Carmona – posted on 2011-06-15 23:33:13
This ranked list of S. mansoni targets was constructed from the published list 336 (for PLOS-NTD pap ...
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Brugia malayi genome prioritization including C. elegans tissue-specific gene expression data
Santiago Carmona – posted on 2011-06-16 17:05:34
This ranked list of B. malayi targets was constructed from the published list 361 (for PLOS-NTD pape ...
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PhD research Samuel
Samuel Egieyeh – posted on 2012-03-06 09:03:21
Plasmodium falciparum and vivax proteins (druggability index of 0.5 and 0.7) ...
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[tcruzi] targets ranked by nucleotide diversity (TcSNP)
Fernan Aguero – posted on 2012-07-03 17:06:05
This is a prioritization exercise for the T. cruzi genome, where genetic polymorphism data (SNPs) ha ...
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SSGCID TDR Pfal example
isabelle phan – posted on 2013-01-04 16:26:18
Example query for MiMB Structural Genomics and Drug Discovery chapter 3. ...
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Community share - Compounds