Additional file 2: of Metrabase: a cheminformatics and bioinformatics database for small molecule transporter data analysis and (Q)SAR modeling

Additional file 2: of A comparison of methods used to unveil the genetic and metabolic pool in the built environment

Cinta Gomez-Silvan (5106872)
Marcus Leung (3488480)
Katherine Grue (5106866)
Randeep Kaur (5106869)
Xinzhao Tong (4493275)
Patrick Lee (2088535)
Gary Andersen (150621)

April 2018

Table S2. Nucleic acids processing protocols. qPCR and retrotranscription reactions and conditions. ...

Additional file 1: of Energetic evolution of cellular Transportomes

Behrooz Darbani (822288)
Douglas Kell (3827674)
Irina Borodina (349329)

May 2018

Table S1. The list of organisms with publicly-available data on the ion channels and secondary trans...

The transporter classification database.

Saier, Milton H
Reddy, Vamsee S
Tamang, Dorjee G
Västermark, Ake

January 2014

The Transporter Classification Database (TCDB; http://www.tcdb.org) serves as a common reference poi...

Additional file 1: of Metrabase: a cheminformatics and bioinformatics database for small molecule transporter data analysis and (Q)SAR modeling

Lora Mak (3766753)
David Marcus (1853962)
Andrew Howlett (1880242)
Galina Yarova (3766759)
Guus Duchateau (1989070)
Werner Klaffke (1773181)
Andreas Bender (192334)
Robert Glen (3766756)

June 2015

The transporter substrate dataset. The Additional file 1 contains data for compounds that were found...

DOI 10.1186/s13321-015-0083-5 DATABASE

Lora Mak
David Marcus
Andrew Howlett
Galina Yarova
Guus Duchateau
Werner Klaffke
Andreas Bender
Robert C Glen

August 2016

and bioinformatics database for small molecule transporter data analysis and (Q)SAR modelin

TSdb: A database of transporter substrates linking metabolic pathways and transporter systems on a genome scale via their shared substrates

Zhao, Min
Chen, Y M
Qu, D
Qu, H

January 2011

TSdb (http://tsdb. cbi. pku. edu. cn) is the first manually curated central repository that stores f...

Additional file 1: of MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics

Youzhong Liu (3554645)
Kirill Smirnov (2850212)
Marianna Lucio (261549)
RĂŠgis Gougeon (3554642)
HervĂŠ Alexandre (3554648)
Philippe Schmitt-Kopplin (82664)

March 2016

Source code and raw datasets used for MetICA evaluation. Source code, raw datasets and user manual w...

Additional file 1: of IDPM: an online database for ion distribution in protein molecules

Xilun Xiang (4973101)
Haiguang Liu (1816357)

March 2018

Supplementary materials. Additional information about the IDPM database. (DOCX 39Â kb

Additional file 2: of MINEs: open access databases of computationally predicted enzyme promiscuity products for untargeted metabolomics

James Jeffryes (3764044)
Ricardo Colastani (3764038)
Mona Elbadawi-Sidhu (2851046)
Tobias Kind (17097)
Thomas Niehaus (2188195)
Linda Broadbelt (3764041)
Andrew Hanson (11355)
Oliver Fiehn (17098)
Keith Tyo (141316)
Christopher Henry (2434234)

August 2015

Sample extraction, LCâMS data collection and processing protocols and repository access

Analysis and Development of Database Resources for the Integration of Transporter Protein Research Across Biological Disciplines with an Emphasis on Vacuolar Transporters in Plants

Michel, Matthew Edward

January 2022

Transmembrane transporter proteins facilitate an essential biological role in all living organisms b...

Additional file 1: of PubChem structure–activity relationship (SAR) clusters

Sunghwan Kim (1283325)
Lianyi Han (3762271)
Bo Yu (241082)
Volker Hähnke (3762274)
Evan Bolton (75373)
Stephen Bryant (3762277)

July 2015

(example1_aid_47904.txt): contains the results of PubChem SAR clustering (Clusters 1–27) for AID 479...

Additional file 1: of Genomic data mining reveals a rich repertoire of transport proteins in Streptomyces

Zhan Zhou (619006)
Ning Sun (162468)
Shanshan Wu (348762)
Yong-Quan Li (600624)
Yufeng Wang (274657)

August 2016

A detailed description of transporters in eleven Streptomyces genomes. The file includs protein IDs,...

TSdb: A database of transporter substrates linking metabolic pathways and transporter systems on a genome scale via their shared substrates

Zhao Min
Chen YanMing
Qu DaCheng
Qu Hong

January 2011

TSdb (http://tsdb.cbi.pku.edu.cn) is the first manually curated central repository that stores forma...

Additional file 3: of Genomic prediction of tuberculosis drug-resistance: benchmarking existing databases and prediction algorithms

Tra-My Ngo (6318062)
Yik-Ying Teo (159446)

February 2019

Characteristics of the four bioinformatics software for predicting drug resistance from Mtb genome s...

Additional file 1: of PROXIMAL: a method for Prediction of Xenobiotic Metabolism

Mona Yousofshahi (3468815)
Sara Manteiga (3468812)
Charmian Wu (3468818)
Kyongbum Lee (197321)
Soha Hassoun (197315)

December 2015

This file includes a list of substrates used in estimating cytochrome P450 enzyme activity. The data...

Additional file 2: of A comparison of methods used to unveil the genetic and metabolic pool in the built environment

Cinta Gomez-Silvan (5106872)
Marcus Leung (3488480)
Katherine Grue (5106866)
Randeep Kaur (5106869)
Xinzhao Tong (4493275)
Patrick Lee (2088535)
Gary Andersen (150621)

April 2018

Table S2. Nucleic acids processing protocols. qPCR and retrotranscription reactions and conditions. ...

Additional file 1: of Energetic evolution of cellular Transportomes

Behrooz Darbani (822288)
Douglas Kell (3827674)
Irina Borodina (349329)

May 2018

Table S1. The list of organisms with publicly-available data on the ion channels and secondary trans...

The transporter classification database.

Saier, Milton H
Reddy, Vamsee S
Tamang, Dorjee G
Västermark, Ake

January 2014

The Transporter Classification Database (TCDB; http://www.tcdb.org) serves as a common reference poi...

Additional file 1: of Metrabase: a cheminformatics and bioinformatics database for small molecule transporter data analysis and (Q)SAR modeling

Lora Mak (3766753)
David Marcus (1853962)
Andrew Howlett (1880242)
Galina Yarova (3766759)
Guus Duchateau (1989070)
Werner Klaffke (1773181)
Andreas Bender (192334)
Robert Glen (3766756)

June 2015

The transporter substrate dataset. The Additional file 1 contains data for compounds that were found...

DOI 10.1186/s13321-015-0083-5 DATABASE

Lora Mak
David Marcus
Andrew Howlett
Galina Yarova
Guus Duchateau
Werner Klaffke
Andreas Bender
Robert C Glen

August 2016

and bioinformatics database for small molecule transporter data analysis and (Q)SAR modelin

TSdb: A database of transporter substrates linking metabolic pathways and transporter systems on a genome scale via their shared substrates

Zhao, Min
Chen, Y M
Qu, D
Qu, H

January 2011

TSdb (http://tsdb. cbi. pku. edu. cn) is the first manually curated central repository that stores f...

Additional file 1: of MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics

Youzhong Liu (3554645)
Kirill Smirnov (2850212)
Marianna Lucio (261549)
RĂŠgis Gougeon (3554642)
HervĂŠ Alexandre (3554648)
Philippe Schmitt-Kopplin (82664)

March 2016

Source code and raw datasets used for MetICA evaluation. Source code, raw datasets and user manual w...

Additional file 1: of IDPM: an online database for ion distribution in protein molecules

Xilun Xiang (4973101)
Haiguang Liu (1816357)

March 2018

Supplementary materials. Additional information about the IDPM database. (DOCX 39Â kb

Additional file 2: of MINEs: open access databases of computationally predicted enzyme promiscuity products for untargeted metabolomics

James Jeffryes (3764044)
Ricardo Colastani (3764038)
Mona Elbadawi-Sidhu (2851046)
Tobias Kind (17097)
Thomas Niehaus (2188195)
Linda Broadbelt (3764041)
Andrew Hanson (11355)
Oliver Fiehn (17098)
Keith Tyo (141316)
Christopher Henry (2434234)

August 2015

Sample extraction, LCâMS data collection and processing protocols and repository access

Analysis and Development of Database Resources for the Integration of Transporter Protein Research Across Biological Disciplines with an Emphasis on Vacuolar Transporters in Plants

Michel, Matthew Edward

January 2022

Transmembrane transporter proteins facilitate an essential biological role in all living organisms b...

Additional file 1: of PubChem structure–activity relationship (SAR) clusters

Sunghwan Kim (1283325)
Lianyi Han (3762271)
Bo Yu (241082)
Volker Hähnke (3762274)
Evan Bolton (75373)
Stephen Bryant (3762277)

July 2015

(example1_aid_47904.txt): contains the results of PubChem SAR clustering (Clusters 1–27) for AID 479...

Additional file 1: of Genomic data mining reveals a rich repertoire of transport proteins in Streptomyces

Zhan Zhou (619006)
Ning Sun (162468)
Shanshan Wu (348762)
Yong-Quan Li (600624)
Yufeng Wang (274657)

August 2016

A detailed description of transporters in eleven Streptomyces genomes. The file includs protein IDs,...

TSdb: A database of transporter substrates linking metabolic pathways and transporter systems on a genome scale via their shared substrates

Zhao Min
Chen YanMing
Qu DaCheng
Qu Hong

January 2011

TSdb (http://tsdb.cbi.pku.edu.cn) is the first manually curated central repository that stores forma...

Additional file 3: of Genomic prediction of tuberculosis drug-resistance: benchmarking existing databases and prediction algorithms

Tra-My Ngo (6318062)
Yik-Ying Teo (159446)

February 2019

Characteristics of the four bioinformatics software for predicting drug resistance from Mtb genome s...

Additional file 1: of PROXIMAL: a method for Prediction of Xenobiotic Metabolism

Mona Yousofshahi (3468815)
Sara Manteiga (3468812)
Charmian Wu (3468818)
Kyongbum Lee (197321)
Soha Hassoun (197315)

December 2015

This file includes a list of substrates used in estimating cytochrome P450 enzyme activity. The data...

Additional file 2: of A comparison of methods used to unveil the genetic and metabolic pool in the built environment

Cinta Gomez-Silvan (5106872)
Marcus Leung (3488480)
Katherine Grue (5106866)
Randeep Kaur (5106869)
Xinzhao Tong (4493275)
Patrick Lee (2088535)
Gary Andersen (150621)

April 2018

Table S2. Nucleic acids processing protocols. qPCR and retrotranscription reactions and conditions. ...

Additional file 1: of Energetic evolution of cellular Transportomes

Behrooz Darbani (822288)
Douglas Kell (3827674)
Irina Borodina (349329)

May 2018

Table S1. The list of organisms with publicly-available data on the ion channels and secondary trans...

The transporter classification database.

Saier, Milton H
Reddy, Vamsee S
Tamang, Dorjee G
Västermark, Ake

January 2014

The Transporter Classification Database (TCDB; http://www.tcdb.org) serves as a common reference poi...

Additional file 2: of Metrabase: a cheminformatics and bioinformatics database for small molecule transporter data analysis and (Q)SAR modeling

Abstract

Extracted data

Additional file 2: of Metrabase: a cheminformatics and bioinformatics database for small molecule transporter data analysis and (Q)SAR modeling

Abstract

Extracted data

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