MOESM5 of DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

MURI Metabarcoding Sample Dataset

Alexandria Im

August 2023

This is a test dataset for the metabarcoding_QAQC_pipeline repo: https://github.com/MMARINeDNA/meta...

SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data

Dufresne, Yoann
Lejzerowicz, Franck
Perret-Gentil, Laure Apotheloz
Pawlowski, Jan
Cordier, Tristan

February 2019

International audienceHigh-throughput amplicon sequencing of environmental DNA (eDNA metabarcoding) ...

MOESM6 of Differential DNA methylation and lymphocyte proportions in a Costa Rican high longevity region

Lisa McEwen (3968174)
Alexander Morin (3828940)
Rachel Edgar (272409)
Julia MacIsaac (3575030)
Meaghan Jones (3075183)
William Dow (641603)
Luis Rosero-Bixby (2601370)
Michael Kobor (3470795)
David Rehkopf (848778)

April 2017

Additional file 6: Table S1. Pyrosequencing primer sequences designed with Qiagen Pyromark Assay Des...

MOESM1 of DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Marie Zepeda-Mendoza (3451433)
Kristine Bohmann (216410)
Aldo Carmona Baez (3451436)
M. Gilbert (1949125)

May 2016

Additional file 1. Supporting information. This file contains the extended information on the genera...

DAMe: A toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Zepeda-Mendoza, Marie Lisandra
Bohmann, Kristine
Carmona Baez, Aldo
Gilbert, M. Thomas P.

May 2016

Background: DNA metabarcoding is an approach for identifying multiple taxa in an environmental sampl...

Additional file 1 of Characterizing parasitic nematode faunas in faeces and soil using DNA metabarcoding

Marie Louise Davey (11310615)
Kjersti Selstad Utaaker (11310618)
Frode Fossøy (222604)

August 2021

Additional file 1: Table S1. Metabarcoding sequences retained after filtering, denoising, merging an...

MOESM1 of Molecular identification of Uncaria (Gouteng) through DNA barcoding

Yin-lin Tang (3578363)
Yao-sheng Wu (3578372)
Rui-song Huang (3578375)
Nai-xia Chao (3578369)
Yong Liu (6908)
Peng Xu (17962)
Ke-zhi Li (3578366)
Dan-zhao Cai (3578360)
Yu Luo (277978)

February 2016

Additional file 1: The univeral primers for candidate barcodes PCR amplication and sequening in the ...

H.J. Andrews Malaise-trap metabarcoding dataset, Session 1

Yu, Douglas

May 2024

These are the scripts to prepare the input data files for the eDNAPlus software (https://github.com/...

Additional file 5 of MGFM: a novel tool for detection of tissue and cell specific marker genes from microarray gene expression data

Khadija El Amrani (3441908)
Harald Stachelscheid (2565064)
Fritz Lekschas (3441905)
Andreas Kurtz (124390)
Miguel Andrade-Navarro (3421679)

August 2015

Primer sequences. This file includes the list of all primer sequences used by PCR. (55.7KB PDF

Reference_sequences

Laurence Clarke (3281907)
Julien Soubrier (198167)
Laura Weyrich (3323889)
Alan Cooper (9827)
Laurence J. Clarke (3281904)

November 2016

Reference DNA sequences for each taxon in the artificial DNA blend used to test the five metabarcodi...

Supplementary File 5 - Specimen & laboratory data

Rix, Michael G.
Cooper, Steven J. B.
Meusemann, Karen
Klopfstein, Seraina
Harrison, Sophie E.
Harvey, Mark S.
Austin, Andrew D.

February 2017

Supplementary File 5. Collection and repository data for every specimen sequenced as part of this st...

MOESM1 of Robust sampling and preservation of DNA for microbial community profiling in field experiments

Anneloes Groenenboom (6500870)
Eddy Smid (5483039)
Sijmen Schoustra (3200658)

March 2019

Additional file 1: Supplement A. Full DNA extraction protocol used for both filter paper and liquid ...

MOESM1 of Linear and exponential TAIL-PCR: a method for efficient and quick amplification of flanking sequences adjacent to Tn5 transposon insertion sites

Xianbo Jia (3280656)
Xinjian Lin (424987)
Jichen Chen (4569529)

November 2017

Additional file 1. 1. Insertion Tn5 sequence and the positions of the specific primers. 2. Sequencin...

Unfiltered sequencing data for fungal metabarcode (table format)

July 2015

This table contains pre-filtered sequencing data (i.e. usable merged reads assigned to their origina...

MOESM1 of Accuracy of four mononucleotide-repeat markers for the identification of DNA mismatch-repair deficiency in solid tumors

Yuko Takehara (4764210)
Takeshi Nagasaka (8474)
Akihiro Nyuya (4764216)
Tomoko Haruma (4764213)
Junko Haraga (4764204)
Yoshiko Mori (459176)
Keiichiro Nakamura (4764207)
Toshiyoshi Fujiwara (157767)
C. Boland (4764219)
Ajay Goel (130080)

January 2018

Additional file 1: Table S1. Primers for tetra-mononucleotide repeat PCR of tumors (Tetraplex) syste...

MURI Metabarcoding Sample Dataset

Alexandria Im

August 2023

This is a test dataset for the metabarcoding_QAQC_pipeline repo: https://github.com/MMARINeDNA/meta...

SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data

Dufresne, Yoann
Lejzerowicz, Franck
Perret-Gentil, Laure Apotheloz
Pawlowski, Jan
Cordier, Tristan

February 2019

International audienceHigh-throughput amplicon sequencing of environmental DNA (eDNA metabarcoding) ...

MOESM6 of Differential DNA methylation and lymphocyte proportions in a Costa Rican high longevity region

Lisa McEwen (3968174)
Alexander Morin (3828940)
Rachel Edgar (272409)
Julia MacIsaac (3575030)
Meaghan Jones (3075183)
William Dow (641603)
Luis Rosero-Bixby (2601370)
Michael Kobor (3470795)
David Rehkopf (848778)

April 2017

Additional file 6: Table S1. Pyrosequencing primer sequences designed with Qiagen Pyromark Assay Des...

MOESM1 of DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Marie Zepeda-Mendoza (3451433)
Kristine Bohmann (216410)
Aldo Carmona Baez (3451436)
M. Gilbert (1949125)

May 2016

Additional file 1. Supporting information. This file contains the extended information on the genera...

DAMe: A toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Zepeda-Mendoza, Marie Lisandra
Bohmann, Kristine
Carmona Baez, Aldo
Gilbert, M. Thomas P.

May 2016

Background: DNA metabarcoding is an approach for identifying multiple taxa in an environmental sampl...

Additional file 1 of Characterizing parasitic nematode faunas in faeces and soil using DNA metabarcoding

Marie Louise Davey (11310615)
Kjersti Selstad Utaaker (11310618)
Frode Fossøy (222604)

August 2021

Additional file 1: Table S1. Metabarcoding sequences retained after filtering, denoising, merging an...

MOESM1 of Molecular identification of Uncaria (Gouteng) through DNA barcoding

Yin-lin Tang (3578363)
Yao-sheng Wu (3578372)
Rui-song Huang (3578375)
Nai-xia Chao (3578369)
Yong Liu (6908)
Peng Xu (17962)
Ke-zhi Li (3578366)
Dan-zhao Cai (3578360)
Yu Luo (277978)

February 2016

Additional file 1: The univeral primers for candidate barcodes PCR amplication and sequening in the ...

H.J. Andrews Malaise-trap metabarcoding dataset, Session 1

Yu, Douglas

May 2024

These are the scripts to prepare the input data files for the eDNAPlus software (https://github.com/...

Additional file 5 of MGFM: a novel tool for detection of tissue and cell specific marker genes from microarray gene expression data

Khadija El Amrani (3441908)
Harald Stachelscheid (2565064)
Fritz Lekschas (3441905)
Andreas Kurtz (124390)
Miguel Andrade-Navarro (3421679)

August 2015

Primer sequences. This file includes the list of all primer sequences used by PCR. (55.7KB PDF

Reference_sequences

Laurence Clarke (3281907)
Julien Soubrier (198167)
Laura Weyrich (3323889)
Alan Cooper (9827)
Laurence J. Clarke (3281904)

November 2016

Reference DNA sequences for each taxon in the artificial DNA blend used to test the five metabarcodi...

Supplementary File 5 - Specimen & laboratory data

Rix, Michael G.
Cooper, Steven J. B.
Meusemann, Karen
Klopfstein, Seraina
Harrison, Sophie E.
Harvey, Mark S.
Austin, Andrew D.

February 2017

Supplementary File 5. Collection and repository data for every specimen sequenced as part of this st...

MOESM1 of Robust sampling and preservation of DNA for microbial community profiling in field experiments

Anneloes Groenenboom (6500870)
Eddy Smid (5483039)
Sijmen Schoustra (3200658)

March 2019

Additional file 1: Supplement A. Full DNA extraction protocol used for both filter paper and liquid ...

MOESM1 of Linear and exponential TAIL-PCR: a method for efficient and quick amplification of flanking sequences adjacent to Tn5 transposon insertion sites

Xianbo Jia (3280656)
Xinjian Lin (424987)
Jichen Chen (4569529)

November 2017

Additional file 1. 1. Insertion Tn5 sequence and the positions of the specific primers. 2. Sequencin...

Unfiltered sequencing data for fungal metabarcode (table format)

July 2015

This table contains pre-filtered sequencing data (i.e. usable merged reads assigned to their origina...

MOESM1 of Accuracy of four mononucleotide-repeat markers for the identification of DNA mismatch-repair deficiency in solid tumors

Yuko Takehara (4764210)
Takeshi Nagasaka (8474)
Akihiro Nyuya (4764216)
Tomoko Haruma (4764213)
Junko Haraga (4764204)
Yoshiko Mori (459176)
Keiichiro Nakamura (4764207)
Toshiyoshi Fujiwara (157767)
C. Boland (4764219)
Ajay Goel (130080)

January 2018

Additional file 1: Table S1. Primers for tetra-mononucleotide repeat PCR of tumors (Tetraplex) syste...

MURI Metabarcoding Sample Dataset

Alexandria Im

August 2023

This is a test dataset for the metabarcoding_QAQC_pipeline repo: https://github.com/MMARINeDNA/meta...

SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data

Dufresne, Yoann
Lejzerowicz, Franck
Perret-Gentil, Laure Apotheloz
Pawlowski, Jan
Cordier, Tristan

February 2019

International audienceHigh-throughput amplicon sequencing of environmental DNA (eDNA metabarcoding) ...

MOESM6 of Differential DNA methylation and lymphocyte proportions in a Costa Rican high longevity region

Lisa McEwen (3968174)
Alexander Morin (3828940)
Rachel Edgar (272409)
Julia MacIsaac (3575030)
Meaghan Jones (3075183)
William Dow (641603)
Luis Rosero-Bixby (2601370)
Michael Kobor (3470795)
David Rehkopf (848778)

April 2017

Additional file 6: Table S1. Pyrosequencing primer sequences designed with Qiagen Pyromark Assay Des...

MOESM5 of DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Abstract

Extracted data

MOESM5 of DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses

Abstract

Extracted data

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