Alignment of sequences from the RiDB on the ViDB by all three aligners.

Total_alignments.zip

Catanach, Therese A.
Sweet, Andrew D.
Nguyen, Nam-phuong D.
Peery, Rhiannon M.
Debevec, Andrew H.
Thomer, Andrea K.
Owings, Amanda C.
Boyd, Bret M.
Katz, Aron D.
Soto-Adames, Felipe N.
Allen, Julie M.

January 2019

Sequence alignments of the total (genomes + fragmentary sequences) hepatitis B virus data set. Files...

Statistical alignment and applications

Dtc Bioinformatics Module Day
Joe Herman
Rune Lyngsø

January 2012

Given a set of homologous protein/DNA/RNA sequences, finding their multiple alignment means arrangin...

Fig 6 -

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

IGV representation of chimeric contigs between rRNA and viral sequences mapped on the Xanthi rhabdov...

Fig 2 -

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

A) Match matrix of ribosomal hits on viral sequences. X-axis contains all the sequences from the ViD...

Bar graphs demonstrating proportion of viral reads homologous to phage that infect members of certain bacterial phyla for feces (Panel A) and saliva (Panel B), or the proportion of 16S rRNA sequence reads from certain phyla for feces (Panel C) and saliva (Panel D).

Shira R. Abeles (787774)
Melissa Ly (787775)
Tasha M. Santiago-Rodriguez (418417)
David T. Pride (787776)

August 2015

The y-axis shows the percentage of reads, and the x-axis represents the different subjects studie...

Alignment of mock human 28S rRNA reads on the human 28S reference sequence (M11167.1) for validation.

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

X-axis shows the bp positions of the reference and Y-axis shows how many reads of the mock file were...

Nucleotide alignment for the 508-sequence 16S rRNA tree

Gubry-Rangin, Cécile
Kratsch, Christina
Williams, Tom A.
McHardy, Alice C.
Embley, T. Martin
Prosser, James I.
Macqueen, Daniel J.

July 2015

Nucleotide alignment for the 508-sequence 16S rRNA tree, derived from merging non-redundant sequence...

The sequence alignment visualization of large gene sets analyzed with the AlignStatPlot package.

Alsamman M. Alsamman (8372094)
Achraf El Allali (8343603)
Morad M. Mokhtar (3150969)
Khaled Al-Sham’aa (12455070)
Ahmed E. Nassar (14813422)
Khaled H. Mousa (14813425)
Zakaria Kehel (5134400)

September 2023

The sequence alignment visualization of large gene sets analyzed with the AlignStatPlot package.</p

Statistical alignment results of non-vitellogenic and vitellogenic libraries mapped to reference genome.

Uraipan Saetan (3220932)
Unitsa Sangket (721240)
Panchalika Deachamag (3220935)
Wilaiwan Chotigeat (540109)

October 2016

Statistical alignment results of non-vitellogenic and vitellogenic libraries mapped to reference ...

Number of analyzed RNA and DNA sequences in the study (after alignment to Galgal4).

Laure Frésard (747003)
Sophie Leroux (64459)
Pierre-François Roux (464355)
Christophe Klopp (120981)
Stéphane Fabre (153139)
Diane Esquerré (86529)
Patrice Dehais (3585785)
Anis Djari (414687)
David Gourichon (58066)
Sandrine Lagarrigue (214977)
Frédérique Pitel (64462)

May 2015

Number of analyzed RNA and DNA sequences in the study (after alignment to Galgal4).</p

Data flow diagram for the RRM structural and sequence data to generate the master alignment, use it to align the RRM-RNA complexes and cluster them depending on their binding mode so the RNAs can be aligned.

Joel Roca-Martínez (10693928)
Hrishikesh Dhondge (14493310)
Michael Sattler (17373)
Wim F. Vranken (767930)

January 2023

The different Datasets that have been made available are named and labelled with its corresponding n...

Gene_Alignments

Rivera-Rivera, Carlos J.
Montoya-Burgos, Juan I.

September 2017

The sequence data used in our analyses, already aligned with areas of ambiguous alignment removed, a...

Number of unigenes related to RNAi.

Songqing Wu (2184277)
Xiaoli Zhu (767993)
Zhaoxia Liu (2184283)
Ensi Shao (2184274)
Carballar-Lejarazú Rebeca (2184265)
Yajie Guo (518157)
Yueting Xiong (2184271)
Yani Mou (2184280)
Runxue Xu (2184262)
Xia Hu (767914)
Guanghong Liang (2184286)
Shuangquan Zou (2184268)
Xiong Guan (423435)
Feiping Zhang (2184259)

January 2016

x-axis indicates the corresponding number of unigenes and y-axis indicates the specific unigenes ...

Area chart showing the sequence alignments of target genes, primers and probes.

Weiping Xu (450173)
Ulrika Morris (453636)
Berit Aydin-Schmidt (453635)
Mwinyi I. Msellem (264510)
Delér Shakely (453633)
Max Petzold (177356)
Anders Björkman (81476)
Andreas Mårtensson (81466)

March 2015

a) Five copies of the 18S rRNA gene in the P. falciparum genome. b) Five copies of ...

Data Alignment

Siler, Cameron D.
Dececchi, T. Alex
Merkord, Chris L.
Davis, Drew R.
Christiani, Tony J.
Brown, Rafe M.

October 2013

This is the alignment file for the molecular dataset used in the study. A character set is listed a...

Total_alignments.zip

Catanach, Therese A.
Sweet, Andrew D.
Nguyen, Nam-phuong D.
Peery, Rhiannon M.
Debevec, Andrew H.
Thomer, Andrea K.
Owings, Amanda C.
Boyd, Bret M.
Katz, Aron D.
Soto-Adames, Felipe N.
Allen, Julie M.

January 2019

Sequence alignments of the total (genomes + fragmentary sequences) hepatitis B virus data set. Files...

Statistical alignment and applications

Dtc Bioinformatics Module Day
Joe Herman
Rune Lyngsø

January 2012

Given a set of homologous protein/DNA/RNA sequences, finding their multiple alignment means arrangin...

Fig 6 -

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

IGV representation of chimeric contigs between rRNA and viral sequences mapped on the Xanthi rhabdov...

Fig 2 -

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

A) Match matrix of ribosomal hits on viral sequences. X-axis contains all the sequences from the ViD...

Bar graphs demonstrating proportion of viral reads homologous to phage that infect members of certain bacterial phyla for feces (Panel A) and saliva (Panel B), or the proportion of 16S rRNA sequence reads from certain phyla for feces (Panel C) and saliva (Panel D).

Shira R. Abeles (787774)
Melissa Ly (787775)
Tasha M. Santiago-Rodriguez (418417)
David T. Pride (787776)

August 2015

The y-axis shows the percentage of reads, and the x-axis represents the different subjects studie...

Alignment of mock human 28S rRNA reads on the human 28S reference sequence (M11167.1) for validation.

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

X-axis shows the bp positions of the reference and Y-axis shows how many reads of the mock file were...

Nucleotide alignment for the 508-sequence 16S rRNA tree

Gubry-Rangin, Cécile
Kratsch, Christina
Williams, Tom A.
McHardy, Alice C.
Embley, T. Martin
Prosser, James I.
Macqueen, Daniel J.

July 2015

Nucleotide alignment for the 508-sequence 16S rRNA tree, derived from merging non-redundant sequence...

The sequence alignment visualization of large gene sets analyzed with the AlignStatPlot package.

Alsamman M. Alsamman (8372094)
Achraf El Allali (8343603)
Morad M. Mokhtar (3150969)
Khaled Al-Sham’aa (12455070)
Ahmed E. Nassar (14813422)
Khaled H. Mousa (14813425)
Zakaria Kehel (5134400)

September 2023

The sequence alignment visualization of large gene sets analyzed with the AlignStatPlot package.</p

Statistical alignment results of non-vitellogenic and vitellogenic libraries mapped to reference genome.

Uraipan Saetan (3220932)
Unitsa Sangket (721240)
Panchalika Deachamag (3220935)
Wilaiwan Chotigeat (540109)

October 2016

Statistical alignment results of non-vitellogenic and vitellogenic libraries mapped to reference ...

Number of analyzed RNA and DNA sequences in the study (after alignment to Galgal4).

Laure Frésard (747003)
Sophie Leroux (64459)
Pierre-François Roux (464355)
Christophe Klopp (120981)
Stéphane Fabre (153139)
Diane Esquerré (86529)
Patrice Dehais (3585785)
Anis Djari (414687)
David Gourichon (58066)
Sandrine Lagarrigue (214977)
Frédérique Pitel (64462)

May 2015

Number of analyzed RNA and DNA sequences in the study (after alignment to Galgal4).</p

Data flow diagram for the RRM structural and sequence data to generate the master alignment, use it to align the RRM-RNA complexes and cluster them depending on their binding mode so the RNAs can be aligned.

Joel Roca-Martínez (10693928)
Hrishikesh Dhondge (14493310)
Michael Sattler (17373)
Wim F. Vranken (767930)

January 2023

The different Datasets that have been made available are named and labelled with its corresponding n...

Gene_Alignments

Rivera-Rivera, Carlos J.
Montoya-Burgos, Juan I.

September 2017

The sequence data used in our analyses, already aligned with areas of ambiguous alignment removed, a...

Number of unigenes related to RNAi.

Songqing Wu (2184277)
Xiaoli Zhu (767993)
Zhaoxia Liu (2184283)
Ensi Shao (2184274)
Carballar-Lejarazú Rebeca (2184265)
Yajie Guo (518157)
Yueting Xiong (2184271)
Yani Mou (2184280)
Runxue Xu (2184262)
Xia Hu (767914)
Guanghong Liang (2184286)
Shuangquan Zou (2184268)
Xiong Guan (423435)
Feiping Zhang (2184259)

January 2016

x-axis indicates the corresponding number of unigenes and y-axis indicates the specific unigenes ...

Area chart showing the sequence alignments of target genes, primers and probes.

Weiping Xu (450173)
Ulrika Morris (453636)
Berit Aydin-Schmidt (453635)
Mwinyi I. Msellem (264510)
Delér Shakely (453633)
Max Petzold (177356)
Anders Björkman (81476)
Andreas Mårtensson (81466)

March 2015

a) Five copies of the 18S rRNA gene in the P. falciparum genome. b) Five copies of ...

Data Alignment

Siler, Cameron D.
Dececchi, T. Alex
Merkord, Chris L.
Davis, Drew R.
Christiani, Tony J.
Brown, Rafe M.

October 2013

This is the alignment file for the molecular dataset used in the study. A character set is listed a...

Total_alignments.zip

Catanach, Therese A.
Sweet, Andrew D.
Nguyen, Nam-phuong D.
Peery, Rhiannon M.
Debevec, Andrew H.
Thomer, Andrea K.
Owings, Amanda C.
Boyd, Bret M.
Katz, Aron D.
Soto-Adames, Felipe N.
Allen, Julie M.

January 2019

Sequence alignments of the total (genomes + fragmentary sequences) hepatitis B virus data set. Files...

Statistical alignment and applications

Dtc Bioinformatics Module Day
Joe Herman
Rune Lyngsø

January 2012

Given a set of homologous protein/DNA/RNA sequences, finding their multiple alignment means arrangin...

Fig 6 -

Nikolas Dovrolis (6844682)
Katerina Kassela (11250818)
Konstantinos Konstantinidis (3426338)
Adamantia Kouvela (11250821)
Stavroula Veletza (11250824)
Ioannis Karakasiliotis (251942)

August 2021

IGV representation of chimeric contigs between rRNA and viral sequences mapped on the Xanthi rhabdov...

Alignment of sequences from the RiDB on the ViDB by all three aligners.

Abstract

Extracted data

Alignment of sequences from the RiDB on the ViDB by all three aligners.

Abstract

Extracted data

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