GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm.

GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm.

Homology inference is important for evolutionary biology and mainly based on a significant sequence similarity, which, in general, is a good indicator of homology. The algorithm has also been designed to take advantage of in order to gene conservation as an indication of homologous regions. We have developed GenFamClust method is based on the quantification of both the conservation of gene order and sequence similarity.


In this study, we validate GenFamClust by comparing homology inference algorithms well known in synthetic dataset. We apply some popular clustering algorithms in homologs concluded by GenFamClust and other algorithms on datasets metazoan and study the results.

Accuracy, equality, interdependence, and other characteristics were investigated for a family of genes produced by a clustering algorithm. GenFamClust also applied to genes from a set of complete fungal genome and gene families that deduced using clustering. The resulting gene families compared with the gold standard of manually curated pillar of Yeast Gene Order Browser. We found that the gene-sequence component GenFamClust simple, yet biologically realistic, and local information for homologous synteny catch.


Research shows that GenFamClust pipe is more accurate, information, and comprehensive to draw conclusions and family homologs of genes and gene-family homology inference method more commonly used.
Salmonids is a ray-finned fish that are 11 genera and at least 70 species, including Atlantic salmon, whitefishes, graylings, rainbow trout, and char.

The ancestors of all Salmonidae experience a whole genome duplication (WGD) ~ 80 million years ago, which resulted in the genome autotetraploid. rediplodization genomic still occur in salmonid species, providing a unique system for studying the consequences of the evolution of the whole genome duplication. In recent years, high-quality genome sequence of the Atlantic salmon and rainbow trout has been formed, because the values ​​of their scientific and commercial. In this paper we introduce SalmoBase molecular tools for creating resources for salmonids publicly available in order visualization and analytic tools.

 GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm.
GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm.

Synteny Portal: a web-based portal application for the analysis of synteny blocks.

The latest advances in next-generation sequencing technologies and genome assembly algorithms have allowed the accumulation of a large volume of genome sequences from different species. It has provided new opportunities for large-scale comparative genomics studies. Identifying and utilizing synteny blocks, which are regions of the genome conserved among several species, is key to understanding the genome architecture and history of the evolution of genomes. However, the construction and visualization of synteny blocks from several species are very challenging, especially for a biologist with the lack of computing skills.

Here, we present Synteny Portal, a web-based portal application versatility to build, visualize and browse the synteny blocks. With Synteny Portal, users can easily (i) block build synteny between species using alignments prebuilt at UCSC database of genome browser, (ii) visualizing and downloading relationship syntenic as high quality images, (iii) block browse synteny with genetic information, and (iv) to download the details of synteny blocks to be used as input for downstream synteny-based analysis, all within a web-based interface that is intuitive and easy to use.

E. coli RecA Protein

01-001 200 ug
EUR 205
Description: The E. coli RecA Protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvA protein

01-007 50 ug
EUR 479
Description: The E. coli RuvA protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvA protein

01-008 250 ug
EUR 1184
Description: The E. coli RuvA protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvB protein

01-009 50 ug
EUR 479
Description: The E. coli RuvB protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvB protein

01-010 250 ug
EUR 1184
Description: The E. coli RuvB protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvC protein

01-011 50 ug
EUR 479
Description: The E. coli RuvC protein is available in Europe and for worldwide shipping via Gentaur.

E. coli RuvC protein

01-012 250 ug
EUR 1184
Description: The E. coli RuvC protein is available in Europe and for worldwide shipping via Gentaur.

RecA Protein E. coli

M1231-200
EUR 202

Human Cytokine Primer Library II

HCA-II 1 set
EUR 450

Mouse Cytokine Primer Library II

MCA-II 1 set
EUR 450

Rat Cytokine Primer Library II

RCA-II 1 set
EUR 548

Escherichia coli (E. coli) Antibody

abx411320-1ml 1 ml
EUR 509
  • Shipped within 1 week.

Escherichia coli (E. coli) Antibody

abx415692-01mg 0.1 mg
EUR 634
  • Shipped within 1 week.

Escherichia coli (E. coli) Antibody

abx415712-1ml 1 ml
EUR 606
  • Shipped within 1 week.

Recombinant (E. coli) Histidine rich glycoprotein II (HRP II, P. falciparum)

HRPF25-R 100 ug
EUR 225

E. coli antibody

20C-CR1244GP 1 ml
EUR 468
Description: Goat polyclonal E. coli antibody

E. coli antibody

10C-CR1244M1 100 ug
EUR 408
Description: Mouse monoclonal E. coli antibody

E. coli antibody

10-E09C 100 ug
EUR 133
Description: Mouse monoclonal E. coli antibody

E. coli antibody

10-E10A 500 ug
EUR 493
Description: Mouse monoclonal E. coli antibody

E. coli antibody

10-E10B 500 ug
EUR 493
Description: Mouse monoclonal E. coli antibody

E. coli antibody

20-ER13 1 ml
EUR 355
Description: Rabbit polyclonal E. coli antibody

E. coli GroL

DAG1704 100 ug
EUR 915

E. coli GroS

DAG1705 100 ug
EUR 915

E. coli DsbA

DAG1712 100 ug
EUR 915

E. coli GrpE

DAG1714 100 ug
EUR 1027

E. coli Antibody

abx022970-1ml 1 ml
EUR 732
  • Shipped within 5-10 working days.

E. coli Antibody

abx022971-1ml 1 ml
EUR 968
  • Shipped within 5-10 working days.

E. coli Antibody

abx022975-1ml 1 ml
EUR 599
  • Shipped within 5-10 working days.

E. coli Antibody

abx022977-1ml 1 ml
EUR 676
  • Shipped within 5-10 working days.

E. coli Antibody

abx021669-1mg 1 mg
EUR 1295
  • Shipped within 5-10 working days.

E. coli Antibody

abx021670-1mg 1 mg
EUR 871
  • Shipped within 5-10 working days.

E. coli Antibody

abx021671-02ml 0.2 ml
EUR 495
  • Shipped within 5-10 working days.

E. coli Antibody

abx021672-1mg 1 mg
EUR 871
  • Shipped within 5-10 working days.

E. coli Antibody

abx021673-1mg 1 mg
EUR 871
  • Shipped within 5-10 working days.

Human Colon Cancer Primer Library II

HCCP-II 1 set
EUR 548

Human DNA Repair Primer Library II

HDRL-II 1 set
EUR 548

Mouse DNA Repair Primer Library II

MDRL-II 1 set
EUR 645

Human Interferon Type II Signaling Primer Library

HIFN-II 1 set
EUR 548

Human Cancer Driver Gene II Primer Library

HCDG-II 1 set
EUR 645

E. Coli O 157 Protein

abx061475-01ml 0.1 ml
EUR 551
  • Shipped within 5-10 working days.

Escherichia coli (E. coli) Antibody (Biotin)

abx411321-1ml 1 ml
EUR 592
  • Shipped within 1 week.

Escherichia coli (E. coli) Antibody (FITC)

abx411322-1ml 1 ml
EUR 509
  • Shipped within 1 week.

Escherichia coli (E. coli) Antibody (Biotin)

abx415713-1ml 1 ml
EUR 718
  • Shipped within 1 week.

Rabbit anti-Arabidopsis Thaliana Photosystem II 22 kDa protein, chloroplastic (PSBS) antiserum

PSBS11-S 100 ul
EUR 457

E. coli Protein GrpE (GrpE) Protein

20-abx261718
  • EUR 3530.00
  • EUR 328.00
  • EUR 230.00
  • 1 mg
  • 25 ug
  • 5 ug
  • Shipped within 5-10 working days.

DENV 2 E-D2 Antibody

abx018261-100ug 100 ug
EUR 384
  • Shipped within 5-10 working days.

DENV 2 E-D2 Antibody

abx018262-100ug 100 ug
EUR 384
  • Shipped within 5-10 working days.

E. coli GroEL Antibody

20012-05011 150 ug
EUR 217

E. coli CysH Antibody

30281-05111 150 ug
EUR 261

E. Coli HCP antibody

20R-EG001 1 ml
EUR 837
Description: Goat polyclonal E. Coli HCP antibody

E. coli NDK Antibody

32662-05111 150 ug
EUR 261

E. coli PPA Antibody

32678-05111 150 ug
EUR 261

E. coli glk Antibody

32864-05111 150 ug
EUR 261

E. Coli ldhA Antibody

32898-05111 150 ug
EUR 261

E. coli deoC Antibody

32936-05111 150 ug
EUR 261

E. coli Skp Antibody

32971-05111 150 ug
EUR 261

E. coli DnaJ Antibody

32022-05111 150 ug
EUR 261

E. coli pykF Antibody

32163-05111 150 ug
EUR 261

E. coli GOR Antibody

32540-05111 150 ug
EUR 261

E. coli nanA Antibody

33092-05111 150 ug
EUR 261

E. coli O157 antibody

10C-CR1295M3 100 ug
EUR 392
Description: Mouse monoclonal E. coli O157 antibody

E. coli O157 antibody

10-1490 100 ug
EUR 136
Description: Mouse monoclonal E. coli O157 antibody

E. coli O157 antibody

10-1521 100 ug
EUR 142
Description: Mouse monoclonal E. coli O157 antibody

E. coli O157 antibody

10-E12A 100 ug
EUR 385
Description: Mouse monoclonal E. coli O157 antibody

E. coli LexA repressor

01-005 50 ug
EUR 479
Description: The E. coli LexA repressor is available in Europe and for worldwide shipping via Gentaur.

E. coli LexA repressor

01-006 250 ug
EUR 1184
Description: The E. coli LexA repressor is available in Europe and for worldwide shipping via Gentaur.

TesA, E. coli esterase

0306-1 100 Units
EUR 421

TesA, E. coli esterase

0306-5 500 Units
EUR 1705

E. Coli Recombinant TRXB

6331-100
EUR 425

E. Coli Recombinant SlyD

6366-100
EUR 457

E. coli antibody (FITC)

60-E13 1 ml
EUR 378
Description: Rabbit polyclonal E. coli antibody (FITC) conjugated

E. coli antibody (biotin)

60-E13B 1 ml
EUR 468
Description: Rabbit polyclonal E. coli antibody (biotin) conjugated

E. coli antibody (HRP)

60-E14 1 ml
EUR 408
Description: Rabbit polyclonal E. coli antibody (HRP) conjugated

E. coli FimC [His]

DAG1666 100 ug
EUR 1027

E. coli Eco [His]

DAG1667 50 ug
EUR 1027

Benzonase, E. Coli Recombinant

7680-25
EUR 332

Benzonase, E. Coli Recombinant

7680-5
EUR 137

E. coli Antibody (HRP)

abx022972-1ml 1 ml
EUR 599
  • Shipped within 5-10 working days.

E. coli Antibody (FITC)

abx022974-1ml 1 ml
EUR 648
  • Shipped within 5-10 working days.

E. coli Antibody (Biotin)

abx022976-1ml 1 ml
EUR 599
  • Shipped within 5-10 working days.

E. coli Antibody (HRP)

abx022978-1ml 1 ml
EUR 878
  • Shipped within 5-10 working days.

E. coli Antibody (Biotin)

abx022979-1ml 1 ml
EUR 739
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx024017-1mg 1 mg
EUR 1010
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021684-1mg 1 mg
EUR 1017
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021685-1mg 1 mg
EUR 996
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021686-1mg 1 mg
EUR 996
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021687-1mg 1 mg
EUR 996
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021688-1mg 1 mg
EUR 940
  • Shipped within 5-10 working days.

E. coli O157 Antibody

abx021689-1mg 1 mg
EUR 996
  • Shipped within 5-10 working days.

E. coli O 157

abx291002-100mg 100 mg
EUR 620
  • Shipped within 2 months.

Enterotoxin STp (E. coli)

H-6248.0500 0.5mg
EUR 696
Description: Sum Formula: C81H110N20O26S6; CAS# [115474-04-9] net

Enterotoxin STp (E. coli)

H-6248.1000 1.0mg
EUR 1180
Description: Sum Formula: C81H110N20O26S6; CAS# [115474-04-9] net

E. coli Recombinant IDNK

P1050-10
EUR 164

E. coli Recombinant IDNK

P1050-50
EUR 381

Recombinant E. coli, Glucokinase

P1054-10
EUR 164

Recombinant E. coli, Glucokinase

P1054-50
EUR 381

E. coli DNA Ligase

M1217-100
EUR 321

We believe that Synteny portal will serve as a very valuable tool that will enable biologists to easily perform comparative genomic studies with the compensation limitations of existing tools. Synteny Portal is freely available on https://bioinfo.konkuk.ac.kr/synteny_portal.

Calvin

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