ELAND statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

ELAND specifications

Information


Unique identifier OMICS_28832
Name ELAND
Alternative name Efficient Large6Scale Alignment of Nucleotide Databases
Software type Application/Script
Interface Command line interface
Restrictions to use License purchase required
Biological technology Illumina
Operating system Unix/Linux
License Commercial
Computer skills Advanced
Stability Stable
Maintained No

Versioning


No version available

Additional information


http://www.gersteinlab.org/proj/chip-seq-simu/eland.html https://attractivechaos.wordpress.com/2008/08/24/eland-short-read-aligner/

ELAND citations

 (356)
library_books

Candidate gene identification of ovulation inducing genes by RNA sequencing with an in vivo assay in zebrafish

2018
PLoS One
PMCID: 5929532
PMID: 29715317
DOI: 10.1371/journal.pone.0196544

[…] ncing according to the manufacturer’s protocol (Illumina, Inc., Tokyo, Japan). To count the number of transcripts, RNA-seq reads were aligned to the zebrafish genome sequence (danRer7) using Illumina ELAND v2 mapping software [] (). […]

library_books

Histone demethylase JMJD1A coordinates acute and chronic adaptation to cold stress via thermogenic phospho switch

2018
Nat Commun
PMCID: 5908789
PMID: 29674659
DOI: 10.1038/s41467-018-03868-8

[…] was performed on a HiSeq 2500 sequencer (Illumina) as single-end 50 base reads. All bound DNA fragments were mapped to UCSC build mm9 (NCBI Build 37) assembly of the mouse genome by a mapping program ELAND (Illumina), based on the 36 bp sequences. Signals of ChIP-seq occupancy are presented as reads per million mapped reads (RPM). […]

call_split

Identification of neoepitopes recognized by tumor infiltrating lymphocytes (TILs) from patients with glioma

2018
Oncotarget
PMCID: 5929402
PMID: 29731959
DOI: 10.18632/oncotarget.24955
call_split See protocol

[…] umor and normal samples, and an average of 42 to 51 reads were obtained at each base in the normal and tumor DNA samples. The tags were aligned to the human genome reference sequence (hg18) using the Eland algorithm of CASAVA 1.6 software (Illumina, San Diego, CA, USA). The chastity filter of the BaseCall software of Illumina was used to select sequence reads for subsequent analysis. The ELANDv2 a […]

library_books

Identification of Minimal p53 Promoter Region Regulated by MALAT1 in Human Lung Adenocarcinoma Cells

2018
Front Genet
PMCID: 5879451
PMID: 29632545
DOI: 10.3389/fgene.2017.00208

[…] nding to the 5′-ends of transcripts were generated by the sequencer. The obtained sequences were mapped onto human genomic sequences (hg18 of UCSC Genome Browser) using the sequence alignment program Eland. […]

library_books

Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage Specific Application but Conserved Trends

2018
Genome Biol Evol
PMCID: 5888634
PMID: 29617800
DOI: 10.1093/gbe/evy057

[…] th a NexteraXT tagmentation kit (Illumina), and sequenced over 500 cycles using a MiSeq sequencer. Reads were trimmed using the MiSeq reporter version 2.0.26, and assembled into 574,711 contigs using ELAND (Illumina). Contigs of probable plastid origin were identified using reciprocal BLASTn and tBLASTx searches, using as queries transcript sequences encoded within the Kare. mikimotoi plastid, pre […]

library_books

Genome wide analysis revealed that DZNep reduces tubulointerstitial fibrosis via down regulation of pro fibrotic genes

2018
Sci Rep
PMCID: 5830881
PMID: 29491489
DOI: 10.1038/s41598-018-22180-5

[…] n mapped reads (RPKM) of each gene were calculated based on the length of the gene and the read counts mapped to the gene. The sequences were aligned using the human reference genome (UCSC hg19) with ELAND (Illumina, San Diego, CA). The details were described in our previous paper,. […]

Citations

Looking to check out a full list of citations?

ELAND reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review ELAND