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http://sourceforge.net/projects/fastuniq/
A software tool for removal of de novo duplicates in paired short DNA sequences.
Proper citation: FastUniq (RRID:SCR_000682) Copy
https://www.thermofisher.com/order/catalog/product/4474950
A software that gives the user the ability to basecall, trim, display, edit, and print data for the entire line of capillary DNA sequencing instruments for data analysis and quality control. This software benefits from being able to obtain longer read lengths, greater accuracy on the 5' end, and the ability to filter out low-quality sequence ends.
Proper citation: Sequencing Analysis Software (RRID:SCR_000718) Copy
http://ctri.nic.in/Clinicaltrials/login.php
Free, online public record system for registration of clinical trials being conducted in India. Initiated as a voluntary measure, trial registration in the CTRI has been made mandatory by the Drugs Controller General (India) (DCGI) (http://www.cdsco.nic.in/). Moreover, Editors of Biomedical Journals of 11 major journals of India declared that only registered trials would be considered for publication. Today, any researcher who plans to conduct a trial involving human participants, of any intervention such as drugs, surgical procedures, preventive measures, lifestyle modifications, devices, educational or behavioral treatment, rehabilitation strategies as well as trials being conducted in the purview of the Department of AYUSH (http://indianmedicine.nic.in/) is expected to register the trial in the CTRI before enrollment of the first participant. Trial registration involves public declaration and identification of trial investigators, sponsors, interventions, patient population etc before the enrollment of the first patient. Submission of Ethics approval and DCGI approval (if applicable) is essential for trial registration in the CTRI. Multi-country trials, where India is a participating country, which have been registered in an international registry, are also expected to be registered in the CTRI. In the CTRI, details of Indian investigators, trial sites, Indian target sample size and date of enrollment are captured. After a trial is registered, trialists are expected to regularly update the trial status or other aspects as the case may be. After a trial is registered, all updates and changes will be recorded and available for public display. The CTRI is working with the WHO ICTRP to ensure that results of all trials registered with the CTRI are adequately reported and publicly available.
Proper citation: Clinical Trials Registry - India (RRID:SCR_000679) Copy
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Interactive database of Drosophila melanogaster nervous system. Used by drosophila neuroscience community and by other researchers studying arthropod brain structure.
Proper citation: FlyBrain (RRID:SCR_000706) Copy
http://sourceforge.net/projects/ngs-toolbox/
A collection of simple Perl scripts adressed to scientists doing research that bases on high throughput genomic/transcriptomic data. It does not require any bioinformatic expertise. The scripts perform fundamental processing steps like sorting sequences by TAGs, FASTQ to FASTA conversion, filtering and counting of redundant sequences, individually adjustable FASTQ quality filtering or basic analyses like base count and analysis of sequence length distribution.
Proper citation: NGS tools for the novice (RRID:SCR_000664) Copy
http://sourceforge.net/projects/operasf/
A sequence assembly software program that uses information from paired-end reads to optimally order and orient contigs assembled from shotgun-sequencing reads.
Proper citation: Opera (RRID:SCR_000665) Copy
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 12,2023. Set of databases and tools that handle genomic and metagenomic sequences in their environmental contexts.Includes geographic information system to systematically store and analyse marine genomic and metagenomic data in conjunction with contextual information; environmental genome browser with fast search functionalities; database with precomputed analyses for selected complete genomes; database and tool to classify metagenomic fragments based on oligonucleotide signatures.
Proper citation: MeGX (RRID:SCR_000738) Copy
Software for short-read mapping to accurately map reads from the next-generation sequencing technology. It can map reads with or without error probability information (quality scores) and supports paired-end reads or bisulfite-treated reads mapping. There is no limitaions on read widths or number of mismatches. RMAP can now map more than 8 million reads in an hour at full sensitivity to 2 mismatches.
Proper citation: RMAP (RRID:SCR_000695) Copy
https://github.com/iontorrent/TMAP
Alignment software for short and long nucleotide sequences produced by next-generation sequencing technologies.
Proper citation: TMAP (RRID:SCR_000687) Copy
http://franklin.imgen.bcm.tmc.edu/
The mission of the Baylor College of Medicine - Shaw Laboratory is to apply methods of statistics and bioinformatics to the analysis of large scale genomic data. Our vision is data integration to reveal the underlying connections between genes and processes in order to cure disease and improve healthcare.
Proper citation: Baylor College of Medicine - Shaw Laboratory (RRID:SCR_000604) Copy
Laboratory portal of the University of Sao Paulo Molecular Genetics and Bioinformatic Laboratory.
Proper citation: USP Molecular Genetics and Bioinformatics Laboratory (RRID:SCR_000605) Copy
A commercial vendor of chemicals that provides custom synthesis of a wide variety of organic compounds. Frontier Scientific has capabilities for custom work in organoborons, organotins, porphyrins, silanes, halogenations, catalysts and cross couplings using Suzuki, Stille, and Kumada processes.
Proper citation: Frontier Scientific Chemical Supplier (RRID:SCR_000914) Copy
University in Scotland, UK that provides undergraduate and doctoral degree programs.
Proper citation: University of Dundee; Scotland; United Kingdom (RRID:SCR_000997) Copy
Private research university in Medford and Somerville, Massachusetts, United States, with additional facilities in Boston and Grafton, as well as Talloires, France. Provides undergraduate, graduate, and professional degree programs.
Proper citation: Tufts University; Massachusetts; USA (RRID:SCR_000994) Copy
Pasteur Institute of Lille is an international research institute in Lille, France focused on bettering human health by detecting risk factors in degenerative diseases.
Proper citation: Pasteur Institute of Lille; Lille; France (RRID:SCR_000990) Copy
http://www.ced.co.uk/pru.shtml?spk7wglu.htm
THIS RESOURCE IS NO LONGER IN SERVICE.Documented on September 23,2022. A data acquisition and analysis software package for electrophysiology data. Spike2 software offers multi-channel continuous data acquisition and analysis with a multitude of options. This offers flexible usage from a simple chart recorder to complex applications requiring stimulus generation, data capture, scrolling or triggered displays, control of external equipment, and custom analysis. Spike2 software can be used in many fields such as electrophysiology, neurophysiology, cardiovascular and respiratory studies, sports science and pharmacology.
Proper citation: Spike2 Software (RRID:SCR_000903) Copy
The Office of Research on Women's Health (ORWH) is part of the Office of the Director of NIH. ORWH works in partnership with the 27 NIH Institutes and Centers to ensure that women’s health research is part of the scientific framework at the NIH and throughout the scientific community.
Proper citation: NIH Office of Research on Women's Health; Bethesda; Maryland (RRID:SCR_000986) Copy
A configurable, open-source, Nipype-based, automated processing pipeline for resting state functional MRI (R-fMRI) data, for use by both novice and expert users. C-PAC was designed to bring the power, flexibility and elegance of the Nipype platform to users in a plug and play fashion?without requiring the ability to program. Using an easy to read, text-editable configuration file, C-PAC can rapidly orchestrate automated R-fMRI processing procedures, including: - quality assurance measurements - image preprocessing based upon user specified preferences - generation of functional connectivity maps (e.g., correlation analyses) - customizable extraction of time-series data - generation of local R-fMRI metrics (e.g., regional homogeneity, voxel-matched homotopic connectivity, fALFF/ALFF) C-PAC makes it possible to use a single configuration file to launch a factorial number of pipelines differing with respect to specific processing steps.
Proper citation: C-PAC (RRID:SCR_000862) Copy
http://www.ntu.edu.tw/english/
A national research university in Taipei, Taiwan. The university confers degrees at the undergraduate and graduate level bio-resources and agriculture, electrical engineering and computer science, engineering, law, liberal arts, management, medicine, public health, and the social sciences.
Proper citation: National Taiwan University; Taipei; Taiwan (RRID:SCR_000983) Copy
A public university located in Singapore that has a wide range of faculties and schools, including arts, business, computing, and dentistry.
Proper citation: National University of Singapore; Singapore; Singapore (RRID:SCR_000984) Copy
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