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 IU Trident Indiana University

Data Collections and Services

PTI Research Centers

 Last updated: 6/24/13
Service Name Description PTI Center*
HathiTrust Research Center

An extensive collaborative digital library of more than 8 million volumes and 2 billion pages of archived material maintained by major research institutions and libraries worldwide.

http://www.hathitrust.org/htrc

Data 2 Insight
LEADII Vortex 2 Archive Dataset

In support of NSF-funded Vortex 2 tornado data gathering field effort.Forecasts, 2-D visualizations of various variables, metadata for each WRF output and each 2D visualization

http://d2i.indiana.edu/leadii-vortex2/archive-dataset

Data 2 Insight
Image Collections Online - Photocat

Photocat is a user interface to catalog images within a Fedora repository.

https://wiki.dlib.indiana.edu/display/DLPDOCS/Using+Photocat

Data 2 Insight
VIVO

VIVO is a semantic faculty profiling system.

http://vivo.iu.edu/

Data 2 Insight
QuakeSim

This is a science gateway to provide access to time series analysis and deformation tools to support geophysical research on earthquakes. QuakeSim also provides access to earthquake fault models, InSAR imagery, and analyzed GPS data.

http://www.quakesim.org

Digital Science Center
Kinsey Reporter

Global mobile survey platform for collecting and sharing anonymous data about sexual and other intimate behaviors.

http://cnets.indiana.edu/news/kinsey-reporter

Digital Science Center
Click Dataset

Study of the structure and dynamics of Web traffic networks

http://cnets.indiana.edu/groups/nan/webtraffic/click-dataset

Digital Science Center
Protein Interaction Abstract Relevance Evaluator (PIARE)

Implements the binary classifier CNets produced for the Protein-Protein Interaction Article Classification in Biocreative II and Biocreative II.

http://cnets.indiana.edu/groups/casci/piare

Digital Science Center
FLAD Computational Biology Collaboratorium

The central hub of a collaborative network of research institutions.

http://bc.igc.gulbenkian.pt/collaboratorium/

Digital Science Center
Scholarometer (beta)

Scholarometer is a social tool to facilitate citation analysis and help evaluate the impact of an author’s publications.

http://scholarometer.indiana.edu/

Digital Science Center
GiveALink

GiveALink is a social annotation, organization, recommendation, and navigation system for the Web.

http://givealink.org/

Digital Science Center
Truthy

Truthy is a research project that helps you understand how memes spread online. We collect tweets from Twitter and analyze them. With our statistics, images, movies, and interactive data, you can explore these dynamic networks.

http://truthy.indiana.edu/

Digital Science Center
MESUR

MESUR studies Science (with capital S) as a social system from large-scale usage data collected from some of the world’s most significant publishers, aggregators and institutional consortia.

http://mesur.informatics.indiana.edu/

Digital Science Center
FutureGrid - ScaleMP

Cluster dedicated to running the vSMP Foundation software from ScaleMP

https://portal.futuregrid.org

Digital Science Center

FutureGrid - Eucalyptus

Provisioning of a cloud using the Eucalyptus virtual machine

https://portal.futuregrid.org

Digital Science Center
FutureGrid - Nimbus

Provisioning of a cloud using the Nimbus virtual machine

https://portal.futuregrid.org

Digital Science Center
FutureGrid - OpenStack

Provisioning of a cloud using the OpenStack virtual machine

https://portal.futuregrid.org

Digital Science Center
FutureGrid - Hadoop

Provisioning of the Hadoop software library

https://portal.futuregrid.org

Digital Science Center
FutureGrid - myHadoop

A set of scripts that configures and instantiates Hadoop as a batch job

https://portal.futuregrid.org

Digital Science Center
FutureGrid - SalsaHadoop

An automatic method for starting Hadoop without worrying about the Hadoop configuration

https://portal.futuregrid.org

Digital Science Center
FutureGrid GPUs

GPU computing is the use of a GPU (graphics processing unit) together with a CPU to accelerate general-purpose scientific and engineering applications.GPU computing offloads compute-intensive portions of an application to the GPU, while the remainder of the code still runs on the CPU.

https://portal.futuregrid.org

Digital Science Center
FutureGrid Genesis II

Provisioning of the Genesis II open source, standards-based grid middleware designed to support high-throughput computing and secure data sharing

https://portal.futuregrid.org

Digital Science Center
FutureGrid - UNICORE

Provisioning of the UNICORE (Uniform Interface to Computing Resources) grid middleware system

https://portal.futuregrid.org

Digital Science Center
FutureGrid - Pegasus

Provisioning of Pegasus, a scientific workflow management system for executing complex workflows on distributed resources, such as grids and clouds. Pegasus can handle workflows involving several million computational tasks.

https://portal.futuregrid.org

Digital Science Center
FutureGrid EMI

European Middleware Initiative (EMI) is a software platform for high-performance distributed computing.EMI has created a virtual appliance which runs the EMI UNICORE server tools.

https://portal.futuregrid.org

Digital Science Center
FutureGrid - RAIN

Bare metal and virtual machine-based dynamic provisioning

http://futuregrid.github.com/rain

Digital Science Center
Security Matters

Public outreach project aimed at providing how-to instructional videos focused on information security for the general public

http://www.securitymatters.iu.edu

CACR

PTI Service and Cyberinfrastructure Centers

Get SNPs using NCBI eSearch and eFetch

A web service to display information about SNPs specified either by SNP ID, or by a chromsome region. 

http://discern.uits.iu.edu:8421/show-SNP-neighbors/getSNPs-eSearch-eFetch-new.html

NCGAS
DroSpeGe

Comparative Drosophila Species Genomes database

http://insects.eugenes.org/DroSpeGe/

NCGAS
Daphnia (water flea) genome

Annotated Genome of Daphnia (water flea)

https://daphnia.cgb.indiana.edu/

NCGAS
Reference Genome Data

Reference data for assemblies that use a standard sequence as a reference

Derived from: http://www.ncbi.nlm.nih.gov/RefSeq/

NCGAS
Galaxy

A web-based workflow composer and manager for genomic analysis that can be used by domain scientists.It supports data importing and management, file transformation, and analytical tools such as Trinity for RNA-Seq analysis.

https://galaxy.indiana.edu

NCGAS
E-DECIDER

E-DECIDER is a science gateway that builds on tools from the QuakeSim project to support emergency planning and response for earthquake events.

http://www.e-decider.org/

Research
Technologies
3D.iu.edu

3d.iu.edu was created to serve as a gateway to the variety of stereoscopic resources available to the IU community as well as a repository (for download or viewing) of the numerous stereoscopic materials (e.g. videos and images) that have been or will be produced by members of the IU community.

http://3d.iu.edu

Research
Technologies
CORUS

A repository of tools used by clinical researchers to collaborate with community groups

https://ctsacorus.org

Research
Technologies
Open Grants System

A software system used to manage internal grant funding opportunities

http://indianactsi.org/grants

Research
Technologies
HUB Data Viewer

A data management application that allows research teams as multiple locations to manage and work with a shared data set online, as demonstrated in the Camp Calcium online database

https://www.indianactsi.org/dataview/spreadsheet/cca_camps_keyq

Research
Technologies
DisProt

Database of proteins that contain regions of intrinsic disorder or that are entirely disordered as determined by one or more of 30 different experimental methods.

http://www.disprot.org

Research
Technologies
HIP2

A repository of health human plasma protein database

http://bio.informatics.iupui.edu/HIP2/

Research
Technologies
Indiana Spatial Data Portal

Indiana digital aerial photos, topographic maps, and digital elevation data.

http://gis.iu.edu

Research
Technologies
IUScholarWorks

Institutional repository for deposit of scholarly research from IU, including articles, conference papers, working papers, technical reports, dissertations, and data sets

http://scholarworks.iu.edu/repository

Research
Technologies
National Gene Vector Biorepository(NGVB)

TNGVB provides gene therapy investigators with databases and educational resources to enhance their research.

http://ngvbcc.org

Research
Technologies
CHTML

The Center for the History of Music Theory and Literature.

http://chmtl.ucs.indiana.edu

Research
Technologies
CIFASD

The CIFASD is the central data repository for the international Collaborative Initiative on Fetal Alcohol Spectrum Disorders project. CIFASD develops effective interventions and treatment approaches for FASD, through multidisciplinary research involving basic, behavioral and clinical investigators and projects.

http://www.cifasd.org

Research
Technologies
CTSACorus.org

CTSACorus.org is a web repository for the Clinical and Translational Science Award (CTSA) recipient community nationwide to share ideas, experiences, and best practices in establishing and managing community engagement programs.

http://ctsacorus.org

Research
Technologies
CTSI Hub

CTSI Hub is the main web portal for the Indiana Clinical and Translational Sciences Institute (CTSI) which provides information and services that facilitates the translation of scientific discoveries in the lab into clinical trials and new patient treatments in Indiana and beyond.

http://indianactsi.org

Research
Technologies
INResearch

INresearch is a registry of Indiana resident volunteers who want to participate in health-related research. Its goal is to match interested volunteers with researchers.

http://inresearch.org

Research
Technologies
OGCE wiki

This is the main web site for information on the NSF-funded Open Gateway Computing Environments project, which provides open source, open community software for building Web-based science gateways.

http://www.collab-ogce.org

Research
Technologies
github

Source code version control and project management

http://github.iu.edu

Research
Technologies
SBLEST

Structure-Based Local Environment Search Tool uses vectors of amino acid structural environments to perform K Nearest Neighbor queries against a database of protein structures.

http://www.sblest.org

Research
Technologies
REDCap

REDCap is a secure web application for scientific data capture and management using online surveys and databases that can be shared with other researchers.

https://www.indianactsi.org/redcap

Research
Technologies
OASIS

Open Science Grid Application Software Installation Service Web caching service for OSG VOs to install application software which can then be mounted remotely to OSG worker nodes. This greatly eases the installation process for VOs using OSG.

https://opensciencegrid.org/bin/view/Operations/OASISServiceLevelAgreement

Research
Technologies

OSG PKI

Open Science Grid Public Key Infrastructure. Provides x509 credentials to OSG collaborators.

Research
Technologies

Subversion Source Code Management Service

Source code version control system

http://kb.iu.edu/data/axir.html

Research
Technologies
BioVLab

BioVLab is a scientific gateway front end for reconfigurable cloud computing environment for microRNA and mRNA integrated analysis

http://www.collab-ogce.org/ogce/index.php/BioVLAB

Research
Technologies
UltraScan

UltraScan is a scientific gateway that provides web and database support for users to model analytical ultracentrifugation experiments with UltraScan's high-performance analysis modules by submitting analysis jobs to computing clusters available at the University of Texas Health Science Center, the Texas Advanced Computing Center, and Indiana University.

http://uslims.uthscsa.edu/

Research
Technologies
GridChem

GridChem is a scientific gateway that provides access to high performance computing resources for computational chemistry with distributed support and services, intuitive interfaces and measurable quality of service.

https://www.gridchem.org/

Research
Technologies
Scholarly Data Archive (SDA)

The Scholarly Data Archive is a storage service for archiving digital data for Indiana University. Data written to the SDA is replicated between Indianapolis and Bloomington campuses providing disaster protection at any one campus. Currently this service holds nearly 13.4PB of data in 80,745,482 files .

http://www.sdarchive.iu.edu

Research
Technologies
Research File System (RFS)

The Research File System is used by researchers across the university for storing research data for long term projects and collaboration projects. RFS is backed up on a nightly basis. RFS is ubiquitously accessible from the desktop to the large compute resources.

http://rfs.iu.edu

Research
Technologies
Data Capacitor II (DC II)

Data Capacitor systems provide large, scalable, high-speed file systems for the short to mid-term storage of large scholarly data sets. Data on the DC systems is not backed up.

Information about DCII and DC-WAN is available here: http://rt.uits.iu.edu/ci/storage/DC.php

Research
Technologies
Data Capacitor WAN (DC-WAN)

DC-WAN provides a file system across long distance in order to permit users to harness geographically distributed systems for the purposes of remote collaboration and workflow enhancement. Data on DC-WAN is not backed up.

Information about DCII and DC-WAN is available here: http://rt.uits.iu.edu/ci/storage/DC.php

Research
Technologies

*This indicates the PTI Center that either produces the data and information delivered, or which supports the delivery of this information (the latter is often the case for resources supported by the Research Technologies Division of UITS).