videographic, audiographic, electrophysiologic, temperature and other continuous data. Some projects are also expected to generate data related to ambulation, limb movements, facial movements, eye movements, vocalizations, glandular secretion, and peripheral physiology
Data Types
multiple species, including humans
scope
valuation of the pipelines de
JB added this because...
Component Page Limit Specific Aims 1 page Research Education Program Plan/Research Strategy 12 pages
components
exceed direct costs of $250,000
budget
a typical METER award is expected to propose content for 2-5 educational units to be developed over a 3-year award period.
objective
High Performance Computing on Frontera - October 7, 14, 21 10 am - 3:30 pm CT
High Performance Computing on Frontera; October 7, 14, 21 10 am - 3:30 pm CT; Training Course
dkNET Hypothesis Center Live Demo
dkNET Hypothesis Center Live Demo; Friday, Sep. 24, 2021, 11am - 12pm (PDT); Webinar
FORCE2021
FORCE2021; DECEMBER 7-9, 2021; Online Conference
FAIR Principles for Research Software (FAIR4RS WG)
FAIR Principles for Research Software (FAIR4RS WG); 23 Sep 2021 - 17:00 to 18:00 UTC; Webinar
NIH Virtual Workshop on Broadening Cloud Computing Usage in Biomedical ResearchSeptember 13-14, 2021
NIH Virtual Workshop on Broadening Cloud Computing Usage in Biomedical Research; September 13-14, 2021; Virtual Workshop
Computational Research Techniques: Scientific Visualization; AUGUST 18, 25, SEPTEMBER 1, 2021; Training Event
NIMH Workshop on Naturalistic Stimuli and Individual Differences
NIMH Workshop on Naturalistic Stimuli and Individual Differences; August 2, 2021; Virtual Workshop
Beyond the Bench: The Broader Impact of Rigorous Research; July 12, 2021 11:00 AM - 3:30 PM ET; Virtual Workshop
Fundamentals for Neuro Data Science
Clowder "All Paws" 2021; Monday, June 21 - Wednesday, June 23, 2021; Online Meeting
Nice set of videos.
Open Science Best Practices Workshop: Learn how to access and query the C-BIG Repository
Open Science Best Practices Workshop: Learn how to access and query the C-BIG Repository; June 10, Noon EDT; Virtual
KREMBIL CENTRE FOR NEUROINFORMATICS SUMMER SCHOOL; JULY 5-14, 2021; Summer School
recruited to the current study through communication with the club alumni
Recruitment method
The Statistical Methods in Imaging Conference 2021Virtual Event, May 17-19, 2021
The Statistical Methods in Imaging Conference 2021; May 17-19, 2021; Virtual Event
The Future of Open Science: The Need to Change Culture to Change Science
The Future of Open Science: The Need to Change Culture to Change Science; Mon, Apr 26, 2021 12:00 PM - 1:00 PM EDT; Moderated Conversation
Workshop on Provenance for Transparent Research
Workshop on Provenance for Transparent Research; July 19-22, 2021; Workshop
Nilearn-Nibabel Dev Days
Nilearn-Nibabel Dev Days; 5-7 May, 2021; Development Days
no difference between groups
volume increase NSC with diagnosis (ASD -> typically developing control) hemisphere: bilateral structure: hippocampus
Bilaterally, hippocampus volume increased from baseline to follow-up in both ASD and TDC
volume increases with time (baseline -> 2yr followup) Diagnosis: ASD structure: hippocampus hemisphere: bilateral
volume increases with time (baseline -> 2yr followup) Diagnosis: typically developing control structure: hippocampus hemisphere: bilateral
Inclusion criteria for matched control participants were no ongoing eating disorders, no neurologic disorders, no ongoing diseases and no medication
matching
female
sex
25 patients accepted
N patients
Autism-spectrum Quotient (AQ) questionnaire
Assessment
Depressive symptoms were assessed in all patients using the Beck Depression Inventory (BDI)
Assessment
ongoing eating disorders were assessed using the Structured Clinical Interview (SCID-I) for DSM-IV.
HC assessment
written questionnaire
HC assessment
excluded
Exclusion criteria
diagnosis of anorexia nervosa according to DSM-IV
DX Criteria
psychiatrist
Clinical assessor
recruited consecutively from the in- and outpatient specialist Anorexia-Bulimia unit at the Queen Silvia Children’s University Hospital in Gothenburg, Sweden
recruitment
16–25 years
age
anorexia nervosa
DX
NIH Data Sharing and Reuse Seminar Series
NIH Data Sharing and Reuse Seminar Series; Noon, EST, March 12, 2021; Webinar
FIFTH ANNUAL COURSE ON BRAIN MAPPING; SATURDAY 20 & SUNDAY 21 MARCH, 2021; Video Symposium
The BRAIN Initiative Transformative Non-Invasive Imaging Technologies; March 9 - 11, 2021; Virtual Workshop
Brain Connectivity Workshop; Feb 7, 17, Mar 5, 17, 31 2021; Workshop
Audacious Goals Initiative (AGI) Symposium; February 2, 2:00-5:00p EST; Virtual Symposium
Data Sharing Seminar Series for Societies; 5 February 2021, 10 – 11 am ET (15:00 UTC); Monthly Seminar
January 25, 2023
effective date
machine learning in medicine
Machine Learning in Medicine: A virtual Seminar; Various Times; Seminar
Winter School of the Helmholtz International BigBrain Analytics and Learning Laboratory (HIBALL)
Winter School of the Helmholtz International BigBrain Analytics and Learning Laboratory (HIBALL); 3-4 February 2021; Online Virtual Meeting
No significant differences were found in the right ACG volume.
volume NSC with diagnosis (no psychiatric diagnosis -> pediatric bipolar disorder) structure: anterior cingulate gyrus age: children hemisphere: right
volume NSC with diagnosis (autism spectrum disorder -> pediatric bipolar disorder) structure: anterior cingulate gyrus age: children hemisphere: right
The left ACG volume was significantly smaller in the BD group compared to the NP (p=0.004) and ASD (p=0.006) groups.
volume decreases with diagnosis (no psychiatric diagnosis -> pediatric bipolar disorder) structure: anterior cingulate gyrus age: children hemisphere: left
volume decreases with diagnosis (autism spectrum disorder -> pediatric bipolar disorder) structure: anterior cingulate gyrus age: children hemisphere: left
There were no significant group asymmetry differences, nor volume differences in the caudate, putamen, and globus pallidus.
asymmetry NSC with diagnosis structure: putamen age: youths
volume NSC with diagnosis structure: caudate age: youths
volume NSC with diagnosis structure: globus pallidus age: youths
volume NSC with diagnosis structure: putamen age: youths
asymmetry NSC with diagnosis structure: caudate age: youths
asymmetry NSC with diagnosis structure: globus pallidus age: youths
Youths with BPD had a trend for larger right nucleus accumbens (NA) volumes (p = 0.089).
volume increases with diagnosis (healthy controls -> bipolar disorder) hemisphere: right structure: nucleus accumbens
the prepubertal group had significantly larger total NA (p = 0.035) versus healthy controls, while the pubertal group did not show significant differences in the NA versus healthy controls.
volume increases with diagnosis (healthy controls -> bipolar disorder) hemisphere: total structure: nucleus accumbens group: prepubertal
volume NSC with diagnosis (healthy controls -> bipolar disorder) hemisphere: total structure: nucleus accumbens group: pubertal
Youth with SZ and BPD showed no differences in amygdala and hippocampal volumes
result
this effect was driven predominantly by the female bipolar disorder subjects
volume decreases with diagnosis (healthy comparison subjects -> bipolar disorder) sex: female structure: hippocampus age: youths (6-16 years)
volume NSC with diagnosis (healthy comparison subjects -> bipolar disorder) sex: male structure: hippocampus age: youths (6-16 years)
subjects with bipolar disorder had smaller hippocampal volumes
volume decreases with diagnosis (healthy comparison subjects -> bipolar disorder) structure: hippocampus age: youths (6-16 years)
both male and female youths with bipolar disorder had significantly smaller cerebral volumes
volume decreases with diagnosis (healthy comparison subjects -> bipolar disorder) sex: female structure: cerebral volume age: youths (6-16 years)
volume decreases with diagnosis (healthy comparison subjects -> bipolar disorder) sex: male structure: cerebral volume age: youths (6-16 years)
No significant hemispheric effects were seen
<dependent variable> increases/decreases with <independent variable> (condition1 -> condition2) structure: hippocampus hemisphere: left
<dependent variable> shows no change with <independent variable> structure: hippocampus hemisphere: left
Training in Advanced Statistical Methods in Neuroimaging and Genetics; February 15-26, 2021; On-Line Course
Recent Advances in Statistical Analysis of Imaging Data; December 4 – December 5, 2020; Fully Virtual -- Zoom Based Single Track Meeting
Neuroscience Gateway Using NEURON and EEGLAB Webinar
Neuroscience Gateway Using NEURON and EEGLAB Webinar; Friday, November 20, 2020 9:30 AM - 12:30 PM PST; Virtual Webinar
XSEDE HPC Workshop: BIG DATA and Machine Learning; December 1-2, 2020; Zoom Workshop
XSEDE HPC Workshop: OpenMP
XSEDE HPC Workshop: OpenMP; November 3, 2020; Zoom Workshhop
Decision-Making and Computational Psychiatry: An Explanatory and Pragmatic Perspective
Decision-Making and Computational Psychiatry: An Explanatory and Pragmatic Perspective; Thursday, November 12, 2020, 3:00―4:00 PM ET; Virtual
Reproducing Analyses in Biological Psychology; November 23rd 2020, 16:30pm CET; Online Symposium
Biological Data Science November 4 - 6, 2020 Virtual
Biological Data Science; November 4 - 6, 2020; Virtual Meeting
Cold Spring Harbor Laboratory Biological Data Science Codeathon; Saturday, November 7, 2020; Virtual Codeathon
Addressing Neuroimaging Challenges across Populations and Settings; September 21-22, 2020; Virtual Workshop
XSEDE HPC Workshop: Big Data and Machine Learning; October 6-7, 2020; Online
Addressing Neuroimaging Challenges Across Populations and Settings
Addressing Neuroimaging Challenges Across Populations and Settings; September 21-22, 2020; Virtual only via tele/videoconference
Panel on reproducibility in MRI; Wednesday, September 9. at 5:30pm CET (11:30am EDT); Virtual Panel
Symposium on Big Neuroscience Data, Tools, Protocols & Services; September 4, 2020; 1-4 PM US ET (GMT-4); Virtual Meeting
Beyond Statistical Significance: Finding Meaningful Effects
Beyond Statistical Significance: Finding Meaningful Effects; Sept 2, 2020, 10am-6pm ET; Virtual Meeting
Workshop On Open Citations And Open Scholarly Metadata; 9 Sep 2020, 15-18 CET; Online Event
Big Neuroscience Data: Opportunities and Challenges
Big Neuroscience Data: Opportunities and Challenges; 1:30 AM – 3:30 AM EDT Tuesday Sep 1st, 2020; On Line
ABCD-ReproNim Couse; Oct 16 2020 - Mar 12, 2021; On Line
Reproducibility, Replicability and Trust in Science; 09 - 11 September 2020; Virtual Conference
voxel-based morphometry
As a paper that cites 'voxel-based morphometry' as a technique, it is a candidate for the Monthly Morphometry Report. Identified in auto-search 7/11/15.
progressive supranuclear palsy (PSP)
Diagnosis Term: progressive supranuclear palsy: http://www.ncbi.nlm.nih.gov/mesh/68013494
Parkinson's disease (PD)
Diagnosis Term: Parkinson's disease: http://www.ncbi.nlm.nih.gov/mesh/68010300
basal ganglia
Anatomic Term:
cortical motor areas
anatomic term
A functional magnetic resonance imaging (fMRI) force production paradigm
fMRI task statement
We found that PSP and PD share reduced functional activity of the basal ganglia and cortical motor areas, but this is more pronounced in PSP than in PD.
Result statement: fMRI
In PSP the frontal regions are underactive
result statement: fMRI
the posterior parietal and occipital regions are overactive as compared with controls and PD
result statement, referring to in PSP: fMRI
Crus I and lobule IX are hyperactive in PSP only
result statement: fMRI
Reductions in gray and white matter volume are specific to PSP
result statement: vbm
lobules I through IV, V, and VI of the cerebellum are hypoactive in PSP and PD
result statement: fMRI
frontal regions
anatomic term, related to a finding
posterior parietal
anatomic term, related to a finding
occipital regions
anatomic term, related to a finding
lobules I through IV, V, and VI of the cerebellum
anatomic terms, related to a finding
Crus I
anatomic term related to a finding
lobule IX
anatomic term, related to a finding
caudate
anatomic term, result, prediction
superior frontal gyrus
anatomic term, result, prediction
the functional status of the caudate as well as the volume of the superior frontal gyrus predict clinical gait and posture measures in PSP
finding statement: parameter (clinical feature) prediction
clinical gait
clinical feature
posture
clinical feature
MMR Summary:
See also: https://www.nitrc.org/plugins/mwiki/index.php/mmr:26148135
Diagnostic Groups: PSP, PD & CTL
Methods: VBM, fMRI (force production paradigm)
Findings:
fmri 1) We found that PSP and PD share reduced functional activity of the basal ganglia and cortical motor areas, but this is more pronounced in PSP than in PD.
fmri 2) In PSP the frontal regions are underactive
fmri 3) [In PSP] the posterior parietal and occipital regions are overactive as compared with controls and PD
fmri 4) lobules I through IV, V, and VI of the cerebellum are hypoactive in PSP and PD
fmri 5) Crus I and lobule IX are hyperactive in PSP only
vbm 1) Reductions in gray and white matter volume are specific to PSP
clinical 1) status of the caudate as well as the volume of the superior frontal gyrus predict clinical gait and posture measures in PSP
Neuroferritinopathy
disease term
3D-T1w and quantitative T2 whole brain MRI scans
acquisition details
10 clinically symptomatic patients with the 460InsA FTL mutation and 10 age-matched controls
Subject groups: 10 FTL 10 CTL
Voxel-based morphometry (VBM)
Analysis method: VBM. MMR Candidate
voxel-based relaxometry (VBR)
Analysis method
Clinical assessment using the Unified Dystonia Rating Scale (UDRS) and Unified Huntington's Disease Rating Scale (UHDRS) was undertaken in all patients
Clinical measures
Iron deposition in the caudate head and cavitation in the lateral globus pallidus correlated with UDRS score (p < 0.001).
Result statement 2:
Finding: significant What: correlation With: iron deposition: caudate, clinical: UDRS Who: all subjects
Finding: significant What: correlation With: cavitation: lateral globus pallidus, clinical: UDRS Who: all subjects
There were no differences between groups with VBR
Finding statement 3:
Finding: no difference What: VBR With: all regions Who: FTL versus CTL
Voxel-based analysis in neuroferritinopathy expands the phenotype and determines radiological correlates of disease severity.
MMR Link: https://www.nitrc.org/plugins/mwiki/index.php/mmr:26142024
VBM detected significant tissue changes within the substantia nigra, midbrain and dentate together with significant cerebellar atrophy in patients (FWE, p < 0.05)
Result statement 1: Finding: 'significant tissue changes' Analysis: vbm Location: 'substantia nigra, midbrain and dentate' Groups: FTL compared to CTL
Finding Observation Measure Locations/Measures Group/Comparison vbm 1 significant tissue changes vbm substantia nigra FTL relative to CTL vbm 1 significant tissue changes vbm midbrain FTL relative to CTL vbm 1 significant tissue changes vbm dentate FTL relative to CTL vbm 1 decrease vbm cerebellum FTL relative to CTL
Finding: 'atrophy' (volume reduction) Analysis: vbm Location: 'cerebellum' Groups: FTL compared to CTL
voxel-based morphometry
clinical data
depressive patients without anxiety disorder (DP group, n = 18)
The DP group showed decreased GMV in the left insula (INS) and left triangular part of the inferior frontal gyrus when compared to the NC group.
Observation: Decreased Volume AnalysisMethod: volume Location: Left Insula SubjectGroups: DP compared to NC
Observation: Decreased Volume AnalysisMethod: volume Location: left triangular part of the inferior frontal gyrus (pars triangularis) SubjectGroups: DP compared to NC
The DPA group showed greater GMV in the midbrain, medial prefrontal cortex, and primary motor/somatosensory cortex when compared to the NC group
Observation: Increased Volume AnalysisMethod: volume Location: midbrain SubjectGroups: DPA compared to NC
Observation: Increased Volume AnalysisMethod: volume Location: medial prefrontal cortex SubjectGroups: DPA compared to NC
Observation: Increased Volume AnalysisMethod: volume Location: primary motor/somatosensory cortex SubjectGroups: DPA compared to NC
the DPA group showed greater GMV than the DP group in the frontal, INS, and temporal lobes
Observation: Increased Volume AnalysisMethod: volume Location: frontal lobe SubjectGroups: DPA compared to DP
Observation: Increased Volume AnalysisMethod: volume Location: Insula SubjectGroups: DPA compared to DP
Observation: Increased Volume AnalysisMethod: volume Location: temporal lobe SubjectGroups: DPA compared to DP
Most gray matter anomalies were significantly correlated with depression severity or anxiety symptoms.
Observation: significant AnalysisMethod: correlation Location: Volume:most gray matter anomalies, Clinical: depression severity or anxiety symptoms SubjectGroups: DPA and DP
region-of-interest analyses of gray matter volume (GMV)
normal controls (NC group, n = 28)
depressive patients with anxiety disorder (DPA group, n = 20)
clinical high risk (CHR) for psychosis
self-reported and interviewer-rated measures of social functioning
voxel based morphometry (VBM)
the CHR group had less GMV in the left postcentral gyrus, bilateral parahippocampual gyri, and left anterior cingulate cortex
Observation: reduced volume AnalysisMethod: vbm Location: left postcentral gyrus SubjectGroups: CHR compared to HC
Observation: reduced volume AnalysisMethod: vbm Location: bilateral parahippocampual gyri SubjectGroups: CHR compared to HC
Observation: reduced volume AnalysisMethod: vbm Location: left anterior cingulate cortex SubjectGroups: CHR compared to HC
Reduced GMV in the postcentral gyrus and the anterior cingulate was related to self-reported social impairment across the whole group
Observation: related AnalysisMethod: correlation Location: VBM:postcentral gyrus, clinical:self-reported social impairment SubjectGroups: All subjects
Observation: related AnalysisMethod: correlation Location: VBM:anterior cingulate, clinical:self-reported social impairment SubjectGroups: All subjects
hippocampal volume
In summary, we found that human males of all ages exhibit a larger HCV than females, but adjusting for individual differences in TBV or ICV results in no reliable sex difference. The frequent claim that women have a disproportionately larger hippocampus than men was not supported
adolescent patients with severe MDD (n=20, mean age=16.0, range=15-18 years)
Patient Group
control sample of matched healthy adolescents (n=21, mean age= 16.6, range=15-18 years
Control group
Structural MRI data were analyzed using voxel-based morphometry (VBM)
Morphometry Method
MDD patients showed smaller hippocampal volumes compared to healthy adolescents.
Result 1
Higher levels of childhood maltreatment were associated with smaller hippocampal volumes in both depressed patients and healthy controls
Result 2
brain MRI scans at two time points 24 months apart
Scan Interval
sustained abstainers/light drinkers (N = 45)
Group 1
sustained heavy drinkers (N = 84)
Group 2
Gray matter volumetric change (GMV-c) maps were derived using the longitudinal DARTEL pipeline as implemented in SPM12
Method SPM
significant decline in GMV in both groups across the 2 year followup period
Result 1
tissue loss in the sustained heavy drinking group was more significant, larger per region, and more widespread across regions compared to abstainers/light drinkers
Result 2
106 children (M = 10 years 1 month, SD = 16 months; 40 females) enrolled in primary school: 57 were healthy very preterm children (10 children born 24-27 completed weeks' gestation (extremely preterm), 14 children born 28-29 completed weeks' gestation, 19 children born 30-31 completed weeks' gestation (very preterm), and 14 born 32 completed weeks' gestation (moderately preterm)) all born appropriate for GA (AGA) and 49 term-born children
Groups
voxel-based morphometry
Method
children born <28 completed weeks' gestation had less gray matter volume (GMV) and white matter volume (WMV) and poorer cognitive functions including decreased full scale IQ, and processing speed
Result 1
Differences in GMV partially mediated the relationship between GA and full scale IQ in preterm born children.
Result 2
We analyzed magnetic resonance imaging (MRI) data from a large longitudinal sample (270 participants, 678 scans) using an automated segmentation tool and mixed models to delineate the development of hippocampal subregion volumes from childhood to adulthood.
average neuronal density of the same 60 loci was significantly higher in the male group than in the female group, and the corresponding mean male-to-female ratios were 1.18 in the right and 1.13
neuronal density difference
cortical thickness of the 60 loci examined was similar in males and females
No Thickness difference
Overall, there is increasing evidence that specific features (for example, functional connectivity, gray matter volume) of brain regions comprising the salience and default mode networks can be used to discriminate ASD from typical development.
Conclusion 1
At present, however, the field has yet to identify reliable and reproducible biomarkers for these disorders, and must address issues related to clinical heterogeneity, methodological standardization and cross-site validation before further progress can be achieved.
Conclusion 2
Open Science in Action Webinar; July 16, 12-1pm EDT; Webinar
partial Spearman correlation
Stat
Gradients of Brain Organization Workshop; 23 Jun, 2020: 07:15 EDT; Virtual Event
SfN Ask an Expert: Estimation Statistics and Statistical Power; 12:30 EDT June 4, 2020; Webinar
OHBM 2020; June 23 - July 3, 2020; Virtual COnference
Neurohackademy; July 27-July 31, 2020; Virtual
OHBM BrainHack; June 16-18, 2020; Virtual Event
XSEDE HPC Workshop MPI - May 5-6, 2020
XSEDE HPC Workshop MPI; May 5-6, 2020; Webinar
RDA Virtual Plenary Programme; 18 March - 10 April, 2020; Virtual Meeting
EEGLAB LUBLIN 2020; 15-19 JUNE 2020; Lublin, Poland
EEGLAB 2020
EEGLAB 2020; MAY 27 - JUNE 5, 2020; UC SAN DIEGO SUPERCOMPUTER CENTER
OHBMX; March 20, 2020; Twitter Conference
Machine Learning for Healthcare 2020; August 6-8, 2020; Durham, NC, USA
FSCI2020 - August 3 - 7 - UCLA - Los Angeles, California USA
FSCI2020; August 3 - 7, 2020; Los Angeles, CA USA
NLM Curation at Scale Workshop; April 27-28, 2020; Bethesda, MD USA
THE KNOWLEDGE GRAPH CONFERENCE; May 6-7, 2020; NY, NY
Scientific publication beyond the text: Sharing research objects; February 11, 2020; Stanford, CA
poldrack/PythonForRUsers
NLM Reproducibility Workshop Menu About Dates
NLM REPRODUCIBILITY in Bioinformatics WORKSHOP; May 15 – May 17, 2019; Bethesda, MD USA
SPM8
Tool
VBM8
Tool
ABIDE
Data Source
Total brain and grey matter volumes were enlarged by approximately 1–2 % in ASD; however, the effect reached statistical significance in only the All Subjects cohort.
Claim
NIH Workshop on the Role of Generalist Repositories to Enhance Data Discoverability and Reuse; February 11–12, 2020; Bethesda, MD USA
FENS Forum of Neuroscience; 11-15 July, 2020; Glasgow, UK
Neuroinformatics 2020; August 17-21, 2020; Seattle, USA
Virtual Workshop on Data Metrics; Feb 19, 2020; WebEx
San Francisco Brainhack 2020; February 20-21, 2020; San Francisco, CA, USA
2020 OHBM ANNUAL MEETING; June 26-30, 2020; Montreal, Canada
BRAIN Initiative Investigators Meeting; June 1st – 3rd, 2020; Arlington, VA, USA
AFNI Bootcamp; March 30th - April 3rd 2020; Bethesda, MD, USA
Society of Biological Psychiatry Annual Meeting; April 30-May 2, 2020; New York, NY
ExploreDTI Workshop; June 8-10, 2020; Bergen, Norway