-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathindex.php
203 lines (197 loc) · 14.5 KB
/
index.php
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
<!DOCTYPE html>
<html>
<head>
<meta charset="UTF-8">
<title>Home - MDPD</title>
<link rel = "stylesheet" type = "text/css" href = "css/main.css" />
<script src='https://ajax.googleapis.com/ajax/libs/jquery/1.11.3/jquery.min.js'></script>
<script type = "text/javascript" src='js/jquery-svg3dtagcloud-plugin/jquery.svg3dtagcloud.min.js'></script>
<script type = "text/javascript" src = "js/advance_search_input.js"></script>
<script>
function plot3DInteractiveSVG() {
var entries = [
{image: 'resource/text_icons/ARDS.png', height:20, width:120, url: 'disease.php?key=Acute Respiratory Distress Syndrome (ARDS)', target: '_blank', tooltip: 'Group: Acute Respiratory Distress Syndrome (ARDS)'},
{image: 'resource/text_icons/Asthma.png', height:20, width:120, url: 'disease.php?key=Asthma', target: '_blank', tooltip: 'Group: Asthma'},
{image: 'resource/text_icons/ACO.png', height:20, width:120, url: 'disease.php?key=Asthma-COPD Overlap (ACO)', target: '_blank', tooltip: 'Group: Asthma-COPD Overlap'},
{image: 'resource/text_icons/Bronchiectasis.png', height:20, width:120, url: 'disease.php?key=Bronchiectasis', target: '_blank', tooltip: 'Group: Bronchiectasis'},
{image: 'resource/text_icons/Bronchiolitis.png', height:20, width:120, url: 'disease.php?key=Bronchiolitis', target: '_blank', tooltip: 'Group: Bronchiolitis'},
{image: 'resource/text_icons/Bronchitis.png', height:20, width:120, url: 'disease.php?key=Bronchitis', target: '_blank', tooltip: 'Group: Bronchitis'},
{image: 'resource/text_icons/COPD.png', height:20, width:120, url: 'disease.php?key=Chronic Obstructive Pulmonary Disease (COPD)', target: '_blank', tooltip: 'Group: Chronic Obstructive Pulmonary Disease (COPD)'},
{image: 'resource/text_icons/CBA.png', height:20, width:120, url: 'disease.php?key=COPD-Bronchiectasis Association (CBA)', target: '_blank', tooltip: 'Group: COPD-Bronchiectasis Association (CBA)'},
{image: 'resource/text_icons/COVID-19.png', height:20, width:120, url: 'disease.php?key=COVID-19', target: '_blank', tooltip: 'Group: COVID-19'},
{image: 'resource/text_icons/Cystic_Fibrosis.png', height:20, width:120, url: 'disease.php?key=Cystic Fibrosis', target: '_blank', tooltip: 'Group: Cystic Fibrosis'},
{image: 'resource/text_icons/Healthy.png', height:20, width:120, url: 'disease.php?key=Healthy', target: '_blank', tooltip: 'Group: Healthy'},
{image: 'resource/text_icons/IPF.png', height:20, width:120, url: 'disease.php?key=Idiopathic Pulmonary Fibrosis (IPF)', target: '_blank', tooltip: 'Group: Idiopathic Pulmonary Fibrosis (IPF)'},
{image: 'resource/text_icons/ILD.png', height:20, width:120, url: 'disease.php?key=Interstitial Lung Disease (ILD)', target: '_blank', tooltip: 'Group: Interstitial Lung Disease (ILD)'},
{image: 'resource/text_icons/Lung_Cancer.png', height:20, width:120, url: 'disease.php?key=Lung Cancer', target: '_blank', tooltip: 'Group: Lung Cancer'},
{image: 'resource/text_icons/OPI.png', height:20, width:120, url: 'disease.php?key=Other Pulmonary Infections', target: '_blank', tooltip: 'Group: Other Pulmonary Infections'},
{image: 'resource/text_icons/Pneumonia.png', height:20, width:120, url: 'disease.php?key=Pneumonia', target: '_blank', tooltip: 'Group: Pneumonia'},
{image: 'resource/text_icons/Pneumonitis.png', height:20, width:120, url: 'disease.php?key=Pneumonitis', target: '_blank', tooltip: 'Group: Pneumonitis'},
{image: 'resource/text_icons/Pulmonary_Hypertension.png', height:20, width:200, url: 'disease.php?key=Pulmonary Hypertension', target: '_blank', tooltip: 'Group: Pulmonary Hypertension'},
{image: 'resource/text_icons/Sarcoidosis.png', height:20, width:120, url: 'disease.php?key=Sarcoidosis', target: '_blank', tooltip: 'Group: Sarcoidosis'},
{image: 'resource/text_icons/Tuberculosis.png', height:20, width:120, url: 'disease.php?key=Tuberculosis', target: '_blank', tooltip: 'Group: Tuberculosis'},
{image: 'resource/text_icons/Anus.png', height:20, width:120, url: 'biom.php?key=Anus', target: '_blank', tooltip: 'Biome: Anus'},
{image: 'resource/text_icons/Gut.png', height:20, width:120, url: 'biom.php?key=Gut', target: '_blank', tooltip: 'Biome: Gut'},
{image: 'resource/text_icons/Large_Intestine.png', height:20, width:120, url: 'biom.php?key=Large Intestine', target: '_blank', tooltip: 'Biome: Large Intestine'},
{image: 'resource/text_icons/LRT.png', height:20, width:120, url: 'biom.php?key=Lower Respiratory Tract', target: '_blank', tooltip: 'Biome: Lower Respiratory Tract'},
{image: 'resource/text_icons/Lung.png', height:20, width:120, url: 'biom.php?key=Lung', target: '_blank', tooltip: 'Biome: Lung'},
{image: 'resource/text_icons/Nasal.png', height:20, width:120, url: 'biom.php?key=Nasal', target: '_blank', tooltip: 'Biome: Nasal'},
{image: 'resource/text_icons/Oral.png', height:20, width:120, url: 'biom.php?key=Oral', target: '_blank', tooltip: 'Biome: Oral'},
{image: 'resource/text_icons/Rectum.png', height:20, width:120, url: 'biom.php?key=Rectum', target: '_blank', tooltip: 'Biome: Rectum'},
{image: 'resource/text_icons/Stomach.png', height:20, width:120, url: 'biom.php?key=Stomach', target: '_blank', tooltip: 'Biome: Stomach'},
{image: 'resource/text_icons/URT.png', height:20, width:120, url: 'biom.php?key=Upper Respiratory Tract', target: '_blank', tooltip: 'Biome: Upper Respiratory Tract'},
{image: 'resource/text_icons/Bacteria.png', height:20, width:120, url: 'taxa_domain.php?key=Bacteria', target: '_blank', tooltip: 'Domain: Bacteria'},
{image: 'resource/text_icons/Viruses.png', height:20, width:120, url: 'taxa_domain.php?key=Viruses', target: '_blank', tooltip: 'Domain: Viruses'},
{image: 'resource/text_icons/Eukaryota.png', height:20, width:120, url: 'taxa_domain.php?key=Eukaryota', target: '_blank', tooltip: 'Domain: Eukaryota'},
{image: 'resource/text_icons/Archaea.png', height:20, width:120, url: 'taxa_domain.php?key=Archaea', target: '_blank', tooltip: 'Domain: Archaea'}
];
var settings = {
entries: entries,
width: 500,
height: 500,
radius: '75%',
// radiusMin: 70,
bgDraw: false,
opacityOver: 1.00,
opacityOut: 0.2,
opacitySpeed: 10,
fov: 800,
speed: 0.2,
tooltipFontFamily: 'Nunito Sans, Arial, sans-serif',
tooltipFontSize: '12',
tooltipFontColor: '#111',
tooltipFontWeight: 'normal',
tooltipFontStyle: 'normal',
tooltipFontStretch: 'normal',
tooltipFontToUpperCase: false,
tooltipTextAnchor: 'left',
tooltipDiffX: 10,
tooltipDiffY: 20,
animatingSpeed: 0.1,
animatingRadiusLimit: 1.3
};
var svg3DTagCloud = new SVG3DTagCloud(document.getElementById('interactive_plot_div'), settings);
}
</script>
<style>
body{
background-color: #ffffff;
}
.intro{
width:48%;
margin: 0 1% 0 1%;
float: left;
}
</style>
</head>
<body>
<div class = "section_header">
<center><p class="title">MDPD - Microbiome Database of Pulmonary Diseases</p></center>
</div>
<div class = "section_menu">
<center>
<table cellpadding="3px">
<tr class="nav">
<td class="nav"><a href="#" class="active">Home</a></td>
<td class="nav"><a href="browse.php" class="side_nav">Browse</a></td>
<td class="nav"><a href="analysis.php" class="side_nav">Analysis</a></td>
<td class="nav"><a href="statistics.php" class="side_nav">Statistics</a></td>
<td class="nav"><a href="about.php" class="side_nav">About</a></td>
<td class="nav"><a href="help.html" class="side_nav">Help</a></td>
<td class="nav"><a href="team.html" class="side_nav">Team</a></td>
</tr>
</table>
</center>
</div>
<!--<div class = "section_left"></div>-->
<div class = "section_middle">
<!-- <br/> -->
<div class="intro">
<p style="margin-top:10px; font-size:1.05em">
<b>Microbiome Database for Pulmonary Diseases (MDPD)</b> is a comprehensive
resource for analyzing human microbiome data related to various pulmonary
diseases. MDPD is developed using thorough <b>manual curation of sample
metadata</b><!-- from <b>461 BioProjects</b> to obtain <b>74,737 runs</b>-->. MDPD
contains data of <b>19 diseases and a healthy group</b> from <b>10 human
microbiome sites</b>. MDPD includes - (i) Microbial <b>taxonomic profile</b>
analysis, (ii) <b>Discriminant</b> analysis, (iii) <b>Multivariate association</b>
analysis, (iv) <b>Microbial co-occurrence</b> network analysis, (v) Disease
<b>subtypes comparison</b> or between <b>disease subtype vs healthy groups</b>,
and (vi) Graphical representation of <b>each taxa profile across disease
subtypes</b>.
</p>
<center><h3 style="margin-bottom:5px;">Search MDPD</h3></center>
<form method="post" action="advance_search_result.php">
<table class="form" id="form_input_table" border="0" align="center">
<tr class="input_row">
<td style="width:10%;"></td>
<td style="width:10%;"><input type="hidden" name="lo0" value="" /></td>
<td style="width:30%;">
<select class="full" id="k0" name="k0" onchange="updateKeyChoice(this)">
<option value="Disease" selected>Disease</option>
<option value="AssayType">Assay Type</option>
<option value="Biome">Biome</option>
<option value="LibraryLayout">Library Layout</option>
<option value="Country">Country</option>
<option value="Year">Year</option>
</select>
</td>
<td style="width:10%;">
<!--<select class="full" id="op0" name="op0">
<option value="=" selected>=</option>
<option value="<"><</option>
<option value="<="><=</option>
<option value=">">></option>
<option value=">=">>=</option>
</select>-->
</td>
<td style="width:40%;">
<!-- <input class="full" type="text" id="v0" name="v0" placeholder="Enter search keyword"> -->
</td>
</tr>
<script>updateKeyChoice(document.getElementById('k0'));</script>
</table>
<input type="hidden" id="total_count" name="total_count" value="1" />
<script>document.getElementById('total_count').value = 1;</script>
<table border="0" align="center" style="margin-top:10px;">
<tr>
<td style="text-align:right;"><button type="button" style="width:180px;margin:0px;" onclick="addRow()">Add search predicate</button></td>
<td style="text-align:left;"><button type="button" style="width:180px;margin:0px;" onclick="deleteRow()">Delete search predicate</button></td>
</tr>
<tr>
<td style="text-align:right;//padding-right:100px;"><input type="submit" style="width:100px;margin:5px;" name="Submit" value="Submit" /></td>
<td style="text-align:left;//padding-left:100px;"><button type="reset" style="width:100px;margin:5px;" value="Reset">Reset</button></td>
</tr>
</table>
</form>
<center><h3 style="margin-bottom:5px;">Data summary</h3></center>
<img src="resource/home_figures/Icons_1.svg" style="width:100%; max-height:120px; max-width:100%;" />
</div>
<div class="intro">
<center>
<div id="interactive_plot_div" style="width:100%;"></div>
<p style="margin:0;">Interactive plot showing the different groups, biomes, and taxa domains in MDPD.</p>
<p style="margin:0; font-size:0.9em;"><i>(Please click on the text in plot to get details)</i></p>
</center>
</div>
<div style="clear:both;"></div>
<hr/>
<p style="font-size:0.9em;text-align:center;">
© 2025 Bose Institute. All rights reserved. For queries, please contact Dr. Sudipto Saha
(<a style="color:#003325;" href="mailto:ssaha4@jcbose.ac.in">ssaha4@jcbose.ac.in</a>,
<a style="color:#003325;" href="mailto:ssaha4@gmail.com">ssaha4@gmail.com</a>).
</p>
</div>
</body>
<script>
plot3DInteractiveSVG();
</script>
<style>
@media screen and (max-width: 1250px) {
.intro {
width: 80%;
margin: 30px 10% 0 10%;
}
}
</style>
</html>