OMERO.web uses a default session backend authentication scheme for authentication.
First create a HTTP session using the requests
library:
# initial data
IDR_BASE_URL = "https://idr.openmicroscopy.org"
import requests
INDEX_PAGE = "%s/webclient/?experimenter=-1" % IDR_BASE_URL
# create http session
with requests.Session() as session:
request = requests.Request('GET', INDEX_PAGE)
prepped = session.prepare_request(request)
response = session.send(prepped)
if response.status_code != 200:
response.raise_for_status()
MAP_URL = "{base}/webclient/api/annotations/?type=map&{type}={screen_id}"
SCREEN_ID = 102
qs = {'base': IDR_BASE_URL, 'type': 'screen', 'screen_id': SCREEN_ID}
url = MAP_URL.format(**qs)
for a in session.get(url).json()['annotations']:
namespace = a['ns']
for v in a['values']:
key = v[0]
value = v[1]
print (key, value)
(u'Study Type', u'high content screen') (u'Organism', u'Homo sapiens') (u'Screen Type', u'primary screen') (u'Screen Technology Type', u'RNAi screen') (u'Imaging Method', u'fluorescence microscopy') (u'Publication Title', u'Integration of biological data by kernels on graph nodes allows prediction of new genes involved in mitotic chromosome condensation.') (u'Publication Authors', u'Heriche JK, Lees JG, Morilla I, Walter T, Petrova B, Roberti MJ, Hossain MJ, Adler P, Fernandez JM, Krallinger M, Haering CH, Vilo J, Valencia A, Ranea JA, Orengo C, Ellenberg J.') (u'PubMed ID', u'24943848 https://www.ncbi.nlm.nih.gov/pubmed/24943848') (u'PMC ID', u'PMC4142622 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4142622') (u'Publication DOI', u'10.1091/mbc.E13-04-0221 https://doi.org/10.1091/mbc.E13-04-0221') (u'License', u'CC-BY 4.0 https://creativecommons.org/licenses/by/4.0/') (u'Copyright', u'Heriche et al') (u'Annotation File', u'idr0002-screenA-annotation.csv https://github.com/IDR/idr-metadata/blob/master/idr0002-heriche-condensation/screenA/idr0002-screenA-annotation.csv')
PLATES_URL = "{base}/webclient/api/plates/?id={screen_id}"
SCREEN_ID = 102
qs = {'base': IDR_BASE_URL, 'screen_id': SCREEN_ID}
url = PLATES_URL.format(**qs)
for p in session.get(url).json()['plates']:
plate_id = p['id']
print("Plate: {id}, Name: {name}, Children: {childCount}".format(**p))
Plate: 422, Name: plate1_1_013, Children: 1 Plate: 492, Name: plate1_2_006, Children: 1 Plate: 559, Name: plate1_3_003, Children: 1 Plate: 620, Name: plate1_7_015, Children: 1 Plate: 680, Name: plate2_2_007, Children: 1 Plate: 728, Name: plate2_3_018, Children: 1 Plate: 800, Name: plate2_5_015, Children: 1 Plate: 869, Name: plate2_7_028, Children: 1 Plate: 944, Name: plate3_11_007, Children: 1 Plate: 1015, Name: plate3_4_034, Children: 1 Plate: 1072, Name: plate3_5_002, Children: 1 Plate: 4554, Name: plate3_8_010, Children: 1
WELLS_IMAGES_URL = "{base}/webgateway/plate/{plate_id}/{field}/"
qs = {'base': IDR_BASE_URL, 'plate_id': plate_id, 'field': 0}
url = WELLS_IMAGES_URL.format(**qs)
grid = session.get(url).json()
rowlabels = grid['rowlabels']
collabels = grid['collabels']
for row in grid['grid']:
for cell in row:
if cell is not None:
print("Well: {wellId}, Image: {id}".format(**cell))
Well: 1046859, Image: 1938559 Well: 1046944, Image: 1938650 Well: 1046877, Image: 1938583 Well: 1046904, Image: 1938610 Well: 1046910, Image: 1938616 Well: 1046869, Image: 1938575 Well: 1046864, Image: 1938570 Well: 1046940, Image: 1938646 Well: 1046930, Image: 1938636 Well: 1046853, Image: 1938560 Well: 1046920, Image: 1938626 Well: 1046863, Image: 1938569 Well: 1046890, Image: 1938596 Well: 1046889, Image: 1938595 Well: 1046942, Image: 1938648 Well: 1046915, Image: 1938621 Well: 1046934, Image: 1938640 Well: 1046880, Image: 1938586 Well: 1046881, Image: 1938587 Well: 1046919, Image: 1938625 Well: 1046870, Image: 1938576 Well: 1046947, Image: 1938653 Well: 1046892, Image: 1938598 Well: 1046856, Image: 1938563 Well: 1046900, Image: 1938606 Well: 1046901, Image: 1938607 Well: 1046945, Image: 1938651 Well: 1046873, Image: 1938579 Well: 1046936, Image: 1938642 Well: 1046908, Image: 1938614 Well: 1046897, Image: 1938603 Well: 1046867, Image: 1938573 Well: 1046865, Image: 1938571 Well: 1046921, Image: 1938627 Well: 1046922, Image: 1938628 Well: 1046855, Image: 1938562 Well: 1046887, Image: 1938593 Well: 1046906, Image: 1938612 Well: 1046931, Image: 1938637 Well: 1046875, Image: 1938581 Well: 1046866, Image: 1938572 Well: 1046854, Image: 1938561 Well: 1046860, Image: 1938566 Well: 1046911, Image: 1938617 Well: 1046907, Image: 1938613 Well: 1046876, Image: 1938582 Well: 1046857, Image: 1938564 Well: 1046926, Image: 1938632 Well: 1046932, Image: 1938638 Well: 1046891, Image: 1938597 Well: 1046874, Image: 1938580 Well: 1046903, Image: 1938609 Well: 1046935, Image: 1938641 Well: 1046898, Image: 1938604 Well: 1046899, Image: 1938605 Well: 1046939, Image: 1938645 Well: 1046858, Image: 1938565 Well: 1046923, Image: 1938629 Well: 1046896, Image: 1938602 Well: 1046912, Image: 1938618 Well: 1046884, Image: 1938590 Well: 1046924, Image: 1938630 Well: 1046937, Image: 1938643 Well: 1046938, Image: 1938644 Well: 1046941, Image: 1938647 Well: 1046893, Image: 1938599 Well: 1046861, Image: 1938567 Well: 1046928, Image: 1938634 Well: 1046927, Image: 1938633 Well: 1046948, Image: 1938654 Well: 1046933, Image: 1938639 Well: 1046862, Image: 1938568 Well: 1046929, Image: 1938635 Well: 1046888, Image: 1938594 Well: 1046917, Image: 1938623 Well: 1046902, Image: 1938608 Well: 1046918, Image: 1938624 Well: 1046882, Image: 1938588 Well: 1046943, Image: 1938649 Well: 1046885, Image: 1938591 Well: 1046879, Image: 1938585 Well: 1046916, Image: 1938622 Well: 1046871, Image: 1938577 Well: 1046946, Image: 1938652 Well: 1046914, Image: 1938620 Well: 1046905, Image: 1938611 Well: 1046886, Image: 1938592 Well: 1046909, Image: 1938615 Well: 1046868, Image: 1938574 Well: 1046895, Image: 1938601 Well: 1046925, Image: 1938631 Well: 1046883, Image: 1938589 Well: 1046913, Image: 1938619 Well: 1046894, Image: 1938600 Well: 1046878, Image: 1938584 Well: 1046872, Image: 1938578
from IPython.display import display, HTML
WELLS_IMAGES_URL = "{base}/webgateway/plate/{plate_id}/{field}/"
PLATE_ID = 325
qs = {'base': IDR_BASE_URL, 'plate_id': PLATE_ID, 'field': 0}
url = WELLS_IMAGES_URL.format(**qs)
grid = session.get(url).json()
image_ids = [cell['id'] for row in grid['grid'] for cell in row if cell is not None]
THUMBNAILS_URL = "{base}/webgateway/get_thumbnails/".format(**{'base': IDR_BASE_URL, })
def thumbnails_chunk(image_list, batch):
for b in xrange(0, len(image_list), batch):
yield image_list[b:b + batch]
batch_size = 20
_thumbnails = {}
for batch in thumbnails_chunk(image_ids, batch_size):
payload = {'id': batch}
for iid, thumb in session.get(THUMBNAILS_URL, params=payload).json().iteritems():
_thumbnails[long(iid)] = thumb
# Display plate
_tbody = []
for row in grid['grid']:
_tr = ["<tr>"]
for cell in row:
if cell is not None:
_tr.append('<td><img src="%s"/></td>' % _thumbnails[cell['id']])
else:
_tr.append('<td></td>')
_tr.append("</tr>")
_tbody.append(" ".join(_tr))
display(HTML("<table>" + "".join(_tbody) + "</table>"))
from IPython.display import display, HTML
IMAGE_DETAILS_URL = "{base}/webclient/imgData/{image_id}/"
IMAGE_ID = 122770
qs = {'base': IDR_BASE_URL, 'image_id': IMAGE_ID}
url = IMAGE_DETAILS_URL.format(**qs)
r = session.get(url)
if r.status_code == 200:
print (r.json())
RENDER_IMAGE = "{base}/webgateway/render_image/{image_id}/0/0/"
img_url = RENDER_IMAGE.format(**qs)
display(HTML("<img src='%s' />" % img_url))
{u'init_zoom': 0, u'tiles': False, u'perms': {u'canAnnotate': False, u'canEdit': False, u'canDelete': False, u'canLink': False}, u'split_channel': {u'c': {u'width': 1398, u'border': 2, u'gridy': 2, u'gridx': 2, u'height': 1046}, u'g': {u'width': 1398, u'border': 2, u'gridy': 2, u'gridx': 2, u'height': 1046}}, u'rdefs': {u'defaultT': 0, u'model': u'color', u'defaultZ': 0, u'invertAxis': False, u'projection': u'normal'}, u'pixel_range': [0, 65535], u'interpolate': True, u'channels': [{u'coefficient': 1.0, u'family': u'linear', u'color': u'FF0000', u'emissionWave': None, u'inverted': False, u'window': {u'max': 4095.0, u'min': 250.0, u'end': 4095.0, u'start': 250.0}, u'active': True, u'label': u'DAPI', u'reverseIntensity': False}, {u'coefficient': 1.0, u'family': u'linear', u'color': u'00FF00', u'emissionWave': None, u'inverted': False, u'window': {u'max': 4095.0, u'min': 694.0, u'end': 4095.0, u'start': 694.0}, u'active': True, u'label': u'FITC-FilterWheel', u'reverseIntensity': False}, {u'coefficient': 1.0, u'family': u'linear', u'color': u'0000FF', u'emissionWave': None, u'inverted': False, u'window': {u'max': 4095.0, u'min': 237.0, u'end': 4095.0, u'start': 237.0}, u'active': True, u'label': u'TRITC-FilterWheel', u'reverseIntensity': False}], u'meta': {u'projectDescription': u'', u'datasetName': u'Multiple', u'projectId': None, u'wellSampleId': u'', u'projectName': u'Multiple', u'imageDescription': u'', u'imageId': 122770, u'imageAuthor': u'Public data', u'imageName': u'Plate8_Actinome1 [Well O02 Field #1]', u'datasetDescription': u'', u'wellId': 45217, u'imageTimestamp': 1194540393.0, u'pixelsType': u'uint16', u'datasetId': None}, u'id': 122770, u'pixel_size': {u'y': 1.25195005, u'x': 1.25195005, u'z': None}, u'size': {u'width': 696, u'c': 3, u'z': 1, u't': 1, u'height': 520}}
MAP_URL = "{base}/webclient/api/annotations/?type=map&{type}={image_id}"
IMAGE_ID = 122770
qs = {'base': IDR_BASE_URL, 'type': 'image', 'image_id': IMAGE_ID}
url = MAP_URL.format(**qs)
for a in session.get(url).json()['annotations']:
namespace = a['ns']
for v in a['values']:
key = v[0]
value = v[1]
print (key, value)
(u'Cell Line', u'HeLa') (u'Gene Identifier', u'NM_018098') (u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_018098') (u'Gene Symbol', u'ECT2') (u'Analysis Gene Annotation Build', u'siRNA Pool Identifiers/Gene symbols from GRCh37, Ensembl release 56, Sept 2009') (u'Gene Annotation Comments', u'Gene Symbol added using siRNA Pool Identifier name by IDR curator') (u'Organism', u'Homo sapiens') (u'Phenotype', u'increased number of zigzag actin stress fibres') (u'Phenotype Term Name', u'increased amount of zig-zag stress fibers') (u'Phenotype Term Accession', u'CMPO_0000299') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000299') (u'Phenotype', u'loss of cell monolayer') (u'Phenotype Term Name', u'loss of cell monolayer') (u'Phenotype Term Accession', u'CMPO_0000293') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000293') (u'Phenotype', u'increased DNA area') (u'Phenotype Term Name', u'increased nucleus size phenotype') (u'Phenotype Term Accession', u'CMPO_0000140') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000140') (u'Phenotype', u'disorganised peripheral actin') (u'Phenotype Term Name', u'disorganised cortical actin cytoskeleton phenotype') (u'Phenotype Term Accession', u'CMPO_0000274') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000274') (u'Phenotype', u'increased number of actin puncta or dots') (u'Phenotype Term Name', u'increased amount of punctate actin foci phenotype') (u'Phenotype Term Accession', u'CMPO_0000291') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000291') (u'Phenotype', u'increased width of lamellae') (u'Phenotype Term Name', u'increased lamellipodia width phenotype') (u'Phenotype Term Accession', u'CMPO_0000276') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000276') (u'Phenotype', u'increased cell size') (u'Phenotype Term Name', u'increased cell size phenotype') (u'Phenotype Term Accession', u'CMPO_0000128') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000128') (u'Phenotype', u'decreased cell number') (u'Phenotype Term Name', u'decreased cell numbers') (u'Phenotype Term Accession', u'CMPO_0000052') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000052') (u'Phenotype', u'increased actin over nucleus') (u'Phenotype Term Name', u'increased actin localised to the nucleus') (u'Phenotype Term Accession', u'CMPO_0000294') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000294') (u'Phenotype', u'increased cytoplasmic actin') (u'Phenotype Term Name', u'increased actin localised to the cytoplasm') (u'Phenotype Term Accession', u'CMPO_0000296') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000296') (u'Phenotype', u'microtubules disorganised') (u'Phenotype Term Name', u'disorganized microtubules phenotype') (u'Phenotype Term Accession', u'CMPO_0000147') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000147') (u'Phenotype', u'increased number of multinucleate cells') (u'Phenotype Term Name', u'more multinucleate cells') (u'Phenotype Term Accession', u'CMPO_0000300') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000300') (u'Phenotype', u'misshapen DNA') (u'Phenotype Term Name', u'misshapen DNA') (u'Phenotype Term Accession', u'CMPO_0000177') (u'Phenotype Term Accession URL', u'http://www.ebi.ac.uk/cmpo/CMPO_0000177') (u'Phenotype 30 Term Name', u'misshapen DNA') (u'siRNA Identifier', u'ECT2-02') (u'siRNA Pool Identifier', u'ECT2') (u'siRNA Catalog Number', u'D-006450-02') (u'Sense Sequence', u'GCACUCACCUUGUAGUUGA') (u'Channels', u'DAPI:DNA;FITC-FilterWheel:alpha-tubulin;TIRTC-FilterWheel:phallodin/F-actin') (u'Overall Hit Gene Consensus', u'yes') (u'Has Phenotype', u'yes') (u'Phenotype Annotation Level', u'gene')
BULK_URL = "{base}/webgateway/table/Screen.plateLinks.child.wells/{well_id}/query/?query=Well-{well_id}"
WELL_ID = 45217
qs = {'base': IDR_BASE_URL, 'well_id': WELL_ID}
url = BULK_URL.format(**qs)
r = session.get(url)
print (r.json())
# or download entire bulk_annotation file:
FILEANNOTATION_URL = "{base}/webclient/api/annotations/?type=file&screen={screen_id}"
DOWNLOAD_URL = "{base}/webclient/annotation/{ann_id}"
SCREEN_ID = 206
qs = {'base': IDR_BASE_URL, 'screen_id': SCREEN_ID}
url = FILEANNOTATION_URL.format(**qs)
for a in session.get(url).json()['annotations']:
namespace = a['ns']
ann_id = a['id']
qs2 = {'base': IDR_BASE_URL, 'ann_id': a['id']}
url2 = DOWNLOAD_URL.format(**qs2)
print ("Download URL:", url2)
{u'parentId': 206, u'addedBy': u'Public data', u'parentType': u'Screen', u'annId': 8368945, u'owner': u'Public data', u'data': {u'rows': [[340, u'338', 45217, u'Plate8_Actinome1_O2', u'Homo sapiens', u'NCBITaxon', u'NCBITaxon_9606', u'HeLa', u'EFO', u'EFO_0001185', u'ECT2-02', u'ECT2', u'D-006450-02', u'GCACUCACCUUGUAGUUGA', u'', u'NM_018098', u'ECT2', u'siRNA Pool Identifiers/Gene symbols from GRCh37, Ensembl release 56, Sept 2009', u'Gene Symbol added using siRNA Pool Identifier name by IDR curator', u'', u'', u'DAPI:DNA;FITC-FilterWheel:alpha-tubulin;TIRTC-FilterWheel:phallodin/F-actin', u'', u'yes', u'yes', u'yes', u'yes', u'gene', u'', u'', u'', u'', u'', u'', u'increased cytoplasmic actin', u'increased actin localised to the cytoplasm', u'CMPO_0000296', u'increased actin over nucleus', u'increased actin localised to the nucleus', u'CMPO_0000294', u'', u'', u'', u'increased width of lamellae', u'increased lamellipodia width phenotype', u'CMPO_0000276', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'increased number of actin puncta or dots', u'increased amount of punctate actin foci phenotype', u'CMPO_0000291', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'increased number of zigzag actin stress fibres', u'increased amount of zig-zag stress fibers', u'CMPO_0000299', u'disorganised peripheral actin', u'disorganised cortical actin cytoskeleton phenotype', u'CMPO_0000274', u'increased cell size', u'increased cell size phenotype', u'CMPO_0000128', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'decreased cell number', u'decreased cell numbers', u'CMPO_0000052', u'', u'', u'', u'increased number of multinucleate cells', u'more multinucleate cells', u'CMPO_0000300', u'increased DNA area', u'increased nucleus size phenotype', u'CMPO_0000140', u'', u'', u'', u'misshapen DNA', u'misshapen DNA', u'CMPO_0000177', u'', u'', u'', u'', u'', u'', u'microtubules disorganised', u'disorganized microtubules phenotype', u'CMPO_0000147', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'', u'loss of cell monolayer', u'loss of cell monolayer', u'CMPO_0000293', u'', u'', u'', u'Plate8_Actinome1', u'o2']], u'columns': [u'Plate', u'Well Number', u'Well', u'Plate_Well', u'Characteristics [Organism]', u'Term Source 1 REF', u'Term Source 1 Accession', u'Characteristics [Cell Line]', u'Term Source 2 REF', u'Term Source 2 Accession', u'siRNA Identifier', u'siRNA Pool Identifier', u'siRNA Catalog Number', u'Sense Sequence', u'Reagent Design Gene Annotation Build', u'Gene Identifier', u'Gene Symbol', u'Analysis Gene Annotation Build', u'Gene Annotation Comments', u'Control Type', u'Control Comments', u'Channels', u'Comments', u'Final Well Hit Status Actinome 1', u'Final Well Hit status Actinome 2', u'Overall Hit Gene Consensus', u'Has Phenotype', u'Phenotype Annotation Level', u'Phenotype 1', u'Phenotype 1 Term Name', u'Phenotype 1 Term Accession', u'Phenotype 2', u'Phenotype 2 Term Name', u'Phenotype 2 Term Accession', u'Phenotype 3', u'Phenotype 3 Term Name', u'Phenotype 3 Term Accession', u'Phenotype 4', u'Phenotype 4 Term Name', u'Phenotype 4 Term Accession', u'Phenotype 5', u'Phenotype 5 Term Name', u'Phenotype 5 Term Accession', u'Phenotype 6', u'Phenotype 6 Term Name', u'Phenotype 6 Term Accession', u'Phenotype 7', u'Phenotype 7 Term Name', u'Phenotype 7 Term Accession', u'Phenotype 8', u'Phenotype 8 Term Name', u'Phenotype 8 Term Accession', u'Phenotype 9', u'Phenotype 9 Term Name', u'Phenotype 9 Term Accession', u'Phenotype 10', u'Phenotype 10 Term Name', u'Phenotype 10 Term Accession', u'Phenotype 11', u'Phenotype 11 Term Name', u'Phenotype 11 Term Accession', u'Phenotype 12', u'Phenotype 12 Term Name', u'Phenotype 12 Term Accession', u'Phenotype 13', u'Phenotype 13 Term Name', u'Phenotype 13 Term Accession', u'Phenotype 14', u'Phenotype 14 Term Name', u'Phenotype 14 Term Accession', u'Phenotype 15', u'Phenotype 15 Term Name', u'Phenotype 15 Term Accession', u'Phenotype 16', u'Phenotype 16 Term Name', u'Phenotype 16 Term Accession', u'Phenotype 17', u'Phenotype 17 Term Name', u'Phenotype 17 Term Accession', u'Phenotype 18', u'Phenotype 18 Term Name', u'Phenotype 18 Term Accession', u'Phenotype 19', u'Phenotype 19 Term Name', u'Phenotype 19 Term Accession', u'Phenotype 20', u'Phenotype 20 Term Name', u'Phenotype 20 Term Accession', u'Phenotype 21', u'Phenotype 21 Term Name', u'Phenotype 21 Term Accession', u'Phenotype 22', u'Phenotype 22 Term Name', u'Phenotype 22 Term Accession', u'Phenotype 23', u'Phenotype 23 Term Name', u'Phenotype 23 Term Accession', u'Phenotype 24', u'Phenotype 24 Term Name', u'Phenotype 24 Term Accession', u'Phenotype 25', u'Phenotype 25 Term Name', u'Phenotype 25 Term Accession', u'Phenotype 26', u'Phenotype 26 Term Name', u'Phenotype 26 Term Accession', u'Phenotype 27', u'Phenotype 27 Term Name', u'Phenotype 27 Term Accession', u'Phenotype 28', u'Phenotype 28 Term Name', u'Phenotype 28 Term Accession', u'Phenotype 29', u'Phenotype 29 Term Name', u'Phenotype 29 Term Accession', u'Phenotype 30', u'Phenotype 30 Term Name', u'Phenotype 30 Term Accession', u'Phenotype 31', u'Phenotype 31 Term Name', u'Phenotype 31 Term Accession', u'Phenotype 32', u'Phenotype 32 Term Name', u'Phenotype 32 Term Accession', u'Phenotype 33', u'Phenotype 33 Term Name', u'Phenotype 33 Term Accession', u'Phenotype 34', u'Phenotype 34 Term Name', u'Phenotype 34 Term Accession', u'Phenotype 35', u'Phenotype 35 Term Name', u'Phenotype 35 Term Accession', u'Phenotype 36', u'Phenotype 36 Term Name', u'Phenotype 36 Term Accession', u'Phenotype 37', u'Phenotype 37 Term Name', u'Phenotype 37 Term Accession', u'Phenotype 38', u'Phenotype 38 Term Name', u'Phenotype 38 Term Accession', u'Phenotype 39', u'Phenotype 39 Term Name', u'Phenotype 39 Term Accession', u'Phenotype 40', u'Phenotype 40 Term Name', u'Phenotype 40 Term Accession', u'Plate Name', u'Well Name']}, u'id': 15026339, u'addedOn': 1502896910574} ('Download URL:', 'https://idr.openmicroscopy.org/webclient/annotation/8368945') ('Download URL:', 'https://idr.openmicroscopy.org/webclient/annotation/2891867')
SCREENS_PROJECTS_URL = "{base}/mapr/api/{key}/?value={value}"
qs = {'base': IDR_BASE_URL, 'key': 'gene', 'value': 'CDC20'}
url = SCREENS_PROJECTS_URL.format(**qs)
for s in session.get(url).json()['screens']:
screen_id = s['id']
print (s['id'], s['name'])
(102, u'idr0002-heriche-condensation/screenA (24)') (51, u'idr0003-breker-plasticity/screenA (15)') (253, u'idr0006-fong-nuclearbodies/screenA (48)') (201, u'idr0007-srikumar-sumo/screenA (9)') (251, u'idr0009-simpson-secretion/screenA (12)') (1351, u'idr0010-doil-dnadamage/screenA (4)') (1551, u'idr0011-ledesmafernandez-dad4/screenB (13)') (1602, u'idr0011-ledesmafernandez-dad4/screenD (21)') (1202, u'idr0012-fuchs-cellmorph/screenA (2)') (1101, u'idr0013-neumann-mitocheck/screenA (6)') (1302, u'idr0013-neumann-mitocheck/screenB (8)') (1204, u'idr0020-barr-chtog/screenA (120)')
PLATES_URL = "{base}/mapr/api/{key}/plates/?value={value}&id={screen_id}"
qs = {'base': IDR_BASE_URL, 'key': 'gene', 'value': 'CDC20', 'screen_id': screen_id}
url = PLATES_URL.format(**qs)
for p in session.get(url).json()['plates']:
plate_id = p['id']
print (p['id'], p['name'])
(4357, u'200972429 TOG[2702]') (4401, u'200972430 TOG[2703]') (4451, u'200972431 NS[2667]') (4453, u'200972432 NS[2668]')
IMAGES_URL = "{base}/mapr/api/{key}/images/?value={value}&node={parent_type}&id={parent_id}"
IMAGE_URL = "{base}/webclient/?show=image-{image_id}"
IMAGE_VIEWER = "{base}/webclient/img_detail/{image_id}/"
THUMBNAIL_URL = "{base}/webclient/render_thumbnail/{image_id}/"
ATTRIBUTES_URL = "{base}/webclient/api/annotations/?type=map&image={image_id}"
qs = {'base': IDR_BASE_URL, 'key': 'gene', 'value': 'CDC20', 'parent_type': 'plate', 'parent_id': plate_id}
url = IMAGES_URL.format(**qs)
for i in session.get(url).json()['images']:
image_id = i['id']
print 'Image link:', IMAGE_URL.format(**{'base': IDR_BASE_URL, 'image_id': image_id})
print 'Image viewer link:', IMAGE_VIEWER.format(**{'base': IDR_BASE_URL, 'image_id': image_id})
print 'Thumbnail URL:', THUMBNAIL_URL.format(**{'base': IDR_BASE_URL, 'image_id': image_id})
url = ATTRIBUTES_URL.format(**{'base': IDR_BASE_URL, 'image_id': image_id})
print 'Annotations:'
for a in session.get(url).json()['annotations']:
print '\t%s' % a['values']
Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915895 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915895/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915895/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915879 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915879/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915879/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915899 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915899/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915899/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915893 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915893/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915893/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915894 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915894/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915894/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915903 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915903/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915903/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915904 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915904/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915904/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915887 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915887/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915887/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915883 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915883/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915883/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915890 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915890/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915890/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915882 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915882/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915882/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915897 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915897/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915897/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915906 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915906/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915906/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915880 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915880/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915880/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915884 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915884/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915884/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915891 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915891/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915891/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915896 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915896/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915896/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915907 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915907/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915907/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915881 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915881/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915881/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915886 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915886/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915886/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915888 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915888/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915888/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915878 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915878/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915878/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915900 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915900/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915900/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915905 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915905/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915905/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915898 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915898/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915898/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915885 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915885/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915885/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915889 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915889/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915889/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915901 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915901/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915901/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915892 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915892/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915892/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']] Image link: https://idr.openmicroscopy.org/webclient/?show=image-1915902 Image viewer link: https://idr.openmicroscopy.org/webclient/img_detail/1915902/ Thumbnail URL: https://idr.openmicroscopy.org/webclient/render_thumbnail/1915902/ Annotations: [[u'Cell Line', u'HeLa']] [[u'Gene Identifier', u'991'], [u'Gene Identifier URL', u'http://www.ncbi.nlm.nih.gov/gene/991'], [u'Gene Symbol', u'CDC20']] [[u'RefSeq Accession', u'NM_001255'], [u'RefSeq Accession URL', u'http://www.ncbi.nlm.nih.gov/nuccore/NM_001255'], [u'RefSeq GI Number', u'4557436']] [[u'Organism', u'Homo sapiens']] [[u'siRNA Pool Identifier', u'L-003225-00'], [u'siRNA Identifier', u'']] [[u'siRNA Sequences', u'CGGAAGACCUGCCGUUACA;GGGCCGAACUCCUGGCAAA;GAUCAAAGAGGGCAACUAC;CAGAACAGACUGAAAGUAC']] [[u'shRNA', u'non-silencing shRNA'], [u'Channels', u'Hoescht: nuclei;Anti-Ser10 PhosphoHistone H3: mitotic nuclei;Anti-alpha-tubulin: microtubules;RFP: whole cell']]