TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1424c/-:

update plot	correlation	link to info on gene
Rv2083/-	(cc=0.5161)	info on Rv2083/-
Rv0011c/-	(cc=0.5133)	info on Rv0011c/-
Rv2136c/-	(cc=0.5107)	info on Rv2136c/-
Rv3475/-	(cc=0.4888)	info on Rv3475/-
Rv3022A/PE29	(cc=0.4808)	info on Rv3022A/PE29
Rv2355/-	(cc=0.4798)	info on Rv2355/-
Rv2270/lppN	(cc=0.4734)	info on Rv2270/lppN
Rv1554/frdC	(cc=0.4731)	info on Rv1554/frdC
Rv1984c/cfp21	(cc=0.4666)	info on Rv1984c/cfp21
Rv2649/-	(cc=0.4647)	info on Rv2649/-

Correlation of Rv1424c/- with Rv1554/frdC

Normalized LFCs for Rv1424c/-:
(description and provenance of datasets)

	Rv1424c/-	Rv1554/frdC
Fe_supp_jason_reseq	0.554	-0.125
low_pH_jason_reseq	0.035	0.497
NO_jason_reseq	0.108	-0.333
B6_jason_reseq	0.256	1.17
MHCII_jason_reseq	0.154	0.359
Isoniazid02	0.226	0.054
Rifampicin4	0.726	0.328
Ethambutol3	0.039	0.139
Meropenem3	0.255	-0.158
Vancomycin16	0.602	-0.244
Rv2680_day32	-0.576	0.035
H37Rv_KO_MarP	-0.044	0.377
hypoxia_3wks	-0.722	0.977
hypoxia_6wks	0.777	1.472
glycerol	-0.434	0.187
cholesterol	-0.054	0.847
AJ	0.413	-0.071
Bibs02	0.128	0.522
Bibs02c	0.373	0.5
BL6	-0.111	-0.352
BL6a	0.528	0.643
BXD01	-0.36	0.13
BXD010	0.594	0.88
BXD011	0.784	0.297
BXD03	-0.231	-0.195
BXD04	0.073	0.212
BXD05	0.281	0.648
BXD06	0.168	0.271
BXD07	-0.051	0.442
BXD08	0.574	1.1
BXD09	0.375	0.546
CAST	0.055	0.0
CCcont	-0.389	-0.376
DS01	0.084	0.977
DS02	-0.027	0.682
DS04	0.915	0.308
DS0c	0.883	0.908
GP01	0.641	0.888
GP02	1.001	0.49
GP0c	0.672	-0.328
NOD	0.054	0.099
NZO	0.532	0.733
PWK	0.31	0.571
H37Rv_KO_CtpC	0.753	0.173
H37Rv_KO_CtpD	0.728	1.074
H37Rv_KO_Rv1272	1.669	0.957
H37Rv_KO_SugABC	1.084	0.243
H37Rv_KO_MbtN	0.682	0.13
Trans05	0.714	1.146
macrophage_unactivated	0.0	0.758
IL1	-0.629	0.534
Rapamycin	0.531	0.552
Tcell	-0.355	0.274
GMCSF	0.169	0.246
IFNab	-0.46	0.378
IFNg	1.066	0.5
IFNg_GMCSF1	0.0	0.729
Rv1432_day32	1.701	0.789
Rv1565c_day32	0.782	0.809
secA2_input	1.071	-1.088
delta_Rv3594	0.408	0.837
delta_Rv3717	0.239	0.59
delta_Rv3811	0.253	-0.042
delta_Rv0954	0.27	0.372
PonA1	0.173	0.182
EccD1_KO	0.395	1.95
EspI_KO	1.184	0.625
PE35_KO	1.345	1.301
PPE68_KO	1.123	0.966
glycerol2	-0.789	-0.343
lignocerate	-0.66	-0.446
oleate	-0.196	-0.121
phosphatidylcholine	-0.508	-0.381
acetate	-1.122	-0.56
glucAc	-0.931	-0.739
Rv0950ko	-0.703	0.256
Rv1096ko	-0.703	-0.799
Rv3684ko	-0.963	-0.982
delta_otsA_trehalose	-0.303	0.076