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 Rv3788/-:

update plot	correlation	link to info on gene
Rv0303/-	(cc=0.4881)	info on Rv0303/-
Rv0071/-	(cc=0.4765)	info on Rv0071/-
Rv0484c/-	(cc=0.4679)	info on Rv0484c/-
Rv1761c/-	(cc=0.428)	info on Rv1761c/-
Rv2636/-	(cc=0.4229)	info on Rv2636/-
Rv0724A/-	(cc=0.3979)	info on Rv0724A/-
Rv0918/-	(cc=0.3973)	info on Rv0918/-
Rv0483/lprQ	(cc=0.3962)	info on Rv0483/lprQ
Rv0445c/sigK	(cc=0.396)	info on Rv0445c/sigK
Rv0592/mce2D	(cc=0.3959)	info on Rv0592/mce2D

Correlation of Rv3788/- with Rv0071/-

Normalized LFCs for Rv3788/-:
(description and provenance of datasets)

	Rv3788/-	Rv0071/-
Fe_supp_jason_reseq	-0.401	0.624
low_pH_jason_reseq	-0.823	-0.139
NO_jason_reseq	-0.685	0.517
B6_jason_reseq	-1.016	1.764
MHCII_jason_reseq	0.244	1.675
Isoniazid02	0.227	0.073
Rifampicin4	-0.439	0.75
Ethambutol3	0.056	1.131
Meropenem3	-0.158	0.694
Vancomycin16	-1.451	0.218
Rv2680_day32	-0.326	1.537
H37Rv_KO_MarP	0.111	0.059
hypoxia_3wks	-0.259	-0.152
hypoxia_6wks	-0.263	-0.182
glycerol	0.81	1.16
cholesterol	0.463	1.207
AJ	0.898	-0.504
Bibs02	0.069	0.474
Bibs02c	0.17	0.887
BL6	0.246	0.441
BL6a	-0.839	-0.265
BXD01	-0.732	-0.919
BXD010	-0.592	-0.781
BXD011	-0.781	-0.745
BXD03	-0.992	-1.044
BXD04	-0.7	-0.664
BXD05	-0.088	-0.091
BXD06	-0.275	-0.636
BXD07	-0.627	-0.722
BXD08	-0.877	-0.8
BXD09	-0.579	-0.69
CAST	0.35	0.235
CCcont	-0.215	-0.342
DS01	-0.051	0.301
DS02	0.573	0.767
DS04	-0.625	0.51
DS0c	-0.02	-0.093
GP01	-0.665	-2.601
GP02	-1.084	-2.703
GP0c	-0.608	-1.661
NOD	1.378	1.694
NZO	0.676	0.027
PWK	0.318	0.443
H37Rv_KO_CtpC	0.737	0.0
H37Rv_KO_CtpD	0.672	0.247
H37Rv_KO_Rv1272	-1.091	-0.757
H37Rv_KO_SugABC	-2.448	-0.655
H37Rv_KO_MbtN	-0.968	-0.546
Trans05	-0.334	-0.911
macrophage_unactivated	-0.685	0.085
IL1	-0.314	0.181
Rapamycin	-0.126	0.779
Tcell	-0.925	-0.088
GMCSF	-0.415	0.671
IFNab	-0.381	-0.366
IFNg	0.0	-0.171
IFNg_GMCSF1	-0.952	0.776
Rv1432_day32	0.738	0.426
Rv1565c_day32	-0.472	1.978
secA2_input	1.594	1.85
delta_Rv3594	-0.462	-0.136
delta_Rv3717	-0.344	-0.409
delta_Rv3811	-0.143	-0.201
delta_Rv0954	-0.836	0.828
PonA1	0.507	0.177
EccD1_KO	-0.888	-1.727
EspI_KO	-1.124	-1.931
PE35_KO	-0.613	-1.248
PPE68_KO	-1.357	-1.017
glycerol2	-0.2	0.422
lignocerate	0.186	0.559
oleate	0.02	-0.903
phosphatidylcholine	0.253	0.172
acetate	-0.575	0.321
glucAc	-0.549	0.587
Rv0950ko	0.516	0.066
Rv1096ko	-0.241	0.709
Rv3684ko	-0.452	-0.072
delta_otsA_trehalose	0.734	1.156