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 Rv0138/-:

update plot	correlation	link to info on gene
Rv3784/-	(cc=0.601)	info on Rv3784/-
Rv3440c/-	(cc=0.519)	info on Rv3440c/-
Rv0454/-	(cc=0.4943)	info on Rv0454/-
Rv3585/radA	(cc=0.4742)	info on Rv3585/radA
Rv3879c/espK	(cc=0.4715)	info on Rv3879c/espK
Rv3018c/PPE46	(cc=0.4683)	info on Rv3018c/PPE46
Rv1319c/-	(cc=0.4546)	info on Rv1319c/-
Rv1249c/-	(cc=0.4538)	info on Rv1249c/-
Rv3729/-	(cc=0.4481)	info on Rv3729/-
Rv3339c/icd1	(cc=0.4473)	info on Rv3339c/icd1

Correlation of Rv0138/- with Rv3879c/espK

Normalized LFCs for Rv0138/-:
(description and provenance of datasets)

	Rv0138/-	Rv3879c/espK
Fe_supp_jason_reseq	-0.759	-0.15
low_pH_jason_reseq	-0.778	-0.5
NO_jason_reseq	-0.131	-1.488
B6_jason_reseq	-0.133	0.2
MHCII_jason_reseq	-0.222	0.537
Isoniazid02	1.099	0.361
Rifampicin4	-0.398	-0.106
Ethambutol3	2.393	1.847
Meropenem3	0.652	-0.145
Vancomycin16	-0.096	-0.016
Rv2680_day32	1.396	0.156
H37Rv_KO_MarP	0.306	0.779
hypoxia_3wks	0.187	-0.227
hypoxia_6wks	0.236	-0.57
glycerol	0.767	0.844
cholesterol	0.272	0.299
AJ	0.635	-0.257
Bibs02	0.045	0.162
Bibs02c	0.499	0.417
BL6	-0.08	0.411
BL6a	0.346	0.184
BXD01	0.259	0.245
BXD010	-0.77	0.255
BXD011	0.054	-0.011
BXD03	0.329	0.269
BXD04	-0.094	0.362
BXD05	0.052	-0.117
BXD06	-0.024	0.057
BXD07	0.196	0.018
BXD08	-0.231	0.367
BXD09	-0.547	-0.076
CAST	0.627	-0.03
CCcont	0.037	0.253
DS01	-0.139	1.663
DS02	-0.274	0.183
DS04	0.364	1.062
DS0c	0.009	0.728
GP01	-0.302	0.489
GP02	0.915	0.796
GP0c	0.219	0.381
NOD	-0.116	-0.02
NZO	0.386	-0.026
PWK	0.22	0.068
H37Rv_KO_CtpC	0.305	0.035
H37Rv_KO_CtpD	1.534	0.875
H37Rv_KO_Rv1272	0.13	0.255
H37Rv_KO_SugABC	0.987	0.168
H37Rv_KO_MbtN	0.582	0.302
Trans05	0.136	0.361
macrophage_unactivated	0.846	0.167
IL1	-0.442	-0.311
Rapamycin	0.322	-0.565
Tcell	-0.44	-0.365
GMCSF	-0.143	-0.327
IFNab	-0.759	-0.417
IFNg	0.043	-0.601
IFNg_GMCSF1	0.459	-0.537
Rv1432_day32	0.67	0.549
Rv1565c_day32	-0.924	-0.447
secA2_input	-0.348	0.8
delta_Rv3594	-0.791	0.0
delta_Rv3717	-0.395	-0.61
delta_Rv3811	-0.714	-0.178
delta_Rv0954	-1.23	-0.149
PonA1	-0.491	-0.774
EccD1_KO	0.089	0.339
EspI_KO	-0.391	-0.265
PE35_KO	0.07	-0.452
PPE68_KO	-0.243	-0.397
glycerol2	0.647	0.933
lignocerate	0.549	0.717
oleate	0.275	1.059
phosphatidylcholine	0.37	0.854
acetate	0.291	-0.063
glucAc	0.318	0.987
Rv0950ko	-0.039	-0.223
Rv1096ko	-0.196	-0.866
Rv3684ko	0.17	-0.242
delta_otsA_trehalose	-0.057	-0.068