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 Rv1302/rfe:

update plot	correlation	link to info on gene
Rv0110/-	(cc=0.4599)	info on Rv0110/-
Rv0877/-	(cc=0.4526)	info on Rv0877/-
Rv0047c/-	(cc=0.444)	info on Rv0047c/-
Rv0158/-	(cc=0.4328)	info on Rv0158/-
Rv2957/-	(cc=0.4311)	info on Rv2957/-
Rv0182c/sigG	(cc=0.4139)	info on Rv0182c/sigG
Rv1072/-	(cc=0.407)	info on Rv1072/-
Rv2617c/-	(cc=0.4012)	info on Rv2617c/-
Rv3853/rraA	(cc=0.3996)	info on Rv3853/rraA
Rv2079/-	(cc=0.3978)	info on Rv2079/-

Correlation of Rv1302/rfe with Rv0877/-

Normalized LFCs for Rv1302/rfe:
(description and provenance of datasets)

	Rv1302/rfe	Rv0877/-
Fe_supp_jason_reseq	1.437	-1.639
low_pH_jason_reseq	0.465	0.724
NO_jason_reseq	1.173	3.305
B6_jason_reseq	0.957	1.22
MHCII_jason_reseq	-0.309	-2.252
Isoniazid02	0.453	5.11
Rifampicin4	-0.192	0.566
Ethambutol3	0.732	1.454
Meropenem3	0.502	1.624
Vancomycin16	0.18	-0.239
Rv2680_day32	1.779	1.68
H37Rv_KO_MarP	-0.766	-1.421
hypoxia_3wks	-0.14	0.79
hypoxia_6wks	-0.146	3.067
glycerol	-0.054	-1.593
cholesterol	-1.01	-1.617
AJ	0.674	-0.034
Bibs02	-0.968	-1.644
Bibs02c	-0.268	-1.478
BL6	-1.086	1.26
BL6a	0.154	0.319
BXD01	0.737	2.472
BXD010	0.115	1.577
BXD011	0.931	2.37
BXD03	-0.444	0.932
BXD04	0.228	2.958
BXD05	0.201	1.299
BXD06	0.786	2.021
BXD07	0.285	1.091
BXD08	1.099	2.432
BXD09	0.88	1.504
CAST	1.525	1.119
CCcont	-0.791	-0.938
DS01	-0.527	-0.753
DS02	-0.09	0.744
DS04	-0.672	0.35
DS0c	-0.671	-1.092
GP01	1.155	-0.222
GP02	0.603	1.341
GP0c	0.907	0.237
NOD	0.952	0.335
NZO	0.053	0.926
PWK	0.026	2.786
H37Rv_KO_CtpC	1.292	2.358
H37Rv_KO_CtpD	1.526	0.373
H37Rv_KO_Rv1272	0.598	0.206
H37Rv_KO_SugABC	0.171	0.442
H37Rv_KO_MbtN	1.816	1.093
Trans05	0.611	1.163
macrophage_unactivated	-0.069	-2.43
IL1	-0.332	0.264
Rapamycin	-1.295	-1.108
Tcell	0.404	0.6
GMCSF	-0.615	-0.708
IFNab	-0.704	-1.784
IFNg	0.168	0.345
IFNg_GMCSF1	-0.654	0.085
Rv1432_day32	0.305	1.226
Rv1565c_day32	-0.294	-2.51
secA2_input	1.169	-0.238
delta_Rv3594	-0.369	-1.713
delta_Rv3717	-0.5	0.111
delta_Rv3811	-0.407	-2.104
delta_Rv0954	-0.934	-1.55
PonA1	-0.082	-1.43
EccD1_KO	-0.082	-0.493
EspI_KO	0.761	-0.325
PE35_KO	0.07	-1.642
PPE68_KO	0.586	-1.417
glycerol2	0.838	0.035
lignocerate	0.175	-0.843
oleate	1.191	2.003
phosphatidylcholine	0.957	-0.332
acetate	-0.032	-0.14
glucAc	-0.039	-0.315
Rv0950ko	1.185	-0.018
Rv1096ko	0.492	0.199
Rv3684ko	1.844	1.064
delta_otsA_trehalose	-0.662	-0.393