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 Rv3111/moaC1:

update plot	correlation	link to info on gene
Rv2780/ald	(cc=0.4775)	info on Rv2780/ald
Rv2293c/-	(cc=0.4626)	info on Rv2293c/-
Rv0659c/mazF2	(cc=0.4224)	info on Rv0659c/mazF2
Rv2282c/-	(cc=0.4206)	info on Rv2282c/-
Rv1135A/-	(cc=0.412)	info on Rv1135A/-
Rv2888c/amiC	(cc=0.405)	info on Rv2888c/amiC
Rv2435c/-	(cc=0.4005)	info on Rv2435c/-
Rv2653c/-	(cc=0.3857)	info on Rv2653c/-
Rv0141c/-	(cc=0.3793)	info on Rv0141c/-
Rv1938/ephB	(cc=0.3635)	info on Rv1938/ephB

Correlation of Rv3111/moaC1 with Rv2888c/amiC

Normalized LFCs for Rv3111/moaC1:
(description and provenance of datasets)

	Rv3111/moaC1	Rv2888c/amiC
Fe_supp_jason_reseq	0.838	-0.218
low_pH_jason_reseq	0.206	-0.112
NO_jason_reseq	0.69	0.331
B6_jason_reseq	0.999	0.444
MHCII_jason_reseq	0.561	-0.25
Isoniazid02	-0.02	-0.013
Rifampicin4	-0.119	0.582
Ethambutol3	-0.165	1.015
Meropenem3	1.355	0.497
Vancomycin16	3.398	0.403
Rv2680_day32	-0.225	0.303
H37Rv_KO_MarP	-0.848	0.137
hypoxia_3wks	0.494	-0.251
hypoxia_6wks	1.493	-0.033
glycerol	-0.992	0.285
cholesterol	-0.674	0.045
AJ	-0.039	-0.242
Bibs02	1.103	0.356
Bibs02c	0.132	0.188
BL6	-0.151	0.142
BL6a	0.818	0.386
BXD01	0.142	0.027
BXD010	0.348	0.151
BXD011	0.424	0.281
BXD03	-0.164	0.24
BXD04	-0.674	-0.151
BXD05	-0.265	0.115
BXD06	0.0	0.207
BXD07	-0.386	0.445
BXD08	-0.066	0.271
BXD09	0.611	0.179
CAST	1.368	0.622
CCcont	-0.55	-0.217
DS01	-0.465	0.356
DS02	-0.654	0.517
DS04	1.358	0.725
DS0c	0.0	0.297
GP01	-0.175	-0.325
GP02	-1.205	-0.298
GP0c	-0.673	-0.099
NOD	1.048	0.034
NZO	0.517	0.432
PWK	-0.237	0.081
H37Rv_KO_CtpC	1.067	0.154
H37Rv_KO_CtpD	-0.042	0.214
H37Rv_KO_Rv1272	0.672	-0.139
H37Rv_KO_SugABC	0.677	0.689
H37Rv_KO_MbtN	-0.379	0.205
Trans05	-0.284	-0.42
macrophage_unactivated	3.295	-0.117
IL1	-0.561	0.142
Rapamycin	-0.43	-0.018
Tcell	0.609	-0.205
GMCSF	-0.636	-0.288
IFNab	-0.423	0.393
IFNg	0.396	0.083
IFNg_GMCSF1	0.996	0.782
Rv1432_day32	0.4	0.527
Rv1565c_day32	0.85	0.551
secA2_input	-1.713	-0.988
delta_Rv3594	0.274	0.48
delta_Rv3717	-0.106	0.493
delta_Rv3811	-0.303	-0.03
delta_Rv0954	-0.525	-0.066
PonA1	-0.031	0.409
EccD1_KO	0.536	0.141
EspI_KO	0.884	0.302
PE35_KO	0.971	0.309
PPE68_KO	1.683	0.307
glycerol2	-0.067	-0.128
lignocerate	-0.675	-0.241
oleate	0.632	0.085
phosphatidylcholine	0.087	0.097
acetate	-1.207	-0.575
glucAc	-1.655	-0.163
Rv0950ko	-0.727	-0.32
Rv1096ko	-1.071	-0.32
Rv3684ko	-1.163	-0.593
delta_otsA_trehalose	0.068	0.688