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 Rv0365c/-:

update plot	correlation	link to info on gene
Rv3138/pflA	(cc=0.4881)	info on Rv3138/pflA
Rv3675/-	(cc=0.4735)	info on Rv3675/-
Rv0145/-	(cc=0.468)	info on Rv0145/-
Rv0971c/echA7	(cc=0.4593)	info on Rv0971c/echA7
Rv1981c/nrdF1	(cc=0.4332)	info on Rv1981c/nrdF1
Rv3008/-	(cc=0.4268)	info on Rv3008/-
Rv2390c/-	(cc=0.4256)	info on Rv2390c/-
Rv2891/-	(cc=0.4252)	info on Rv2891/-
Rv0874c/-	(cc=0.4176)	info on Rv0874c/-
Rv0897c/-	(cc=0.4155)	info on Rv0897c/-

Correlation of Rv0365c/- with Rv3675/-

Normalized LFCs for Rv0365c/-:
(description and provenance of datasets)

	Rv0365c/-	Rv3675/-
Fe_supp_jason_reseq	-0.158	0.802
low_pH_jason_reseq	-0.793	-1.7
NO_jason_reseq	0.339	0.743
B6_jason_reseq	-0.393	-0.368
MHCII_jason_reseq	-0.159	0.12
Isoniazid02	0.042	0.37
Rifampicin4	0.436	-1.432
Ethambutol3	0.306	1.859
Meropenem3	-0.999	-0.842
Vancomycin16	-0.358	-0.578
Rv2680_day32	0.061	-1.557
H37Rv_KO_MarP	-0.095	0.919
hypoxia_3wks	-0.494	-1.424
hypoxia_6wks	-1.038	-1.201
glycerol	0.844	0.66
cholesterol	0.129	-0.749
AJ	-0.254	0.071
Bibs02	0.234	-0.215
Bibs02c	0.338	-0.54
BL6	0.314	0.578
BL6a	0.176	0.794
BXD01	0.361	0.865
BXD010	0.344	1.314
BXD011	2.593	0.573
BXD03	0.441	0.839
BXD04	-0.383	0.918
BXD05	0.523	1.307
BXD06	0.278	1.145
BXD07	0.418	0.924
BXD08	0.202	1.04
BXD09	-0.188	0.715
CAST	0.182	0.612
CCcont	0.283	1.172
DS01	0.175	1.138
DS02	1.093	1.459
DS04	0.114	-0.339
DS0c	0.149	0.347
GP01	0.842	0.881
GP02	0.915	1.938
GP0c	0.377	0.888
NOD	-0.288	0.672
NZO	-0.045	0.597
PWK	0.271	1.353
H37Rv_KO_CtpC	0.044	-0.168
H37Rv_KO_CtpD	0.511	0.061
H37Rv_KO_Rv1272	0.097	0.375
H37Rv_KO_SugABC	0.742	0.469
H37Rv_KO_MbtN	0.381	0.327
Trans05	-0.143	-0.307
macrophage_unactivated	0.297	1.209
IL1	0.338	0.765
Rapamycin	0.657	-0.267
Tcell	0.212	0.57
GMCSF	0.581	0.573
IFNab	0.608	0.23
IFNg	0.468	1.251
IFNg_GMCSF1	0.273	0.666
Rv1432_day32	-0.103	0.164
Rv1565c_day32	-0.377	-0.452
secA2_input	0.155	-0.218
delta_Rv3594	-0.497	-0.515
delta_Rv3717	-0.653	-0.541
delta_Rv3811	-0.228	0.058
delta_Rv0954	-0.411	0.154
PonA1	0.22	1.21
EccD1_KO	0.342	-0.605
EspI_KO	-0.268	-0.867
PE35_KO	-0.292	0.058
PPE68_KO	-0.378	-0.662
glycerol2	-0.087	0.545
lignocerate	0.287	0.656
oleate	0.102	0.176
phosphatidylcholine	0.146	0.641
acetate	0.012	-0.17
glucAc	0.133	-0.329
Rv0950ko	0.657	0.579
Rv1096ko	0.262	0.317
Rv3684ko	0.134	0.383
delta_otsA_trehalose	-0.284	1.136