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 Rv1888c/-:

update plot	correlation	link to info on gene
Rv3738c/PPE66	(cc=0.5613)	info on Rv3738c/PPE66
Rv0194/-	(cc=0.536)	info on Rv0194/-
Rv3740c/-	(cc=0.481)	info on Rv3740c/-
Rv1013/pks16	(cc=0.4725)	info on Rv1013/pks16
Rv2789c/fadE21	(cc=0.4674)	info on Rv2789c/fadE21
Rv3823c/mmpL8	(cc=0.4646)	info on Rv3823c/mmpL8
Rv3780/-	(cc=0.4598)	info on Rv3780/-
Rv2151c/ftsQ	(cc=0.4569)	info on Rv2151c/ftsQ
Rv1981c/nrdF1	(cc=0.4555)	info on Rv1981c/nrdF1
Rv2390c/-	(cc=0.45)	info on Rv2390c/-

Correlation of Rv1888c/- with Rv2390c/-

Normalized LFCs for Rv1888c/-:
(description and provenance of datasets)

	Rv1888c/-	Rv2390c/-
Fe_supp_jason_reseq	0.489	0.204
low_pH_jason_reseq	-0.756	-0.433
NO_jason_reseq	0.016	0.27
B6_jason_reseq	-0.92	-0.542
MHCII_jason_reseq	-0.144	-0.671
Isoniazid02	-0.562	-1.177
Rifampicin4	-0.544	0.506
Ethambutol3	-0.328	-1.234
Meropenem3	-1.072	-1.096
Vancomycin16	-0.424	-0.891
Rv2680_day32	0.996	0.664
H37Rv_KO_MarP	0.73	0.093
hypoxia_3wks	-0.072	-0.068
hypoxia_6wks	-0.449	0.255
glycerol	-0.884	-0.123
cholesterol	-0.623	-0.102
AJ	-0.583	-0.765
Bibs02	-0.31	0.601
Bibs02c	-0.332	-0.788
BL6	0.253	1.199
BL6a	0.154	0.419
BXD01	0.154	0.711
BXD010	0.045	0.714
BXD011	0.482	1.144
BXD03	-0.043	0.824
BXD04	0.039	0.942
BXD05	-0.067	0.753
BXD06	0.109	0.6
BXD07	0.186	0.825
BXD08	-0.171	0.766
BXD09	0.221	0.867
CAST	-0.769	0.389
CCcont	0.103	0.531
DS01	-0.351	-0.484
DS02	-0.181	-0.147
DS04	0.214	-0.017
DS0c	0.556	-0.082
GP01	0.31	1.229
GP02	1.113	1.336
GP0c	0.133	0.79
NOD	-0.133	-0.469
NZO	-0.691	0.318
PWK	-0.271	0.337
H37Rv_KO_CtpC	-0.105	0.306
H37Rv_KO_CtpD	0.7	1.358
H37Rv_KO_Rv1272	-0.471	1.097
H37Rv_KO_SugABC	0.097	1.031
H37Rv_KO_MbtN	0.31	0.291
Trans05	-0.545	0.841
macrophage_unactivated	0.701	0.073
IL1	-0.294	0.825
Rapamycin	-0.285	0.899
Tcell	-0.098	-0.368
GMCSF	-0.364	0.488
IFNab	-0.32	-0.039
IFNg	-0.494	0.759
IFNg_GMCSF1	-0.625	0.804
Rv1432_day32	0.532	0.185
Rv1565c_day32	-0.158	0.622
secA2_input	-0.269	-0.258
delta_Rv3594	-0.324	0.101
delta_Rv3717	-0.084	0.058
delta_Rv3811	-0.349	-0.448
delta_Rv0954	0.393	0.391
PonA1	0.017	0.641
EccD1_KO	-0.391	-0.95
EspI_KO	-0.596	-0.117
PE35_KO	-0.362	-1.114
PPE68_KO	-0.346	-0.873
glycerol2	0.722	0.258
lignocerate	0.522	1.139
oleate	0.751	0.383
phosphatidylcholine	0.829	1.062
acetate	0.588	0.178
glucAc	0.241	0.666
Rv0950ko	0.473	1.179
Rv1096ko	-0.232	0.329
Rv3684ko	-0.252	0.187
delta_otsA_trehalose	-1.003	0.697